2023-09-25T16:48:39,792 Created temporary directory: /tmp/pip-build-tracker-mb9mc3mr
2023-09-25T16:48:39,793 Initialized build tracking at /tmp/pip-build-tracker-mb9mc3mr
2023-09-25T16:48:39,794 Created build tracker: /tmp/pip-build-tracker-mb9mc3mr
2023-09-25T16:48:39,794 Entered build tracker: /tmp/pip-build-tracker-mb9mc3mr
2023-09-25T16:48:39,795 Created temporary directory: /tmp/pip-wheel-3m5uflnx
2023-09-25T16:48:39,798 Created temporary directory: /tmp/pip-ephem-wheel-cache-mt3607_o
2023-09-25T16:48:39,822 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-25T16:48:39,826 2 location(s) to search for versions of janis-pipelines-core:
2023-09-25T16:48:39,826 * https://pypi.org/simple/janis-pipelines-core/
2023-09-25T16:48:39,826 * https://www.piwheels.org/simple/janis-pipelines-core/
2023-09-25T16:48:39,827 Fetching project page and analyzing links: https://pypi.org/simple/janis-pipelines-core/
2023-09-25T16:48:39,828 Getting page https://pypi.org/simple/janis-pipelines-core/
2023-09-25T16:48:39,829 Found index url https://pypi.org/simple/
2023-09-25T16:48:40,126 Fetched page https://pypi.org/simple/janis-pipelines-core/ as application/vnd.pypi.simple.v1+json
2023-09-25T16:48:40,158   Found link https://files.pythonhosted.org/packages/54/55/8a09214440d1a63a7c09690703eb4e6b9528caf4d68b25bebe76f9c2acb9/janis-pipelines.core-0.4.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.4.0
2023-09-25T16:48:40,159   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/0e/c9/f235b323c8a0b58c9a38a41d219263e1195eede86c3031ffc164ceaceba7/janis_pipelines.core-0.4.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,160   Found link https://files.pythonhosted.org/packages/b7/7e/25bf831cd90512c325649016921ad6748a4b4c760d4c6cbc1c82a298d1aa/janis-pipelines.core-0.4.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.4.1
2023-09-25T16:48:40,161   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/ef/6f/a90dba89bd443137e51cff0f3a0e76b80d35aa0ed64bc872b4faac9179ab/janis_pipelines.core-0.4.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,162   Found link https://files.pythonhosted.org/packages/ee/ab/c2a3ac77d57776e6b7ae7e1fd3141076a00bd1ec8379e15a9eb8733960bc/janis-pipelines.core-0.5.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.0
2023-09-25T16:48:40,163   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/3d/d0/044180ad0c9b7accffe64978a00e5c215abeca2069da2b999641705d6575/janis_pipelines.core-0.5.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,164   Found link https://files.pythonhosted.org/packages/f7/02/52f8f71b526089bfedfe4213be018db61cbee748cefd9322617a4fe873a4/janis-pipelines.core-0.5.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.1
2023-09-25T16:48:40,165   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/5e/4e/9c7bd08b3b3b33ff9a610ae8bf4c80e89e417f5d1ec15193ee655e471699/janis_pipelines.core-0.5.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,166   Found link https://files.pythonhosted.org/packages/0b/95/5695f5965d392f448c766d49da84f02d2f1676ec641488092be3cfc2a0e4/janis-pipelines.core-0.5.2.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.2
2023-09-25T16:48:40,167   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/2b/97/05bd5c6b3e53557d8806fef4532d32c694faf57718a71e0bdd514b825907/janis_pipelines.core-0.5.2-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,168   Found link https://files.pythonhosted.org/packages/e2/45/2340b6762763e3fe3b04f8d6022a3188161dd0b7b485deb2dbea6a265314/janis-pipelines.core-0.5.3.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.3
2023-09-25T16:48:40,169   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/d6/7a/6a989e4bc1a5f0170f8363e2ca67626af2dc9689196de3a0a9d1f73ded9c/janis_pipelines.core-0.5.3-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,170   Found link https://files.pythonhosted.org/packages/6c/54/f9bc72f974543c408da71804b63d8ddb1c6bdc98d4a2272be196903b1c41/janis-pipelines.core-0.5.4.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.4
2023-09-25T16:48:40,171   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/5e/dd/2aa0b1dcd285c331b5bc15e846bd94e75fbd8809ba8c4d74f1f33a3d5a6f/janis_pipelines.core-0.5.4-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,171   Found link https://files.pythonhosted.org/packages/e0/80/f98066843b065efeca24be84f88a57fa8df29eef629ae512184d3b14a542/janis-pipelines.core-0.5.5.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.5
2023-09-25T16:48:40,172   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/73/05/f5c823b42dc0f0262bc4fbee9087946062a3f14be7bffdfde80251b3a62c/janis_pipelines.core-0.5.5-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,173   Found link https://files.pythonhosted.org/packages/c5/4a/89b3873549ae86d532e201959b3ce8a52836a5d76649116349a20a513e61/janis-pipelines.core-0.5.6.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.5.6
2023-09-25T16:48:40,174   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/6f/44/46af6690268915cdc7dd3101101a819c70b7c08e57a583fc2d595eed1ced/janis_pipelines.core-0.5.6-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,174   Found link https://files.pythonhosted.org/packages/5f/03/c1187609b0ea0bbd0eb4e0d6aab518f6a4f3d5614f77ff8846d6031af3be/janis-pipelines.core-0.6.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.6.0
2023-09-25T16:48:40,175   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/51/97/d49e95b0a726d269111c55249f594c9249fe887c0976a5db7df49e77cb6c/janis_pipelines.core-0.6.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,176   Found link https://files.pythonhosted.org/packages/c7/0f/c2bb1d875cff3ba955602b687ffc46b99a1a37c2f06d7ae3ec1a2283d0aa/janis-pipelines.core-0.6.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.6.1
2023-09-25T16:48:40,177   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/2c/08/7b0e85678d114b7da8147851570fe39f7fa6ce4249e04dd4311a0b1ead8c/janis_pipelines.core-0.6.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,178   Found link https://files.pythonhosted.org/packages/2e/c3/fb481f62d09fa776e4bfe2f8808f9a136d1286c305456be1b0244bbcede0/janis-pipelines.core-0.6.2.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.6.2
2023-09-25T16:48:40,179   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/70/ee/8e271d7d1a48ab76d7346c32ba58f90bb84120ddda4bad441d313b7ff832/janis_pipelines.core-0.6.2-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,180   Found link https://files.pythonhosted.org/packages/91/a3/3884270de5cc4d21dac2792893e521814828392aff704070c3eaa45f82a4/janis-pipelines.core-0.7.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.0
2023-09-25T16:48:40,181   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/29/c9/7c9367fee7fb5e62717793d848eae1acea80eef53ec60ffa82a7b4348745/janis_pipelines.core-0.7.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,182   Found link https://files.pythonhosted.org/packages/e0/c5/9992c89f08e3c8564e5208074d3a05f6716f2e2d4bba0ae0bfd5c6095b4e/janis-pipelines.core-0.7.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.1
2023-09-25T16:48:40,183   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/53/f6/51d113ca920422f2a8beb78446c3e16008413997414c898a5366e1be6c0c/janis_pipelines.core-0.7.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,184   Found link https://files.pythonhosted.org/packages/a5/91/7fb275526232d9ddf70bf57a7e3358d68be88ca013df3b870fac4edd03cc/janis-pipelines.core-0.7.2.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.2
2023-09-25T16:48:40,185   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/5c/1b/ad3b8d42c0ca7f1f19e09bb907e6a311a4d5602f19e33720473cc2d2f95c/janis_pipelines.core-0.7.2-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,185   Found link https://files.pythonhosted.org/packages/b3/6f/cde3727692807e2b8cf0b43c454363d4e4ec068ea8838119baad20bf563c/janis-pipelines.core-0.7.3.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.3
2023-09-25T16:48:40,186   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/c4/c4/887a587c3f39baf8794cc4f41a46a1dbd6965a0928bafa72506facc68b26/janis_pipelines.core-0.7.3-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,187   Found link https://files.pythonhosted.org/packages/ea/a3/a40be9546a94272313b2e40ae5a04ca5565edcaffa3105565ef0b918b3d7/janis-pipelines.core-0.7.4.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.4
2023-09-25T16:48:40,188   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/bf/d4/cdf1b14a8b01459d1098f358e24df19d990956e211662f556485eb6ea44a/janis_pipelines.core-0.7.4-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,189   Found link https://files.pythonhosted.org/packages/1d/ad/2b86f21b2aa6366e1460a70cd4ce40df923f3c43e6c5add8adcc93e11a62/janis-pipelines.core-0.7.5.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.5
2023-09-25T16:48:40,189   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/50/77/97adb0f27e5d29d75bd61fe8aa0df62c4074399233efc0eb6c84a04ee21d/janis_pipelines.core-0.7.5-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,190   Found link https://files.pythonhosted.org/packages/eb/5e/d66d2638d96a51205f07ca94b80061e6a9aabd440815a51fbfb286f94b01/janis-pipelines.core-0.7.6.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.6
2023-09-25T16:48:40,191   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/f5/8e/d9d347c81e76b9d09807a60bc9b4f371a2529b8e31c73c357a561da983c1/janis_pipelines.core-0.7.6-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,192   Found link https://files.pythonhosted.org/packages/05/33/cca6349063df36d3cc0c362860480a6db9ecbaaeb6e4a19de00b90fb6679/janis-pipelines.core-0.7.7.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.7
2023-09-25T16:48:40,193   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/da/85/0962c29b6bc6754b3197500c282634b2a2bd9c696c6f3e713ab05a4e538d/janis_pipelines.core-0.7.7-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,194   Found link https://files.pythonhosted.org/packages/c3/cf/8f43849c9c48c6fff6dc936bb34766af87555b49b17dff0791051069ac67/janis-pipelines.core-0.7.8.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.7.8
2023-09-25T16:48:40,195   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/e1/bf/cef0c3e863cb710ce6ecbd4af6f0fa9314659d9332dadcb33dcbe058a931/janis_pipelines.core-0.7.8-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,196   Found link https://files.pythonhosted.org/packages/69/19/a59cdfa047ae88e004046d56da86fa85e01e1d5a2abbfb511808902da11d/janis-pipelines.core-0.8.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.8.0
2023-09-25T16:48:40,197   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/7c/af/dea6ee6378d3d41fdf5315643a18ac6bf86cc6de3c0eceee815a466933a5/janis_pipelines.core-0.8.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,198   Found link https://files.pythonhosted.org/packages/28/f7/b6aef91ab3671cfd3c99e1599ac91920eb192b7c46f15c4d37f2875c14c8/janis-pipelines.core-0.9.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.0
2023-09-25T16:48:40,199   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/67/b4/49a2a7a6deb8b797c5ff7a156298f679ecad1a878ee4db97fbd2db0f3111/janis_pipelines.core-0.9.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,200   Found link https://files.pythonhosted.org/packages/3d/5c/01ac78fa4a0040ed629a383d263eb0d2b0cd729cd671b853c10d03e65f43/janis-pipelines.core-0.9.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.1
2023-09-25T16:48:40,200   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/47/68/fe8e9ee9ce0911acecdcbfe733fa0b13784db3c4f0a41af3e558d97a4293/janis_pipelines.core-0.9.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,201   Found link https://files.pythonhosted.org/packages/2b/9d/2326a4ff9a6e394a352c2fba08aa7eaae1b5f789cd41cc8eefd16fdd3458/janis-pipelines.core-0.9.2.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.2
2023-09-25T16:48:40,202   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/99/d3/d49087c61dfc45d51ae01f4116797165c2de394b7bf0d91b5c2fc64569f4/janis_pipelines.core-0.9.2-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,203   Found link https://files.pythonhosted.org/packages/3f/13/3201ebc27a97b511d258ab931987fbfe77de049c9e1ebdef73162d90d67e/janis-pipelines.core-0.9.3.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.3
2023-09-25T16:48:40,204   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/a2/b9/d7c2738663007ea6048f4912ddab9d7a94431186bed00aadf466dff10ecd/janis_pipelines.core-0.9.3-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,204   Found link https://files.pythonhosted.org/packages/07/5c/1899780b83f38feb32b7fc0fa49490657ede60064f4387dcfbfe76a5d6d3/janis-pipelines.core-0.9.4.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.4
2023-09-25T16:48:40,205   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/f0/c9/55dd0f609f6276102bc17cd51c742be727c2c6ba23d1daea131b9edd5df6/janis_pipelines.core-0.9.4-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,206   Found link https://files.pythonhosted.org/packages/66/7e/4db068dcae3d1dc9aeec732d91f8585e771fb9af3ff231d28abfe3c61a66/janis-pipelines.core-0.9.5.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.5
2023-09-25T16:48:40,207   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/00/26/a5d05eac00f37eaf419fce7b34815133c1663c54192c06b456ae5265ea15/janis_pipelines.core-0.9.5-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,208   Found link https://files.pythonhosted.org/packages/79/d7/a4845d982fd689498f18d7fbe4ed53fea2c9294df0943fd9d7d08caa7037/janis-pipelines.core-0.9.6.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.6
2023-09-25T16:48:40,209   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/b5/4b/f438896235fc027fdd462f1945d479e39676efb858d7cae0e95788cb6cf6/janis_pipelines.core-0.9.6-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,210   Found link https://files.pythonhosted.org/packages/e7/dd/06e6f901ebf9c442f2d426ae18d351fed945c026c84814bf413d91def581/janis-pipelines.core-0.9.7.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.7
2023-09-25T16:48:40,211   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/ca/8a/4d4996b9b2af627a6653e50eb916805823b47602de6ad712393ee5246af9/janis_pipelines.core-0.9.7-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,211   Found link https://files.pythonhosted.org/packages/9d/d4/24c5c1a597b60e0e8d952a4ae8bf843a3c2c406f12874b89ae2ed49b89ae/janis-pipelines.core-0.9.8.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.8
2023-09-25T16:48:40,212   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/7b/db/8857901adba7fd5461e6ca9bd1cd10c6e2c7fdd90ab5c0129125def30453/janis_pipelines.core-0.9.8-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,213   Found link https://files.pythonhosted.org/packages/68/6b/a5d3949ac632f81703ce9b8273f8f24628e49bff649209d1958b54b66248/janis-pipelines.core-0.9.9.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.9
2023-09-25T16:48:40,214   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/ec/a3/a9365c1e375c8aeb958e2f30eb60be188e1d10264b5bd5d2a8e4db719d80/janis_pipelines.core-0.9.9-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,215   Found link https://files.pythonhosted.org/packages/17/11/62d3a7fdd734d6be08d14a2a3ea7ad6ede977b4b0367c76176160fc93b03/janis-pipelines.core-0.9.10.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.10
2023-09-25T16:48:40,215   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/f5/3e/79fb183775ac1a948c6990bdcfc75682eb60f8e791df1e06c176284b8933/janis_pipelines.core-0.9.10-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,216   Found link https://files.pythonhosted.org/packages/7b/17/e1554c0271354e6bc01cd47bbb9001979c9ed2f1aa914d7cb6e711bfd280/janis-pipelines.core-0.9.11.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.11
2023-09-25T16:48:40,217   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/ed/a6/f1b3eb876c6db86e929572ba8fee93c91f95e103e7e5ae384c4464f24041/janis_pipelines.core-0.9.11-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,218   Found link https://files.pythonhosted.org/packages/9c/1a/faa09d9308677adef083357f21de55a74b9f6c51f2c4cd8d0cadac8956b5/janis-pipelines.core-0.9.12.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.12
2023-09-25T16:48:40,219   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/a5/cd/cbd80e98ac2aa734efba2ff40e368f7cdf5f53bd52133b894676b94c9364/janis_pipelines.core-0.9.12-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,220   Found link https://files.pythonhosted.org/packages/17/22/97fe3de8edc47791bed80c54d4d61f932384545298058011d30284f85403/janis-pipelines.core-0.9.16.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.16
2023-09-25T16:48:40,221   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/10/4b/7412079b9d09d90f0b3abf3110182d0e51d8845141d6f8cf8711e63fb04a/janis_pipelines.core-0.9.16-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,222   Found link https://files.pythonhosted.org/packages/df/55/16b6ba9d2b0dffdcb3237bc093adb7a76d1c10f1f314d3f3e9c69425d438/janis-pipelines.core-0.9.17.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.17
2023-09-25T16:48:40,223   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/81/08/eaea9c781273ef961066cb164185e7a46bc10d58f7db034ec4884b4d95e3/janis_pipelines.core-0.9.17-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,224   Found link https://files.pythonhosted.org/packages/88/c3/d9f4547ac5ac6aeb373d92613307aed8c658ced4423febd9c6908373d3f6/janis-pipelines.core-0.9.18.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.18
2023-09-25T16:48:40,224   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/f9/37/07d27462a1449eaa9cfd350fd18042eeb047b227ae448856fce0982097c8/janis_pipelines.core-0.9.18-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,225   Found link https://files.pythonhosted.org/packages/fa/67/5946de247a6ac3f23f9569e27d7a192b10fddd3ccda48b6c9a2a55d51774/janis-pipelines.core-0.9.19.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.19
2023-09-25T16:48:40,226   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/4e/79/6f5aaf88aa63a22fe042ae273a5376e403431536ae0043d7dd70eb0b4dab/janis_pipelines.core-0.9.19-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,227   Found link https://files.pythonhosted.org/packages/31/00/7a3a4292de5dc460410204f9c4007d71d2e79ef9d56aabc55ae9a8923131/janis-pipelines.core-0.9.20.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.20
2023-09-25T16:48:40,227   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/29/4f/3f0123c50c5c2283c5952c64c1a5ffd778b0b719695d311638fb94c5de0e/janis_pipelines.core-0.9.20-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,228   Found link https://files.pythonhosted.org/packages/b4/9c/0e19dc99c59733a18f031397bf79a4d362f8330b30a0e1cba410ac3af7af/janis-pipelines.core-0.9.21.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.21
2023-09-25T16:48:40,229   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/87/07/27427e785ab22f2ba3cd6d73128c2f3710ad4bf6b9339b915fbb228ea427/janis_pipelines.core-0.9.21-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,230   Found link https://files.pythonhosted.org/packages/0c/fc/84246f781d1799b2174114af5838764abf7d63a5c0873b91337dbc1c10a4/janis-pipelines.core-0.9.22.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.9.22
2023-09-25T16:48:40,231   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/23/f5/656de5e73c1942e7fad6e2f2d05d8f7696939ec90fc250c93c53804fdf4b/janis_pipelines.core-0.9.22-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,232   Found link https://files.pythonhosted.org/packages/e4/3a/a6d22946a0e290cf5534849eedf42c18c7b8bc4eb6f019f60a766dd194c1/janis-pipelines.core-0.10.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.0
2023-09-25T16:48:40,233   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/7c/0e/7eb9fc0bda020dd2f70c5a92a09d913a08324b0d04b72b145377d655d2c8/janis_pipelines.core-0.10.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,234   Found link https://files.pythonhosted.org/packages/f8/5f/e16ef5f23de2bfa97678b58b35c7084a7723c39cee8ad45221f9f7056e4c/janis-pipelines.core-0.10.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.1
2023-09-25T16:48:40,235   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/6a/ba/6662781d6bcd8f8cdff431147d4044ffe1c655d618d39a7ae21fd7728bab/janis_pipelines.core-0.10.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,236   Found link https://files.pythonhosted.org/packages/aa/1c/ba9708b1592c3eeb8ac9e794cf45e253f835302bdef3145603ddb5b2bd35/janis-pipelines.core-0.10.2.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.2
2023-09-25T16:48:40,237   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/93/bc/9780e830df66282605bab952bceab17183955de6ca24059ac90bcd1abf28/janis_pipelines.core-0.10.2-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,238   Found link https://files.pythonhosted.org/packages/a4/d4/8ac3f7491ac5fa3ee4a82da66b998dab136ee2eb667d11829b7aec3804e4/janis-pipelines.core-0.10.4.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.4
2023-09-25T16:48:40,238   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/d2/1b/ee258c759661723846b36c433546c7b3db4917f601b0842225658c6635a6/janis_pipelines.core-0.10.4-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,239   Found link https://files.pythonhosted.org/packages/90/b9/754bde41c92c5a12a0f624450bdef417c5b2b3c5312b3a143e173f3b3cf8/janis-pipelines.core-0.10.5.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.5
2023-09-25T16:48:40,240   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/a5/90/e5373350bc28211ffdddd362c620483b3907f934d44a21428819c5cf935c/janis_pipelines.core-0.10.5-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,241   Found link https://files.pythonhosted.org/packages/62/f3/4a7584a438ac765e3fb2f4812c219b05c9260aa5f039576fc3aef66aa8a1/janis-pipelines.core-0.10.6.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.6
2023-09-25T16:48:40,242   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/95/78/7de1b7a3d9179109ba8ce05fd06853fe62dd17094d9a9c9d0568dda7c2d3/janis_pipelines.core-0.10.6-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,242   Found link https://files.pythonhosted.org/packages/48/69/fc8efd1e91bf4ab23d5ad482c5131a3a0af2b7821de28ccbf077a8bbeb6c/janis-pipelines.core-0.10.7.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.7
2023-09-25T16:48:40,243   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/c2/2f/84a47680df163b8afbd086228db86ac04f24a3953759b98399b80a93fd49/janis_pipelines.core-0.10.7-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,244   Found link https://files.pythonhosted.org/packages/59/5a/f674a4e176fd7aa01e720afa34cba9b2084a1f3f0017169876d3bc638691/janis-pipelines.core-0.10.8.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.8
2023-09-25T16:48:40,245   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/e2/ec/9ddfe01b80025d931900d24796e24bc458512658a144aa4b4a2245996e58/janis_pipelines.core-0.10.8-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,246   Found link https://files.pythonhosted.org/packages/a6/79/5ec3141534176e65e5ed4816374a197aecebe3bf8732f48fb728d50e92aa/janis-pipelines.core-0.10.9.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.9
2023-09-25T16:48:40,247   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/34/07/b7ccb7892bba76252c1193e0040aef58c66ebf280a0948e9def2afaab510/janis_pipelines.core-0.10.9-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,248   Found link https://files.pythonhosted.org/packages/24/a0/afdf2908e233a78853278baf990e7317c97257091a82a2a42339be4758e5/janis-pipelines.core-0.10.10.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.10
2023-09-25T16:48:40,249   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/02/09/696d81e5182f7a06048a71959d20eb5f0d3431f0c3ad88ab2a484c081320/janis_pipelines.core-0.10.10-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,250   Found link https://files.pythonhosted.org/packages/77/58/ece0ddba45040e68d37cdc06032b4c0cfe55a9e93a9c8608df8a2f48fc93/janis-pipelines.core-0.10.11.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.10.11
2023-09-25T16:48:40,251   Found link https://files.pythonhosted.org/packages/07/77/a3a45e7f246fc1dfa1817c4ba0db9c35f0916635e75fb264f5c31df0a18f/janis-pipelines.core-0.11.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.11.0
2023-09-25T16:48:40,252   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/cd/95/01944ff1ddaa640e1267d0b13661cc3b365d64db4060d02513eeeef92378/janis_pipelines.core-0.11.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,252   Found link https://files.pythonhosted.org/packages/eb/1d/ce5411cbfbcdc34b806220afb170627a0ab3b097abab31191d49d03297d6/janis-pipelines.core-0.11.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.11.1
2023-09-25T16:48:40,253   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/c8/0f/6b077fd1099ad9df3d527416426a3c4f51982f6c1957ec2e8ce601414f9b/janis_pipelines.core-0.11.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,254   Found link https://files.pythonhosted.org/packages/5f/d3/4a6a7644740788c5b05879e0b6706fd8413e8176ec87cadc998c3fb5e9ee/janis-pipelines.core-0.11.2.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.11.2
2023-09-25T16:48:40,255   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/6f/9d/adcf7f3cf3a22a4aae479db27a9b08cffbfe01ccc6ddde533983e87708c6/janis_pipelines.core-0.11.2-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,255   Found link https://files.pythonhosted.org/packages/6e/99/7033756b487f4a7c5169b7adc4d24d19e2e8fefc102081c5fd8062751da3/janis-pipelines.core-0.11.3.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.11.3
2023-09-25T16:48:40,256   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/2b/e6/97928bb8a930c28631d515c6faadbf619e31465f1a18c717b8783e27ed4c/janis_pipelines.core-0.11.3-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,257   Found link https://files.pythonhosted.org/packages/79/c6/ef3a9a698adaa5f1afaf5b62a036b7355eb34d5cb2fbc2cdad81894b772f/janis-pipelines.core-0.11.4.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.11.4
2023-09-25T16:48:40,257   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/e8/f2/489416f1d8c69ac4f03fc70a1176f7ce5632044b07d225867940766cee2f/janis_pipelines.core-0.11.4-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,258   Found link https://files.pythonhosted.org/packages/ec/bb/3791b8e82c26471a34e8a9985b7e80fda0986da28b455246262edc4648b8/janis-pipelines.core-0.11.5.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.11.5
2023-09-25T16:48:40,259   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/44/24/11adb7873fc22252b6bdeb2d32c2346700769b475bc98e08c07f0ec19743/janis_pipelines.core-0.11.5-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,259   Found link https://files.pythonhosted.org/packages/86/7f/a7d755d0287fab66523bec875cb4717424743b83b96d2adfa0b885cd7bae/janis-pipelines.core-0.12.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/), version: 0.12.1
2023-09-25T16:48:40,260   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/0e/f5/2396b70abbae5d11090e85290bc0fc1d5925ce8bfb1c15b699a7dbd6fb55/janis_pipelines.core-0.12.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,261   Found link https://files.pythonhosted.org/packages/f7/b9/5dfffda908f42dff2bc34cd44f44a8099ef7624aad5881177e99992aa8fa/janis-pipelines.core-0.13.0.tar.gz (from https://pypi.org/simple/janis-pipelines-core/) (requires-python:>=3.10.5), version: 0.13.0
2023-09-25T16:48:40,262   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/76/b1/b54c18549f0d5f680456f4d87ea2942949df71db7289c180f9d7e72833f3/janis_pipelines.core-0.13.0-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/) (requires-python:>=3.10.5)
2023-09-25T16:48:40,262   Found link https://files.pythonhosted.org/packages/0f/83/9dd041902176b2edae4c94076e7b51400a98c034b0518cef149b0fbc13f4/janis-pipelines.core-0.13.1.tar.gz (from https://pypi.org/simple/janis-pipelines-core/) (requires-python:>=3.10.5), version: 0.13.1
2023-09-25T16:48:40,263   Skipping link: No binaries permitted for janis-pipelines-core: https://files.pythonhosted.org/packages/f1/cf/237e7613b2ec4dd3a30334d27203f1e4f1e18d6bde51435125b8be37d62b/janis_pipelines.core-0.13.1-py3-none-any.whl (from https://pypi.org/simple/janis-pipelines-core/) (requires-python:>=3.10.5)
2023-09-25T16:48:40,264 Fetching project page and analyzing links: https://www.piwheels.org/simple/janis-pipelines-core/
2023-09-25T16:48:40,264 Getting page https://www.piwheels.org/simple/janis-pipelines-core/
2023-09-25T16:48:40,266 Found index url https://www.piwheels.org/simple/
2023-09-25T16:48:40,426 Fetched page https://www.piwheels.org/simple/janis-pipelines-core/ as text/html
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2023-09-25T16:48:40,474   Skipping link: No binaries permitted for janis-pipelines-core: https://www.piwheels.org/simple/janis-pipelines-core/janis_pipelines.core-0.5.0-py3-none-any.whl#sha256=2fe8ba93e167d617843be5d239881fd49e770b653a930edeee4baf67aefaf803 (from https://www.piwheels.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,475   Skipping link: No binaries permitted for janis-pipelines-core: https://www.piwheels.org/simple/janis-pipelines-core/janis_pipelines.core-0.4.1-py3-none-any.whl#sha256=8222be4f4bfcd17f7caac2d67ac539b058cbac1f6161d692e2b288a327e44fc5 (from https://www.piwheels.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,476   Skipping link: No binaries permitted for janis-pipelines-core: https://www.piwheels.org/simple/janis-pipelines-core/janis_pipelines.core-0.4.0-py3-none-any.whl#sha256=98c1fc45d6e06c87373bb7c7e0999fbc9a1881427808eb5dc9260a45ed805efd (from https://www.piwheels.org/simple/janis-pipelines-core/)
2023-09-25T16:48:40,476 Skipping link: not a file: https://www.piwheels.org/simple/janis-pipelines-core/
2023-09-25T16:48:40,477 Skipping link: not a file: https://pypi.org/simple/janis-pipelines-core/
2023-09-25T16:48:40,502 Given no hashes to check 1 links for project 'janis-pipelines-core': discarding no candidates
2023-09-25T16:48:40,520 Collecting janis-pipelines-core==0.13.0
2023-09-25T16:48:40,522   Created temporary directory: /tmp/pip-unpack-6bxc2vcd
2023-09-25T16:48:40,746   Downloading janis-pipelines.core-0.13.0.tar.gz (73.2 MB)
2023-09-25T16:49:08,775   Added janis-pipelines-core==0.13.0 from https://files.pythonhosted.org/packages/f7/b9/5dfffda908f42dff2bc34cd44f44a8099ef7624aad5881177e99992aa8fa/janis-pipelines.core-0.13.0.tar.gz to build tracker '/tmp/pip-build-tracker-mb9mc3mr'
2023-09-25T16:49:08,782   Created temporary directory: /tmp/pip-build-env-60m_snib
2023-09-25T16:49:08,786   Installing build dependencies: started
2023-09-25T16:49:08,788   Running command pip subprocess to install build dependencies
2023-09-25T16:49:10,189   Using pip 23.2.1 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11)
2023-09-25T16:49:10,715   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2023-09-25T16:49:12,271   Collecting setuptools>=67.8.0
2023-09-25T16:49:12,273     Obtaining dependency information for setuptools>=67.8.0 from https://files.pythonhosted.org/packages/bb/26/7945080113158354380a12ce26873dd6c1ebd88d47f5bc24e2c5bb38c16a/setuptools-68.2.2-py3-none-any.whl.metadata
2023-09-25T16:49:12,279     Using cached setuptools-68.2.2-py3-none-any.whl.metadata (6.3 kB)
2023-09-25T16:49:12,508   Collecting wheel>=0.40.0
2023-09-25T16:49:12,539     Using cached https://www.piwheels.org/simple/wheel/wheel-0.41.2-py3-none-any.whl (64 kB)
2023-09-25T16:49:12,716   Using cached setuptools-68.2.2-py3-none-any.whl (807 kB)
2023-09-25T16:49:15,415   Installing collected packages: wheel, setuptools
2023-09-25T16:49:15,652     Creating /tmp/pip-build-env-60m_snib/overlay/local/bin
2023-09-25T16:49:15,654     changing mode of /tmp/pip-build-env-60m_snib/overlay/local/bin/wheel to 755
2023-09-25T16:49:18,214   Successfully installed setuptools-68.2.2 wheel-0.41.2
2023-09-25T16:49:18,823   Installing build dependencies: finished with status 'done'
2023-09-25T16:49:18,826   Getting requirements to build wheel: started
2023-09-25T16:49:18,828   Running command Getting requirements to build wheel
2023-09-25T16:49:19,968   running egg_info
2023-09-25T16:49:19,972   writing janis_pipelines.core.egg-info/PKG-INFO
2023-09-25T16:49:19,978   writing dependency_links to janis_pipelines.core.egg-info/dependency_links.txt
2023-09-25T16:49:19,980   writing requirements to janis_pipelines.core.egg-info/requires.txt
2023-09-25T16:49:19,981   writing top-level names to janis_pipelines.core.egg-info/top_level.txt
2023-09-25T16:49:20,061   reading manifest file 'janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:20,313   adding license file 'LICENSE'
2023-09-25T16:49:20,397   writing manifest file 'janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:20,523   Getting requirements to build wheel: finished with status 'done'
2023-09-25T16:49:20,532   Created temporary directory: /tmp/pip-modern-metadata-1zjt71zz
2023-09-25T16:49:20,535   Preparing metadata (pyproject.toml): started
2023-09-25T16:49:20,536   Running command Preparing metadata (pyproject.toml)
2023-09-25T16:49:21,327   running dist_info
2023-09-25T16:49:21,331   creating /tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info
2023-09-25T16:49:21,335   writing /tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/PKG-INFO
2023-09-25T16:49:21,340   writing dependency_links to /tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/dependency_links.txt
2023-09-25T16:49:21,342   writing requirements to /tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/requires.txt
2023-09-25T16:49:21,344   writing top-level names to /tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/top_level.txt
2023-09-25T16:49:21,345   writing manifest file '/tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:21,421   reading manifest file '/tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:21,423   adding license file 'LICENSE'
2023-09-25T16:49:21,441   writing manifest file '/tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:21,443   creating '/tmp/pip-modern-metadata-1zjt71zz/janis_pipelines.core-0.13.0.dist-info'
2023-09-25T16:49:21,606   Preparing metadata (pyproject.toml): finished with status 'done'
2023-09-25T16:49:21,617   Source in /tmp/pip-wheel-3m5uflnx/janis-pipelines-core_7b6bfa1603d84cd2ad347adb333d39bb has version 0.13.0, which satisfies requirement janis-pipelines-core==0.13.0 from https://files.pythonhosted.org/packages/f7/b9/5dfffda908f42dff2bc34cd44f44a8099ef7624aad5881177e99992aa8fa/janis-pipelines.core-0.13.0.tar.gz
2023-09-25T16:49:21,618   Removed janis-pipelines-core==0.13.0 from https://files.pythonhosted.org/packages/f7/b9/5dfffda908f42dff2bc34cd44f44a8099ef7624aad5881177e99992aa8fa/janis-pipelines.core-0.13.0.tar.gz from build tracker '/tmp/pip-build-tracker-mb9mc3mr'
2023-09-25T16:49:21,638 Created temporary directory: /tmp/pip-unpack-xngaoqca
2023-09-25T16:49:21,639 Created temporary directory: /tmp/pip-unpack-2ipphot6
2023-09-25T16:49:21,688 Building wheels for collected packages: janis-pipelines-core
2023-09-25T16:49:21,692   Created temporary directory: /tmp/pip-wheel-d5o3bck1
2023-09-25T16:49:21,693   Destination directory: /tmp/pip-wheel-d5o3bck1
2023-09-25T16:49:21,695   Building wheel for janis-pipelines-core (pyproject.toml): started
2023-09-25T16:49:21,696   Running command Building wheel for janis-pipelines-core (pyproject.toml)
2023-09-25T16:49:22,468   running bdist_wheel
2023-09-25T16:49:22,483   running build
2023-09-25T16:49:22,484   running build_py
2023-09-25T16:49:22,488   creating build
2023-09-25T16:49:22,489   creating build/lib
2023-09-25T16:49:22,490   creating build/lib/janis_core
2023-09-25T16:49:22,491   copying janis_core/__init__.py -> build/lib/janis_core
2023-09-25T16:49:22,493   copying janis_core/__meta__.py -> build/lib/janis_core
2023-09-25T16:49:22,495   creating build/lib/janis_core/workflow
2023-09-25T16:49:22,496   copying janis_core/workflow/__init__.py -> build/lib/janis_core/workflow
2023-09-25T16:49:22,498   copying janis_core/workflow/workflow.py -> build/lib/janis_core/workflow
2023-09-25T16:49:22,501   creating build/lib/janis_core/redefinitions
2023-09-25T16:49:22,502   copying janis_core/redefinitions/__init__.py -> build/lib/janis_core/redefinitions
2023-09-25T16:49:22,504   copying janis_core/redefinitions/utils.py -> build/lib/janis_core/redefinitions
2023-09-25T16:49:22,506   copying janis_core/redefinitions/types.py -> build/lib/janis_core/redefinitions
2023-09-25T16:49:22,509   creating build/lib/janis_core/toolbox
2023-09-25T16:49:22,510   copying janis_core/toolbox/__init__.py -> build/lib/janis_core/toolbox
2023-09-25T16:49:22,511   copying janis_core/toolbox/register.py -> build/lib/janis_core/toolbox
2023-09-25T16:49:22,514   copying janis_core/toolbox/toolbox.py -> build/lib/janis_core/toolbox
2023-09-25T16:49:22,516   copying janis_core/toolbox/entrypoints.py -> build/lib/janis_core/toolbox
2023-09-25T16:49:22,518   creating build/lib/janis_core/translation_utils
2023-09-25T16:49:22,519   copying janis_core/translation_utils/__init__.py -> build/lib/janis_core/translation_utils
2023-09-25T16:49:22,521   copying janis_core/translation_utils/graph.py -> build/lib/janis_core/translation_utils
2023-09-25T16:49:22,523   copying janis_core/translation_utils/datatypes.py -> build/lib/janis_core/translation_utils
2023-09-25T16:49:22,525   creating build/lib/janis_core/translations
2023-09-25T16:49:22,526   copying janis_core/translations/__init__.py -> build/lib/janis_core/translations
2023-09-25T16:49:22,528   copying janis_core/translations/translationbase.py -> build/lib/janis_core/translations
2023-09-25T16:49:22,531   copying janis_core/translations/main.py -> build/lib/janis_core/translations
2023-09-25T16:49:22,533   creating build/lib/janis_core/translation_deps
2023-09-25T16:49:22,534   copying janis_core/translation_deps/__init__.py -> build/lib/janis_core/translation_deps
2023-09-25T16:49:22,535   copying janis_core/translation_deps/exportpath.py -> build/lib/janis_core/translation_deps
2023-09-25T16:49:22,537   copying janis_core/translation_deps/supportedtranslations.py -> build/lib/janis_core/translation_deps
2023-09-25T16:49:22,539   creating build/lib/janis_core/operators
2023-09-25T16:49:22,540   copying janis_core/operators/operator.py -> build/lib/janis_core/operators
2023-09-25T16:49:22,542   copying janis_core/operators/__init__.py -> build/lib/janis_core/operators
2023-09-25T16:49:22,544   copying janis_core/operators/stringformatter.py -> build/lib/janis_core/operators
2023-09-25T16:49:22,546   copying janis_core/operators/logical.py -> build/lib/janis_core/operators
2023-09-25T16:49:22,548   copying janis_core/operators/standard.py -> build/lib/janis_core/operators
2023-09-25T16:49:22,551   copying janis_core/operators/selectors.py -> build/lib/janis_core/operators
2023-09-25T16:49:22,554   creating build/lib/janis_core/code
2023-09-25T16:49:22,554   copying janis_core/code/__init__.py -> build/lib/janis_core/code
2023-09-25T16:49:22,556   copying janis_core/code/pythontool.py -> build/lib/janis_core/code
2023-09-25T16:49:22,558   copying janis_core/code/codetool.py -> build/lib/janis_core/code
2023-09-25T16:49:22,561   creating build/lib/janis_core/hints
2023-09-25T16:49:22,562   copying janis_core/hints/__init__.py -> build/lib/janis_core/hints
2023-09-25T16:49:22,564   creating build/lib/janis_core/transformation
2023-09-25T16:49:22,565   copying janis_core/transformation/__init__.py -> build/lib/janis_core/transformation
2023-09-25T16:49:22,567   creating build/lib/janis_core/ingestion
2023-09-25T16:49:22,568   copying janis_core/ingestion/__init__.py -> build/lib/janis_core/ingestion
2023-09-25T16:49:22,570   copying janis_core/ingestion/SupportedIngestion.py -> build/lib/janis_core/ingestion
2023-09-25T16:49:22,572   copying janis_core/ingestion/main.py -> build/lib/janis_core/ingestion
2023-09-25T16:49:22,574   creating build/lib/janis_core/graph
2023-09-25T16:49:22,575   copying janis_core/graph/__init__.py -> build/lib/janis_core/graph
2023-09-25T16:49:22,576   copying janis_core/graph/steptaginput.py -> build/lib/janis_core/graph
2023-09-25T16:49:22,578   copying janis_core/graph/node.py -> build/lib/janis_core/graph
2023-09-25T16:49:22,581   creating build/lib/janis_core/tests
2023-09-25T16:49:22,582   copying janis_core/tests/test_test_runner.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,584   copying janis_core/tests/test_validators.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,586   copying janis_core/tests/test_translation_modules.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,588   copying janis_core/tests/__init__.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,589   copying janis_core/tests/test_secondary.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,591   copying janis_core/tests/test_receivefrom.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,593   copying janis_core/tests/test_tools.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,595   copying janis_core/tests/test_types.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,596   copying janis_core/tests/test_translation_nextflow.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,603   copying janis_core/tests/test_python_tool.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,605   copying janis_core/tests/tests_util.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,606   copying janis_core/tests/test_operators.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,608   copying janis_core/tests/test_commandtool.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,610   copying janis_core/tests/test_ingestion_galaxy.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,612   copying janis_core/tests/test_running.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,614   copying janis_core/tests/test_step.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,615   copying janis_core/tests/test_ingestion_wdl.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,617   copying janis_core/tests/test_stringbuilder.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,619   copying janis_core/tests/test_logger.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,620   copying janis_core/tests/test_translation_wdl.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,623   copying janis_core/tests/test_janis_translate.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,626   copying janis_core/tests/test_conditionals.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,627   copying janis_core/tests/test_generics_util.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,629   copying janis_core/tests/test_ingestion_cwl.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,632   copying janis_core/tests/test_validateinputvalue.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,633   copying janis_core/tests/test_workflow.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,636   copying janis_core/tests/test_translation_cwl.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,638   copying janis_core/tests/test_metadata.py -> build/lib/janis_core/tests
2023-09-25T16:49:22,641   creating build/lib/janis_core/tool
2023-09-25T16:49:22,641   copying janis_core/tool/test_suite_runner.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,644   copying janis_core/tool/test_definitions.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,646   copying janis_core/tool/__init__.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,647   copying janis_core/tool/cwl_tool_parser.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,649   copying janis_core/tool/tool.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,652   copying janis_core/tool/documentation.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,654   copying janis_core/tool/commandtool.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,656   copying janis_core/tool/batchrun.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,658   copying janis_core/tool/test_helpers.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,660   copying janis_core/tool/test_classes.py -> build/lib/janis_core/tool
2023-09-25T16:49:22,662   creating build/lib/janis_core/types
2023-09-25T16:49:22,663   copying janis_core/types/__init__.py -> build/lib/janis_core/types
2023-09-25T16:49:22,665   copying janis_core/types/data_types.py -> build/lib/janis_core/types
2023-09-25T16:49:22,668   copying janis_core/types/common_data_types.py -> build/lib/janis_core/types
2023-09-25T16:49:22,671   creating build/lib/janis_core/utils
2023-09-25T16:49:22,672   copying janis_core/utils/generators.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,674   copying janis_core/utils/__init__.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,676   copying janis_core/utils/metadata.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,677   copying janis_core/utils/docparser_info.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,679   copying janis_core/utils/errors.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,681   copying janis_core/utils/logger.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,683   copying janis_core/utils/bracketmatching.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,685   copying janis_core/utils/scatter.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,686   copying janis_core/utils/secondary.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,688   copying janis_core/utils/validators.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,689   copying janis_core/utils/pickvalue.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,691   copying janis_core/utils/janisconstants.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,692   copying janis_core/utils/generics_util.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,694   copying janis_core/utils/yaml_utils.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,695   copying janis_core/utils/levenshteindistance.py -> build/lib/janis_core/utils
2023-09-25T16:49:22,698   creating build/lib/janis_core/settings
2023-09-25T16:49:22,698   copying janis_core/settings/__init__.py -> build/lib/janis_core/settings
2023-09-25T16:49:22,700   copying janis_core/settings/graph.py -> build/lib/janis_core/settings
2023-09-25T16:49:22,701   copying janis_core/settings/validation.py -> build/lib/janis_core/settings
2023-09-25T16:49:22,703   copying janis_core/settings/datatypes.py -> build/lib/janis_core/settings
2023-09-25T16:49:22,705   copying janis_core/settings/testing.py -> build/lib/janis_core/settings
2023-09-25T16:49:22,706   creating build/lib/janis_core/messages
2023-09-25T16:49:22,707   copying janis_core/messages/__init__.py -> build/lib/janis_core/messages
2023-09-25T16:49:22,709   copying janis_core/messages/main.py -> build/lib/janis_core/messages
2023-09-25T16:49:22,710   copying janis_core/messages/logfile.py -> build/lib/janis_core/messages
2023-09-25T16:49:22,713   creating build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,714   copying janis_core/redefinitions/tools/strelka.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,716   copying janis_core/redefinitions/tools/__init__.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,718   copying janis_core/redefinitions/tools/cat.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,720   copying janis_core/redefinitions/tools/performancesummary.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,722   copying janis_core/redefinitions/tools/tabix.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,724   copying janis_core/redefinitions/tools/bgzip.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,726   copying janis_core/redefinitions/tools/addbamstats.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,728   copying janis_core/redefinitions/tools/parse.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,731   copying janis_core/redefinitions/tools/manta.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,733   copying janis_core/redefinitions/tools/gridss.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,735   copying janis_core/redefinitions/tools/bioinformaticstool.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,737   copying janis_core/redefinitions/tools/splitmultiallele.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,739   copying janis_core/redefinitions/tools/cutadapt.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,741   copying janis_core/redefinitions/tools/trimiupac.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,743   copying janis_core/redefinitions/tools/bwamem_samtoolsview.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,746   copying janis_core/redefinitions/tools/gatk4.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,749   copying janis_core/redefinitions/tools/generate.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,751   copying janis_core/redefinitions/tools/petermacutils.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,753   copying janis_core/redefinitions/tools/echo.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,755   copying janis_core/redefinitions/tools/uncompressarchive.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,757   copying janis_core/redefinitions/tools/fastqc.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,759   copying janis_core/redefinitions/tools/bedtoolsgenomecoverage.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,761   copying janis_core/redefinitions/tools/vcftools.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,763   copying janis_core/redefinitions/tools/vardict.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,765   copying janis_core/redefinitions/tools/bcftools.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,768   copying janis_core/redefinitions/tools/samtools.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,770   copying janis_core/redefinitions/tools/combinevariants.py -> build/lib/janis_core/redefinitions/tools
2023-09-25T16:49:22,773   creating build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,774   copying janis_core/redefinitions/workflows/__init__.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,776   copying janis_core/redefinitions/workflows/gatkgermlinevariantcaller.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,777   copying janis_core/redefinitions/workflows/illuminagermlinevariantcaller.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,779   copying janis_core/redefinitions/workflows/mergeandmark.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,781   copying janis_core/redefinitions/workflows/gatkbaserecalbqsr.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,783   copying janis_core/redefinitions/workflows/addbamstats.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,784   copying janis_core/redefinitions/workflows/performancesummarygenome.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,786   copying janis_core/redefinitions/workflows/vardictgermlinevariantcaller.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,788   copying janis_core/redefinitions/workflows/wgsgermline.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,791   copying janis_core/redefinitions/workflows/bioinformaticsworkflow.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,792   copying janis_core/redefinitions/workflows/bwaaligner.py -> build/lib/janis_core/redefinitions/workflows
2023-09-25T16:49:22,795   creating build/lib/janis_core/translations/cwl
2023-09-25T16:49:22,796   copying janis_core/translations/cwl/__init__.py -> build/lib/janis_core/translations/cwl
2023-09-25T16:49:22,798   copying janis_core/translations/cwl/main.py -> build/lib/janis_core/translations/cwl
2023-09-25T16:49:22,801   creating build/lib/janis_core/translations/common
2023-09-25T16:49:22,802   copying janis_core/translations/common/__init__.py -> build/lib/janis_core/translations/common
2023-09-25T16:49:22,804   copying janis_core/translations/common/trace.py -> build/lib/janis_core/translations/common
2023-09-25T16:49:22,807   creating build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,808   copying janis_core/translations/nextflow/nulls.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,810   copying janis_core/translations/nextflow/__init__.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,811   copying janis_core/translations/nextflow/expressions.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,813   copying janis_core/translations/nextflow/variables.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,815   copying janis_core/translations/nextflow/nfgen_utils.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,817   copying janis_core/translations/nextflow/unwrap.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,820   copying janis_core/translations/nextflow/scope.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,821   copying janis_core/translations/nextflow/main.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,824   copying janis_core/translations/nextflow/task_inputs.py -> build/lib/janis_core/translations/nextflow
2023-09-25T16:49:22,826   creating build/lib/janis_core/translations/janis
2023-09-25T16:49:22,827   copying janis_core/translations/janis/__init__.py -> build/lib/janis_core/translations/janis
2023-09-25T16:49:22,828   copying janis_core/translations/janis/main.py -> build/lib/janis_core/translations/janis
2023-09-25T16:49:22,831   creating build/lib/janis_core/translations/wdl
2023-09-25T16:49:22,832   copying janis_core/translations/wdl/ordering.py -> build/lib/janis_core/translations/wdl
2023-09-25T16:49:22,834   copying janis_core/translations/wdl/__init__.py -> build/lib/janis_core/translations/wdl
2023-09-25T16:49:22,835   copying janis_core/translations/wdl/main.py -> build/lib/janis_core/translations/wdl
2023-09-25T16:49:22,839   creating build/lib/janis_core/translations/common/preprocessing
2023-09-25T16:49:22,840   copying janis_core/translations/common/preprocessing/__init__.py -> build/lib/janis_core/translations/common/preprocessing
2023-09-25T16:49:22,842   creating build/lib/janis_core/translations/common/preprocessing/builders
2023-09-25T16:49:22,843   copying janis_core/translations/common/preprocessing/builders/__init__.py -> build/lib/janis_core/translations/common/preprocessing/builders
2023-09-25T16:49:22,845   copying janis_core/translations/common/preprocessing/builders/main.py -> build/lib/janis_core/translations/common/preprocessing/builders
2023-09-25T16:49:22,847   creating build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,848   copying janis_core/translations/common/preprocessing/prune/__init__.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,850   copying janis_core/translations/common/preprocessing/prune/gather.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,852   copying janis_core/translations/common/preprocessing/prune/history.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,854   copying janis_core/translations/common/preprocessing/prune/tools.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,856   copying janis_core/translations/common/preprocessing/prune/main.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,858   copying janis_core/translations/common/preprocessing/prune/workflows.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,859   copying janis_core/translations/common/preprocessing/prune/common.py -> build/lib/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:22,861   creating build/lib/janis_core/translations/nextflow/params
2023-09-25T16:49:22,862   copying janis_core/translations/nextflow/params/__init__.py -> build/lib/janis_core/translations/nextflow/params
2023-09-25T16:49:22,864   copying janis_core/translations/nextflow/params/update.py -> build/lib/janis_core/translations/nextflow/params
2023-09-25T16:49:22,866   copying janis_core/translations/nextflow/params/main.py -> build/lib/janis_core/translations/nextflow/params
2023-09-25T16:49:22,869   creating build/lib/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:22,870   copying janis_core/translations/nextflow/casefmt/__init__.py -> build/lib/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:22,871   copying janis_core/translations/nextflow/casefmt/mapping.py -> build/lib/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:22,873   copying janis_core/translations/nextflow/casefmt/patterns.py -> build/lib/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:22,875   copying janis_core/translations/nextflow/casefmt/casefmt.py -> build/lib/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:22,877   creating build/lib/janis_core/translations/nextflow/generate
2023-09-25T16:49:22,878   copying janis_core/translations/nextflow/generate/__init__.py -> build/lib/janis_core/translations/nextflow/generate
2023-09-25T16:49:22,879   copying janis_core/translations/nextflow/generate/config.py -> build/lib/janis_core/translations/nextflow/generate
2023-09-25T16:49:22,882   creating build/lib/janis_core/translations/nextflow/preprocessing
2023-09-25T16:49:22,883   copying janis_core/translations/nextflow/preprocessing/__init__.py -> build/lib/janis_core/translations/nextflow/preprocessing
2023-09-25T16:49:22,884   copying janis_core/translations/nextflow/preprocessing/unique_task_names.py -> build/lib/janis_core/translations/nextflow/preprocessing
2023-09-25T16:49:22,886   creating build/lib/janis_core/translations/nextflow/naming
2023-09-25T16:49:22,887   copying janis_core/translations/nextflow/naming/__init__.py -> build/lib/janis_core/translations/nextflow/naming
2023-09-25T16:49:22,889   copying janis_core/translations/nextflow/naming/process.py -> build/lib/janis_core/translations/nextflow/naming
2023-09-25T16:49:22,891   copying janis_core/translations/nextflow/naming/constructs.py -> build/lib/janis_core/translations/nextflow/naming
2023-09-25T16:49:22,893   creating build/lib/janis_core/translations/nextflow/model
2023-09-25T16:49:22,894   copying janis_core/translations/nextflow/model/__init__.py -> build/lib/janis_core/translations/nextflow/model
2023-09-25T16:49:22,896   creating build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,897   copying janis_core/translations/nextflow/generate/workflow/call.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,899   copying janis_core/translations/nextflow/generate/workflow/__init__.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,901   copying janis_core/translations/nextflow/generate/workflow/scatter.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,903   copying janis_core/translations/nextflow/generate/workflow/datatype_mismatch.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,905   copying janis_core/translations/nextflow/generate/workflow/edge_cases.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,907   copying janis_core/translations/nextflow/generate/workflow/main.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,909   copying janis_core/translations/nextflow/generate/workflow/common.py -> build/lib/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:22,911   creating build/lib/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:22,912   copying janis_core/translations/nextflow/generate/process/__init__.py -> build/lib/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:22,914   copying janis_core/translations/nextflow/generate/process/directives.py -> build/lib/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:22,916   copying janis_core/translations/nextflow/generate/process/inputs.py -> build/lib/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:22,918   copying janis_core/translations/nextflow/generate/process/main.py -> build/lib/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:22,921   creating build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,922   copying janis_core/translations/nextflow/generate/files/__init__.py -> build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,923   copying janis_core/translations/nextflow/generate/files/process.py -> build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,925   copying janis_core/translations/nextflow/generate/files/variable_declarations.py -> build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,927   copying janis_core/translations/nextflow/generate/files/channel_declarations.py -> build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,929   copying janis_core/translations/nextflow/generate/files/main.py -> build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,931   copying janis_core/translations/nextflow/generate/files/workflow.py -> build/lib/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:22,934   creating build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,934   copying janis_core/translations/nextflow/generate/process/script/ordering.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,936   copying janis_core/translations/nextflow/generate/process/script/selection.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,938   copying janis_core/translations/nextflow/generate/process/script/__init__.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,940   copying janis_core/translations/nextflow/generate/process/script/ctype.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,942   copying janis_core/translations/nextflow/generate/process/script/script.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,944   copying janis_core/translations/nextflow/generate/process/script/main.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,946   copying janis_core/translations/nextflow/generate/process/script/prescript.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,949   copying janis_core/translations/nextflow/generate/process/script/attributes.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,951   copying janis_core/translations/nextflow/generate/process/script/common.py -> build/lib/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:22,953   creating build/lib/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:22,954   copying janis_core/translations/nextflow/generate/process/outputs/__init__.py -> build/lib/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:22,955   copying janis_core/translations/nextflow/generate/process/outputs/factory_pythontool.py -> build/lib/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:22,957   copying janis_core/translations/nextflow/generate/process/outputs/factory_cmdtool.py -> build/lib/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:22,959   copying janis_core/translations/nextflow/generate/process/outputs/main.py -> build/lib/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:22,962   creating build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,963   copying janis_core/translations/nextflow/preprocessing/task_inputs/__init__.py -> build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,964   copying janis_core/translations/nextflow/preprocessing/task_inputs/populator.py -> build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,966   copying janis_core/translations/nextflow/preprocessing/task_inputs/history.py -> build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,968   copying janis_core/translations/nextflow/preprocessing/task_inputs/categories.py -> build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,970   copying janis_core/translations/nextflow/preprocessing/task_inputs/main.py -> build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,972   copying janis_core/translations/nextflow/preprocessing/task_inputs/common.py -> build/lib/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:22,975   creating build/lib/janis_core/translations/nextflow/model/workflow
2023-09-25T16:49:22,976   copying janis_core/translations/nextflow/model/workflow/__init__.py -> build/lib/janis_core/translations/nextflow/model/workflow
2023-09-25T16:49:22,977   copying janis_core/translations/nextflow/model/workflow/workflow.py -> build/lib/janis_core/translations/nextflow/model/workflow
2023-09-25T16:49:22,980   creating build/lib/janis_core/translations/nextflow/model/process
2023-09-25T16:49:22,981   copying janis_core/translations/nextflow/model/process/__init__.py -> build/lib/janis_core/translations/nextflow/model/process
2023-09-25T16:49:22,983   copying janis_core/translations/nextflow/model/process/directives.py -> build/lib/janis_core/translations/nextflow/model/process
2023-09-25T16:49:22,985   copying janis_core/translations/nextflow/model/process/process.py -> build/lib/janis_core/translations/nextflow/model/process
2023-09-25T16:49:22,987   copying janis_core/translations/nextflow/model/process/inputs.py -> build/lib/janis_core/translations/nextflow/model/process
2023-09-25T16:49:22,988   copying janis_core/translations/nextflow/model/process/outputs.py -> build/lib/janis_core/translations/nextflow/model/process
2023-09-25T16:49:22,990   creating build/lib/janis_core/translations/nextflow/model/files
2023-09-25T16:49:22,991   copying janis_core/translations/nextflow/model/files/__init__.py -> build/lib/janis_core/translations/nextflow/model/files
2023-09-25T16:49:22,993   copying janis_core/translations/nextflow/model/files/variables.py -> build/lib/janis_core/translations/nextflow/model/files
2023-09-25T16:49:22,995   copying janis_core/translations/nextflow/model/files/files.py -> build/lib/janis_core/translations/nextflow/model/files
2023-09-25T16:49:22,997   copying janis_core/translations/nextflow/model/files/channels.py -> build/lib/janis_core/translations/nextflow/model/files
2023-09-25T16:49:22,999   creating build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,000   copying janis_core/ingestion/cwl/__init__.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,001   copying janis_core/ingestion/cwl/graph.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,003   copying janis_core/ingestion/cwl/identifiers.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,005   copying janis_core/ingestion/cwl/expressions.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,007   copying janis_core/ingestion/cwl/preprocessing.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,009   copying janis_core/ingestion/cwl/loading.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,011   copying janis_core/ingestion/cwl/main.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,013   copying janis_core/ingestion/cwl/types.py -> build/lib/janis_core/ingestion/cwl
2023-09-25T16:49:23,016   creating build/lib/janis_core/ingestion/wdl
2023-09-25T16:49:23,018   copying janis_core/ingestion/wdl/__init__.py -> build/lib/janis_core/ingestion/wdl
2023-09-25T16:49:23,020   copying janis_core/ingestion/wdl/main.py -> build/lib/janis_core/ingestion/wdl
2023-09-25T16:49:23,023   creating build/lib/janis_core/ingestion/galaxy
2023-09-25T16:49:23,024   copying janis_core/ingestion/galaxy/__init__.py -> build/lib/janis_core/ingestion/galaxy
2023-09-25T16:49:23,025   copying janis_core/ingestion/galaxy/ingest.py -> build/lib/janis_core/ingestion/galaxy
2023-09-25T16:49:23,027   copying janis_core/ingestion/galaxy/logging.py -> build/lib/janis_core/ingestion/galaxy
2023-09-25T16:49:23,029   copying janis_core/ingestion/galaxy/aliases.py -> build/lib/janis_core/ingestion/galaxy
2023-09-25T16:49:23,031   creating build/lib/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:23,032   copying janis_core/ingestion/cwl/parsing/__init__.py -> build/lib/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:23,034   copying janis_core/ingestion/cwl/parsing/tool.py -> build/lib/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:23,037   copying janis_core/ingestion/cwl/parsing/workflow.py -> build/lib/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:23,039   creating build/lib/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:23,040   copying janis_core/ingestion/galaxy/tags/groups.py -> build/lib/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:23,042   copying janis_core/ingestion/galaxy/tags/manager.py -> build/lib/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:23,043   copying janis_core/ingestion/galaxy/tags/__init__.py -> build/lib/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:23,045   copying janis_core/ingestion/galaxy/tags/rules.py -> build/lib/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:23,046   copying janis_core/ingestion/galaxy/tags/strategies.py -> build/lib/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:23,048   creating build/lib/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:23,049   copying janis_core/ingestion/galaxy/fileio/initialisation.py -> build/lib/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:23,051   copying janis_core/ingestion/galaxy/fileio/__init__.py -> build/lib/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:23,052   copying janis_core/ingestion/galaxy/fileio/write.py -> build/lib/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:23,054   creating build/lib/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:23,055   copying janis_core/ingestion/galaxy/gxtool/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:23,056   copying janis_core/ingestion/galaxy/gxtool/TestRegister.py -> build/lib/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:23,058   copying janis_core/ingestion/galaxy/gxtool/mock.py -> build/lib/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:23,061   creating build/lib/janis_core/ingestion/galaxy/gxwrappers
2023-09-25T16:49:23,062   copying janis_core/ingestion/galaxy/gxwrappers/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers
2023-09-25T16:49:23,064   creating build/lib/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:23,065   copying janis_core/ingestion/galaxy/regex_to_glob/convert.py -> build/lib/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:23,067   copying janis_core/ingestion/galaxy/regex_to_glob/__init__.py -> build/lib/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:23,068   copying janis_core/ingestion/galaxy/regex_to_glob/patterns.py -> build/lib/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:23,070   copying janis_core/ingestion/galaxy/regex_to_glob/common.py -> build/lib/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:23,072   creating build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,073   copying janis_core/ingestion/galaxy/containers/__init__.py -> build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,075   copying janis_core/ingestion/galaxy/containers/mulled.py -> build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,077   copying janis_core/ingestion/galaxy/containers/Container.py -> build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,078   copying janis_core/ingestion/galaxy/containers/cache.py -> build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,080   copying janis_core/ingestion/galaxy/containers/main.py -> build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,082   copying janis_core/ingestion/galaxy/containers/fetch.py -> build/lib/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:23,084   creating build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,085   copying janis_core/ingestion/galaxy/datatypes/galaxy.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,089   copying janis_core/ingestion/galaxy/datatypes/core.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,091   copying janis_core/ingestion/galaxy/datatypes/__init__.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,093   copying janis_core/ingestion/galaxy/datatypes/register.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,094   copying janis_core/ingestion/galaxy/datatypes/JanisDatatype.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,096   copying janis_core/ingestion/galaxy/datatypes/strategies.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,098   copying janis_core/ingestion/galaxy/datatypes/conversion.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,099   copying janis_core/ingestion/galaxy/datatypes/main.py -> build/lib/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:23,101   creating build/lib/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:23,102   copying janis_core/ingestion/galaxy/janis_mapping/__init__.py -> build/lib/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:23,103   copying janis_core/ingestion/galaxy/janis_mapping/tool.py -> build/lib/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:23,105   copying janis_core/ingestion/galaxy/janis_mapping/general.py -> build/lib/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:23,107   copying janis_core/ingestion/galaxy/janis_mapping/workflow.py -> build/lib/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:23,110   creating build/lib/janis_core/ingestion/galaxy/gxworkflow
2023-09-25T16:49:23,111   copying janis_core/ingestion/galaxy/gxworkflow/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow
2023-09-25T16:49:23,113   creating build/lib/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:23,114   copying janis_core/ingestion/galaxy/runtime/__init__.py -> build/lib/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:23,115   copying janis_core/ingestion/galaxy/runtime/tool.py -> build/lib/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:23,117   copying janis_core/ingestion/galaxy/runtime/dates.py -> build/lib/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:23,119   copying janis_core/ingestion/galaxy/runtime/general.py -> build/lib/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:23,120   copying janis_core/ingestion/galaxy/runtime/exceptions.py -> build/lib/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:23,122   creating build/lib/janis_core/ingestion/galaxy/internal_model
2023-09-25T16:49:23,123   copying janis_core/ingestion/galaxy/internal_model/protocols.py -> build/lib/janis_core/ingestion/galaxy/internal_model
2023-09-25T16:49:23,125   copying janis_core/ingestion/galaxy/internal_model/__init__.py -> build/lib/janis_core/ingestion/galaxy/internal_model
2023-09-25T16:49:23,127   creating build/lib/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:23,128   copying janis_core/ingestion/galaxy/expressions/__init__.py -> build/lib/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:23,129   copying janis_core/ingestion/galaxy/expressions/matches.py -> build/lib/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:23,131   copying janis_core/ingestion/galaxy/expressions/patterns.py -> build/lib/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:23,133   copying janis_core/ingestion/galaxy/expressions/checks.py -> build/lib/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:23,135   creating build/lib/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:23,136   copying janis_core/ingestion/galaxy/utils/galaxy.py -> build/lib/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:23,138   copying janis_core/ingestion/galaxy/utils/__init__.py -> build/lib/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:23,139   copying janis_core/ingestion/galaxy/utils/general.py -> build/lib/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:23,141   creating build/lib/janis_core/ingestion/galaxy/internal_mapping
2023-09-25T16:49:23,142   copying janis_core/ingestion/galaxy/internal_mapping/__init__.py -> build/lib/janis_core/ingestion/galaxy/internal_mapping
2023-09-25T16:49:23,144   copying janis_core/ingestion/galaxy/internal_mapping/main.py -> build/lib/janis_core/ingestion/galaxy/internal_mapping
2023-09-25T16:49:23,146   creating build/lib/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:23,147   copying janis_core/ingestion/galaxy/messages/__init__.py -> build/lib/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:23,149   copying janis_core/ingestion/galaxy/messages/logs.py -> build/lib/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:23,150   copying janis_core/ingestion/galaxy/messages/messages.py -> build/lib/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:23,153   creating build/lib/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:23,153   copying janis_core/ingestion/galaxy/fileio/formats/Format.py -> build/lib/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:23,155   copying janis_core/ingestion/galaxy/fileio/formats/__init__.py -> build/lib/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:23,156   copying janis_core/ingestion/galaxy/fileio/formats/DefaultFormat.py -> build/lib/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:23,158   copying janis_core/ingestion/galaxy/fileio/formats/SubworkflowFormat.py -> build/lib/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:23,160   creating build/lib/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:23,161   copying janis_core/ingestion/galaxy/fileio/text/ordering.py -> build/lib/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:23,163   copying janis_core/ingestion/galaxy/fileio/text/__init__.py -> build/lib/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:23,164   copying janis_core/ingestion/galaxy/fileio/text/formatting.py -> build/lib/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:23,166   copying janis_core/ingestion/galaxy/fileio/text/TextRender.py -> build/lib/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:23,168   creating build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,169   copying janis_core/ingestion/galaxy/fileio/text/workflow/InputsText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,171   copying janis_core/ingestion/galaxy/fileio/text/workflow/StepText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,173   copying janis_core/ingestion/galaxy/fileio/text/workflow/__init__.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,174   copying janis_core/ingestion/galaxy/fileio/text/workflow/ConfigText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,176   copying janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowInputText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,178   copying janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowOutputText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,180   copying janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:23,183   creating build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,184   copying janis_core/ingestion/galaxy/fileio/text/tool/__init__.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,185   copying janis_core/ingestion/galaxy/fileio/text/tool/ToolText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,187   copying janis_core/ingestion/galaxy/fileio/text/tool/ToolInputSectionText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,188   copying janis_core/ingestion/galaxy/fileio/text/tool/ConfigfileText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,190   copying janis_core/ingestion/galaxy/fileio/text/tool/ToolInputText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,192   copying janis_core/ingestion/galaxy/fileio/text/tool/ToolOutputText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,193   copying janis_core/ingestion/galaxy/fileio/text/tool/ToolOutputSectionText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,195   copying janis_core/ingestion/galaxy/fileio/text/tool/UnstranslatedText.py -> build/lib/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:23,197   creating build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,198   copying janis_core/ingestion/galaxy/gxtool/command/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,200   copying janis_core/ingestion/galaxy/gxtool/command/update.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,202   copying janis_core/ingestion/galaxy/gxtool/command/epaths.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,204   copying janis_core/ingestion/galaxy/gxtool/command/Command.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,206   copying janis_core/ingestion/galaxy/gxtool/command/loading.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,207   copying janis_core/ingestion/galaxy/gxtool/command/main.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,209   copying janis_core/ingestion/galaxy/gxtool/command/tokenise.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,211   copying janis_core/ingestion/galaxy/gxtool/command/annotation.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:23,214   creating build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,214   copying janis_core/ingestion/galaxy/gxtool/model/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,216   copying janis_core/ingestion/galaxy/gxtool/model/metadata.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,218   copying janis_core/ingestion/galaxy/gxtool/model/tool.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,219   copying janis_core/ingestion/galaxy/gxtool/model/requirement.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,221   copying janis_core/ingestion/galaxy/gxtool/model/script.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,223   copying janis_core/ingestion/galaxy/gxtool/model/tests.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,224   copying janis_core/ingestion/galaxy/gxtool/model/citations.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,226   copying janis_core/ingestion/galaxy/gxtool/model/configfile.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:23,228   creating build/lib/janis_core/ingestion/galaxy/gxtool/text
2023-09-25T16:49:23,229   copying janis_core/ingestion/galaxy/gxtool/text/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text
2023-09-25T16:49:23,231   copying janis_core/ingestion/galaxy/gxtool/text/utils.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text
2023-09-25T16:49:23,233   creating build/lib/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:23,234   copying janis_core/ingestion/galaxy/gxtool/parsing/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:23,236   copying janis_core/ingestion/galaxy/gxtool/parsing/param_flattener.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:23,237   copying janis_core/ingestion/galaxy/gxtool/parsing/inputs.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:23,239   copying janis_core/ingestion/galaxy/gxtool/parsing/outputs.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:23,242   copying janis_core/ingestion/galaxy/gxtool/parsing/main.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:23,245   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:23,246   copying janis_core/ingestion/galaxy/gxtool/command/tokens/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:23,247   copying janis_core/ingestion/galaxy/gxtool/command/tokens/prioritisation.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:23,249   copying janis_core/ingestion/galaxy/gxtool/command/tokens/factory.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:23,251   copying janis_core/ingestion/galaxy/gxtool/command/tokens/utils.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:23,253   copying janis_core/ingestion/galaxy/gxtool/command/tokens/token.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:23,255   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,256   copying janis_core/ingestion/galaxy/gxtool/command/epath/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,257   copying janis_core/ingestion/galaxy/gxtool/command/epath/analysis.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,259   copying janis_core/ingestion/galaxy/gxtool/command/epath/Annotator.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,262   copying janis_core/ingestion/galaxy/gxtool/command/epath/ExecutionPath.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,263   copying janis_core/ingestion/galaxy/gxtool/command/epath/ComponentOrderingStrategy.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,265   copying janis_core/ingestion/galaxy/gxtool/command/epath/ExecutionPathAnnotator.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:23,268   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,269   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,271   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/MainStatementInferrer.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,273   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/analysis.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,275   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/constructs.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,277   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/generate.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,279   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/DynamicCommandStatement.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,280   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/RealisedTokenValues.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,283   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/utils.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,285   copying janis_core/ingestion/galaxy/gxtool/command/cmdstr/CommandString.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:23,287   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:23,288   copying janis_core/ingestion/galaxy/gxtool/command/components/ValueRecord.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:23,290   copying janis_core/ingestion/galaxy/gxtool/command/components/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:23,292   copying janis_core/ingestion/galaxy/gxtool/command/components/CommandComponent.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:23,294   copying janis_core/ingestion/galaxy/gxtool/command/components/factory.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:23,296   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,297   copying janis_core/ingestion/galaxy/gxtool/command/components/inputs/Flag.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,299   copying janis_core/ingestion/galaxy/gxtool/command/components/inputs/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,300   copying janis_core/ingestion/galaxy/gxtool/command/components/inputs/InputComponent.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,302   copying janis_core/ingestion/galaxy/gxtool/command/components/inputs/Positional.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,304   copying janis_core/ingestion/galaxy/gxtool/command/components/inputs/utils.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,305   copying janis_core/ingestion/galaxy/gxtool/command/components/inputs/Option.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:23,308   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:23,308   copying janis_core/ingestion/galaxy/gxtool/command/components/outputs/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:23,310   copying janis_core/ingestion/galaxy/gxtool/command/components/outputs/InputOutput.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:23,311   copying janis_core/ingestion/galaxy/gxtool/command/components/outputs/OutputComponent.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:23,313   copying janis_core/ingestion/galaxy/gxtool/command/components/outputs/RedirectOutput.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:23,315   copying janis_core/ingestion/galaxy/gxtool/command/components/outputs/WildcardOutput.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:23,317   creating build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:23,318   copying janis_core/ingestion/galaxy/gxtool/command/components/linux/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:23,319   copying janis_core/ingestion/galaxy/gxtool/command/components/linux/Tee.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:23,321   copying janis_core/ingestion/galaxy/gxtool/command/components/linux/streams.py -> build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:23,323   creating build/lib/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:23,324   copying janis_core/ingestion/galaxy/gxtool/model/params/param.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:23,326   copying janis_core/ingestion/galaxy/gxtool/model/params/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:23,328   copying janis_core/ingestion/galaxy/gxtool/model/params/input_param.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:23,330   copying janis_core/ingestion/galaxy/gxtool/model/params/param_register.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:23,332   copying janis_core/ingestion/galaxy/gxtool/model/params/output_param.py -> build/lib/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:23,334   creating build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:23,335   copying janis_core/ingestion/galaxy/gxtool/text/cheetah/evaluation.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:23,337   copying janis_core/ingestion/galaxy/gxtool/text/cheetah/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:23,338   copying janis_core/ingestion/galaxy/gxtool/text/cheetah/blocks.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:23,341   creating build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:23,342   copying janis_core/ingestion/galaxy/gxtool/text/simplification/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:23,343   copying janis_core/ingestion/galaxy/gxtool/text/simplification/simplify.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:23,345   copying janis_core/ingestion/galaxy/gxtool/text/simplification/aliases.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:23,347   copying janis_core/ingestion/galaxy/gxtool/text/simplification/filters.py -> build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:23,349   creating build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,350   copying janis_core/ingestion/galaxy/gxtool/parsing/tests/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,352   copying janis_core/ingestion/galaxy/gxtool/parsing/tests/custom_preprocessors.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,353   copying janis_core/ingestion/galaxy/gxtool/parsing/tests/checks.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,355   copying janis_core/ingestion/galaxy/gxtool/parsing/tests/TestFactoryOld.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,357   copying janis_core/ingestion/galaxy/gxtool/parsing/tests/mapper.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,359   copying janis_core/ingestion/galaxy/gxtool/parsing/tests/custom_ops.py -> build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:23,361   creating build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:23,362   copying janis_core/ingestion/galaxy/gxwrappers/wrappers/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:23,364   copying janis_core/ingestion/galaxy/gxwrappers/wrappers/WrapperCache.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:23,366   copying janis_core/ingestion/galaxy/gxwrappers/wrappers/Wrapper.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:23,368   creating build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,369   copying janis_core/ingestion/galaxy/gxwrappers/scraping/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,370   copying janis_core/ingestion/galaxy/gxwrappers/scraping/scraping.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,372   copying janis_core/ingestion/galaxy/gxwrappers/scraping/repositories.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,374   copying janis_core/ingestion/galaxy/gxwrappers/scraping/revisions.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,375   copying janis_core/ingestion/galaxy/gxwrappers/scraping/single.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,377   copying janis_core/ingestion/galaxy/gxwrappers/scraping/wrappers.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,379   copying janis_core/ingestion/galaxy/gxwrappers/scraping/utils.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:23,381   creating build/lib/janis_core/ingestion/galaxy/gxwrappers/requests
2023-09-25T16:49:23,382   copying janis_core/ingestion/galaxy/gxwrappers/requests/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/requests
2023-09-25T16:49:23,384   copying janis_core/ingestion/galaxy/gxwrappers/requests/versions.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/requests
2023-09-25T16:49:23,386   creating build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:23,387   copying janis_core/ingestion/galaxy/gxwrappers/downloads/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:23,389   copying janis_core/ingestion/galaxy/gxwrappers/downloads/wrappers.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:23,390   copying janis_core/ingestion/galaxy/gxwrappers/downloads/cache.py -> build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:23,393   creating build/lib/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:23,393   copying janis_core/ingestion/galaxy/containers/selection/selection.py -> build/lib/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:23,395   copying janis_core/ingestion/galaxy/containers/selection/__init__.py -> build/lib/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:23,397   copying janis_core/ingestion/galaxy/containers/selection/VersionMatcher.py -> build/lib/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:23,399   creating build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,399   copying janis_core/ingestion/galaxy/containers/fetching/__init__.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,401   copying janis_core/ingestion/galaxy/containers/fetching/ContainerReqFetcher.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,403   copying janis_core/ingestion/galaxy/containers/fetching/GA4GHFetcher.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,404   copying janis_core/ingestion/galaxy/containers/fetching/Fetcher.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,406   copying janis_core/ingestion/galaxy/containers/fetching/QuayIOFetcher.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,408   copying janis_core/ingestion/galaxy/containers/fetching/utils.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,409   copying janis_core/ingestion/galaxy/containers/fetching/presets.py -> build/lib/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:23,411   creating build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:23,412   copying janis_core/ingestion/galaxy/gxworkflow/tool_state/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:23,414   copying janis_core/ingestion/galaxy/gxworkflow/tool_state/load.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:23,416   copying janis_core/ingestion/galaxy/gxworkflow/tool_state/filters.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:23,418   creating build/lib/janis_core/ingestion/galaxy/gxworkflow/connections
2023-09-25T16:49:23,419   copying janis_core/ingestion/galaxy/gxworkflow/connections/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/connections
2023-09-25T16:49:23,421   copying janis_core/ingestion/galaxy/gxworkflow/connections/scatter.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/connections
2023-09-25T16:49:23,423   creating build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,424   copying janis_core/ingestion/galaxy/gxworkflow/values/scripts.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,426   copying janis_core/ingestion/galaxy/gxworkflow/values/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,428   copying janis_core/ingestion/galaxy/gxworkflow/values/runtime.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,430   copying janis_core/ingestion/galaxy/gxworkflow/values/default.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,431   copying janis_core/ingestion/galaxy/gxworkflow/values/factory.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,433   copying janis_core/ingestion/galaxy/gxworkflow/values/connection.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,435   copying janis_core/ingestion/galaxy/gxworkflow/values/static.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:23,438   creating build/lib/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:23,438   copying janis_core/ingestion/galaxy/gxworkflow/updates/optionality.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:23,440   copying janis_core/ingestion/galaxy/gxworkflow/updates/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:23,442   copying janis_core/ingestion/galaxy/gxworkflow/updates/arrays.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:23,443   copying janis_core/ingestion/galaxy/gxworkflow/updates/main.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:23,445   copying janis_core/ingestion/galaxy/gxworkflow/updates/datatypes.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:23,447   creating build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:23,448   copying janis_core/ingestion/galaxy/gxworkflow/parsing/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:23,449   copying janis_core/ingestion/galaxy/gxworkflow/parsing/metadata.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:23,451   copying janis_core/ingestion/galaxy/gxworkflow/parsing/inputs.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:23,452   copying janis_core/ingestion/galaxy/gxworkflow/parsing/step.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:23,454   creating build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:23,455   copying janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/__init__.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:23,456   copying janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/metadata.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:23,458   copying janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/tool.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:23,460   copying janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/outputs.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:23,462   copying janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/prepost.py -> build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:23,464   creating build/lib/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:23,465   copying janis_core/ingestion/galaxy/runtime/startup/__init__.py -> build/lib/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:23,467   copying janis_core/ingestion/galaxy/runtime/startup/tool.py -> build/lib/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:23,468   copying janis_core/ingestion/galaxy/runtime/startup/workflow.py -> build/lib/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:23,470   creating build/lib/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:23,471   copying janis_core/ingestion/galaxy/internal_model/workflow/__init__.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:23,473   copying janis_core/ingestion/galaxy/internal_model/workflow/metadata.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:23,475   copying janis_core/ingestion/galaxy/internal_model/workflow/workflow.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:23,477   copying janis_core/ingestion/galaxy/internal_model/workflow/input.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:23,479   creating build/lib/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:23,479   copying janis_core/ingestion/galaxy/internal_model/tool/__init__.py -> build/lib/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:23,481   copying janis_core/ingestion/galaxy/internal_model/tool/tool.py -> build/lib/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:23,483   copying janis_core/ingestion/galaxy/internal_model/tool/generate.py -> build/lib/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:23,486   copying janis_core/ingestion/galaxy/internal_model/tool/outputs.py -> build/lib/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:23,488   creating build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:23,489   copying janis_core/ingestion/galaxy/internal_model/workflow/registers/StepOutputRegister.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:23,491   copying janis_core/ingestion/galaxy/internal_model/workflow/registers/__init__.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:23,492   copying janis_core/ingestion/galaxy/internal_model/workflow/registers/StepInputRegister.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:23,494   creating build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:23,495   copying janis_core/ingestion/galaxy/internal_model/workflow/step/__init__.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:23,497   copying janis_core/ingestion/galaxy/internal_model/workflow/step/metadata.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:23,498   copying janis_core/ingestion/galaxy/internal_model/workflow/step/inputs.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:23,500   copying janis_core/ingestion/galaxy/internal_model/workflow/step/outputs.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:23,502   copying janis_core/ingestion/galaxy/internal_model/workflow/step/step.py -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:23,504   creating build/lib/janis_core/tests/integration
2023-09-25T16:49:23,505   copying janis_core/tests/integration/__init__.py -> build/lib/janis_core/tests/integration
2023-09-25T16:49:23,507   copying janis_core/tests/integration/test_directorygenerator.py -> build/lib/janis_core/tests/integration
2023-09-25T16:49:23,509   creating build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,510   copying janis_core/tests/testtools/__init__.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,512   copying janis_core/tests/testtools/components.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,514   copying janis_core/tests/testtools/arrays.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,516   copying janis_core/tests/testtools/gridss.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,519   copying janis_core/tests/testtools/misc_commandtools.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,521   copying janis_core/tests/testtools/basics.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,523   copying janis_core/tests/testtools/unicycler.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,525   copying janis_core/tests/testtools/misc_codetools.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,527   copying janis_core/tests/testtools/fastqc.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,529   copying janis_core/tests/testtools/bwamem.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,531   copying janis_core/tests/testtools/types.py -> build/lib/janis_core/tests/testtools
2023-09-25T16:49:23,534   creating build/lib/janis_core/tests/mock
2023-09-25T16:49:23,535   copying janis_core/tests/mock/__init__.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,536   copying janis_core/tests/mock/mock_components.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,538   copying janis_core/tests/mock/mock_entities.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,539   copying janis_core/tests/mock/mock_xmltool.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,541   copying janis_core/tests/mock/mock_params.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,543   copying janis_core/tests/mock/mock_workflow.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,544   copying janis_core/tests/mock/mock_metadata.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,546   copying janis_core/tests/mock/mock_tool.py -> build/lib/janis_core/tests/mock
2023-09-25T16:49:23,549   creating build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,550   copying janis_core/tests/testworkflows/ordering.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,552   copying janis_core/tests/testworkflows/call.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,554   copying janis_core/tests/testworkflows/combos.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,556   copying janis_core/tests/testworkflows/__init__.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,557   copying janis_core/tests/testworkflows/assembly.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,559   copying janis_core/tests/testworkflows/components.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,562   copying janis_core/tests/testworkflows/trace.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,564   copying janis_core/tests/testworkflows/subworkflow.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,565   copying janis_core/tests/testworkflows/naming.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,567   copying janis_core/tests/testworkflows/files_directories_to_create.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,569   copying janis_core/tests/testworkflows/additional_features.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,571   copying janis_core/tests/testworkflows/scatter.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,573   copying janis_core/tests/testworkflows/preprocessing_prune.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,576   copying janis_core/tests/testworkflows/script.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,577   copying janis_core/tests/testworkflows/process_inputs.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,579   copying janis_core/tests/testworkflows/plumbing_scatter.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,580   copying janis_core/tests/testworkflows/unwrap.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,583   copying janis_core/tests/testworkflows/plumbing_type_mismatch.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,584   copying janis_core/tests/testworkflows/outputs.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,586   copying janis_core/tests/testworkflows/data_sources.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,589   copying janis_core/tests/testworkflows/file_pairs.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,591   copying janis_core/tests/testworkflows/mandatory_types.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,593   copying janis_core/tests/testworkflows/codetools.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,595   copying janis_core/tests/testworkflows/optional_types.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,596   copying janis_core/tests/testworkflows/basics.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,599   copying janis_core/tests/testworkflows/all_input_types.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,601   copying janis_core/tests/testworkflows/subworkflow2.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,603   copying janis_core/tests/testworkflows/string_formatter.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,604   copying janis_core/tests/testworkflows/secondaries.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,606   copying janis_core/tests/testworkflows/plumbing_edge_cases.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,608   copying janis_core/tests/testworkflows/minimal_task_inputs.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,610   copying janis_core/tests/testworkflows/duplicate_tasks.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,612   copying janis_core/tests/testworkflows/operations.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,614   copying janis_core/tests/testworkflows/filenames.py -> build/lib/janis_core/tests/testworkflows
2023-09-25T16:49:23,616   creating build/lib/janis_core/tests/mock/cwl
2023-09-25T16:49:23,617   copying janis_core/tests/mock/cwl/__init__.py -> build/lib/janis_core/tests/mock/cwl
2023-09-25T16:49:23,619   copying janis_core/tests/mock/cwl/tools.py -> build/lib/janis_core/tests/mock/cwl
2023-09-25T16:49:23,621   copying janis_core/tests/mock/cwl/workflows.py -> build/lib/janis_core/tests/mock/cwl
2023-09-25T16:49:23,623   creating build/lib/janis_core/settings/ingest
2023-09-25T16:49:23,624   copying janis_core/settings/ingest/galaxy.py -> build/lib/janis_core/settings/ingest
2023-09-25T16:49:23,625   copying janis_core/settings/ingest/__init__.py -> build/lib/janis_core/settings/ingest
2023-09-25T16:49:23,627   copying janis_core/settings/ingest/cwl.py -> build/lib/janis_core/settings/ingest
2023-09-25T16:49:23,629   copying janis_core/settings/ingest/general.py -> build/lib/janis_core/settings/ingest
2023-09-25T16:49:23,631   creating build/lib/janis_core/settings/translate
2023-09-25T16:49:23,631   copying janis_core/settings/translate/__init__.py -> build/lib/janis_core/settings/translate
2023-09-25T16:49:23,633   copying janis_core/settings/translate/general.py -> build/lib/janis_core/settings/translate
2023-09-25T16:49:23,635   copying janis_core/settings/translate/nextflow.py -> build/lib/janis_core/settings/translate
2023-09-25T16:49:23,637   running egg_info
2023-09-25T16:49:23,641   writing janis_pipelines.core.egg-info/PKG-INFO
2023-09-25T16:49:23,646   writing dependency_links to janis_pipelines.core.egg-info/dependency_links.txt
2023-09-25T16:49:23,647   writing requirements to janis_pipelines.core.egg-info/requires.txt
2023-09-25T16:49:23,649   writing top-level names to janis_pipelines.core.egg-info/top_level.txt
2023-09-25T16:49:23,713   reading manifest file 'janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:23,764   adding license file 'LICENSE'
2023-09-25T16:49:23,845   writing manifest file 'janis_pipelines.core.egg-info/SOURCES.txt'
2023-09-25T16:49:23,851   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.ingestion.data' is absent from the `packages` configuration.
2023-09-25T16:49:23,852   !!

2023-09-25T16:49:23,853           ********************************************************************************
2023-09-25T16:49:23,854           ############################
2023-09-25T16:49:23,855           # Package would be ignored #
2023-09-25T16:49:23,855           ############################
2023-09-25T16:49:23,856           Python recognizes 'janis_core.ingestion.data' as an importable package[^1],
2023-09-25T16:49:23,857           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,858           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,859           package, please make sure that 'janis_core.ingestion.data' is explicitly added
2023-09-25T16:49:23,860           to the `packages` configuration field.

2023-09-25T16:49:23,860           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,861           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,861           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,862           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,863           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,864           If you don't want 'janis_core.ingestion.data' to be distributed and are
2023-09-25T16:49:23,865           already explicitly excluding 'janis_core.ingestion.data' via
2023-09-25T16:49:23,865           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,866           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,866           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,867           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,868           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,869           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:23,870                 even if it does not contain any `.py` files.
2023-09-25T16:49:23,870                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:23,871                 directory, all directories are treated like packages.
2023-09-25T16:49:23,871           ********************************************************************************

2023-09-25T16:49:23,872   !!
2023-09-25T16:49:23,873     check.warn(importable)
2023-09-25T16:49:23,874   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.ingestion.data.galaxy' is absent from the `packages` configuration.
2023-09-25T16:49:23,874   !!

2023-09-25T16:49:23,876           ********************************************************************************
2023-09-25T16:49:23,876           ############################
2023-09-25T16:49:23,877           # Package would be ignored #
2023-09-25T16:49:23,877           ############################
2023-09-25T16:49:23,878           Python recognizes 'janis_core.ingestion.data.galaxy' as an importable package[^1],
2023-09-25T16:49:23,879           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,880           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,881           package, please make sure that 'janis_core.ingestion.data.galaxy' is explicitly added
2023-09-25T16:49:23,881           to the `packages` configuration field.

2023-09-25T16:49:23,882           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,883           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,883           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,884           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,886           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,887           If you don't want 'janis_core.ingestion.data.galaxy' to be distributed and are
2023-09-25T16:49:23,887           already explicitly excluding 'janis_core.ingestion.data.galaxy' via
2023-09-25T16:49:23,888           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,889           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,890           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,892           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,893           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,894           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:23,895                 even if it does not contain any `.py` files.
2023-09-25T16:49:23,895                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:23,896                 directory, all directories are treated like packages.
2023-09-25T16:49:23,896           ********************************************************************************

2023-09-25T16:49:23,897   !!
2023-09-25T16:49:23,897     check.warn(importable)
2023-09-25T16:49:23,898   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data' is absent from the `packages` configuration.
2023-09-25T16:49:23,898   !!

2023-09-25T16:49:23,900           ********************************************************************************
2023-09-25T16:49:23,900           ############################
2023-09-25T16:49:23,900           # Package would be ignored #
2023-09-25T16:49:23,901           ############################
2023-09-25T16:49:23,901           Python recognizes 'janis_core.tests.data' as an importable package[^1],
2023-09-25T16:49:23,902           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,903           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,903           package, please make sure that 'janis_core.tests.data' is explicitly added
2023-09-25T16:49:23,904           to the `packages` configuration field.

2023-09-25T16:49:23,904           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,905           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,905           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,907           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,908           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,909           If you don't want 'janis_core.tests.data' to be distributed and are
2023-09-25T16:49:23,910           already explicitly excluding 'janis_core.tests.data' via
2023-09-25T16:49:23,910           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,911           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,912           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,913           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,914           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,915           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:23,916                 even if it does not contain any `.py` files.
2023-09-25T16:49:23,916                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:23,917                 directory, all directories are treated like packages.
2023-09-25T16:49:23,917           ********************************************************************************

2023-09-25T16:49:23,918   !!
2023-09-25T16:49:23,919     check.warn(importable)
2023-09-25T16:49:23,920   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.tools' is absent from the `packages` configuration.
2023-09-25T16:49:23,920   !!

2023-09-25T16:49:23,921           ********************************************************************************
2023-09-25T16:49:23,922           ############################
2023-09-25T16:49:23,923           # Package would be ignored #
2023-09-25T16:49:23,923           ############################
2023-09-25T16:49:23,924           Python recognizes 'janis_core.tests.data.cwl.tools' as an importable package[^1],
2023-09-25T16:49:23,924           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,925           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,925           package, please make sure that 'janis_core.tests.data.cwl.tools' is explicitly added
2023-09-25T16:49:23,926           to the `packages` configuration field.

2023-09-25T16:49:23,927           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,927           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,927           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,928           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,929           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,930           If you don't want 'janis_core.tests.data.cwl.tools' to be distributed and are
2023-09-25T16:49:23,930           already explicitly excluding 'janis_core.tests.data.cwl.tools' via
2023-09-25T16:49:23,931           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,931           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,932           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,932           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,933           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,935           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:23,936                 even if it does not contain any `.py` files.
2023-09-25T16:49:23,936                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:23,937                 directory, all directories are treated like packages.
2023-09-25T16:49:23,937           ********************************************************************************

2023-09-25T16:49:23,939   !!
2023-09-25T16:49:23,939     check.warn(importable)
2023-09-25T16:49:23,940   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.tools.datatypes' is absent from the `packages` configuration.
2023-09-25T16:49:23,940   !!

2023-09-25T16:49:23,942           ********************************************************************************
2023-09-25T16:49:23,942           ############################
2023-09-25T16:49:23,943           # Package would be ignored #
2023-09-25T16:49:23,943           ############################
2023-09-25T16:49:23,944           Python recognizes 'janis_core.tests.data.cwl.tools.datatypes' as an importable package[^1],
2023-09-25T16:49:23,944           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,945           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,946           package, please make sure that 'janis_core.tests.data.cwl.tools.datatypes' is explicitly added
2023-09-25T16:49:23,947           to the `packages` configuration field.

2023-09-25T16:49:23,948           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,948           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,949           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,950           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,951           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,953           If you don't want 'janis_core.tests.data.cwl.tools.datatypes' to be distributed and are
2023-09-25T16:49:23,953           already explicitly excluding 'janis_core.tests.data.cwl.tools.datatypes' via
2023-09-25T16:49:23,954           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,954           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,954           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,955           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,956           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,957           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:23,958                 even if it does not contain any `.py` files.
2023-09-25T16:49:23,958                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:23,959                 directory, all directories are treated like packages.
2023-09-25T16:49:23,959           ********************************************************************************

2023-09-25T16:49:23,960   !!
2023-09-25T16:49:23,960     check.warn(importable)
2023-09-25T16:49:23,961   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.tools.expressions' is absent from the `packages` configuration.
2023-09-25T16:49:23,961   !!

2023-09-25T16:49:23,962           ********************************************************************************
2023-09-25T16:49:23,962           ############################
2023-09-25T16:49:23,963           # Package would be ignored #
2023-09-25T16:49:23,963           ############################
2023-09-25T16:49:23,964           Python recognizes 'janis_core.tests.data.cwl.tools.expressions' as an importable package[^1],
2023-09-25T16:49:23,964           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,965           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,966           package, please make sure that 'janis_core.tests.data.cwl.tools.expressions' is explicitly added
2023-09-25T16:49:23,967           to the `packages` configuration field.

2023-09-25T16:49:23,968           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,968           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,969           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,970           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,971           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,972           If you don't want 'janis_core.tests.data.cwl.tools.expressions' to be distributed and are
2023-09-25T16:49:23,973           already explicitly excluding 'janis_core.tests.data.cwl.tools.expressions' via
2023-09-25T16:49:23,973           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,974           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,974           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,975           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,977           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,978           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:23,979                 even if it does not contain any `.py` files.
2023-09-25T16:49:23,980                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:23,980                 directory, all directories are treated like packages.
2023-09-25T16:49:23,981           ********************************************************************************

2023-09-25T16:49:23,982   !!
2023-09-25T16:49:23,982     check.warn(importable)
2023-09-25T16:49:23,983   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.tools.expressiontools' is absent from the `packages` configuration.
2023-09-25T16:49:23,983   !!

2023-09-25T16:49:23,984           ********************************************************************************
2023-09-25T16:49:23,984           ############################
2023-09-25T16:49:23,985           # Package would be ignored #
2023-09-25T16:49:23,985           ############################
2023-09-25T16:49:23,986           Python recognizes 'janis_core.tests.data.cwl.tools.expressiontools' as an importable package[^1],
2023-09-25T16:49:23,986           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:23,987           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:23,987           package, please make sure that 'janis_core.tests.data.cwl.tools.expressiontools' is explicitly added
2023-09-25T16:49:23,988           to the `packages` configuration field.

2023-09-25T16:49:23,989           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:23,989           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:23,989           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:23,990           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:23,992           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:23,993           If you don't want 'janis_core.tests.data.cwl.tools.expressiontools' to be distributed and are
2023-09-25T16:49:23,994           already explicitly excluding 'janis_core.tests.data.cwl.tools.expressiontools' via
2023-09-25T16:49:23,994           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:23,995           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:23,995           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:23,997           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:23,998           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:23,999           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,000                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,001                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,001                 directory, all directories are treated like packages.
2023-09-25T16:49:24,002           ********************************************************************************

2023-09-25T16:49:24,003   !!
2023-09-25T16:49:24,003     check.warn(importable)
2023-09-25T16:49:24,004   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.tools.requirements' is absent from the `packages` configuration.
2023-09-25T16:49:24,005   !!

2023-09-25T16:49:24,006           ********************************************************************************
2023-09-25T16:49:24,006           ############################
2023-09-25T16:49:24,007           # Package would be ignored #
2023-09-25T16:49:24,007           ############################
2023-09-25T16:49:24,008           Python recognizes 'janis_core.tests.data.cwl.tools.requirements' as an importable package[^1],
2023-09-25T16:49:24,008           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,010           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,010           package, please make sure that 'janis_core.tests.data.cwl.tools.requirements' is explicitly added
2023-09-25T16:49:24,011           to the `packages` configuration field.

2023-09-25T16:49:24,011           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,012           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,012           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,013           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,014           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,014           If you don't want 'janis_core.tests.data.cwl.tools.requirements' to be distributed and are
2023-09-25T16:49:24,015           already explicitly excluding 'janis_core.tests.data.cwl.tools.requirements' via
2023-09-25T16:49:24,015           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,015           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,016           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,017           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,017           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,019           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,019                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,019                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,020                 directory, all directories are treated like packages.
2023-09-25T16:49:24,020           ********************************************************************************

2023-09-25T16:49:24,021   !!
2023-09-25T16:49:24,022     check.warn(importable)
2023-09-25T16:49:24,023   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.tools.requirements.Python' is absent from the `packages` configuration.
2023-09-25T16:49:24,023   !!

2023-09-25T16:49:24,024           ********************************************************************************
2023-09-25T16:49:24,025           ############################
2023-09-25T16:49:24,026           # Package would be ignored #
2023-09-25T16:49:24,026           ############################
2023-09-25T16:49:24,027           Python recognizes 'janis_core.tests.data.cwl.tools.requirements.Python' as an importable package[^1],
2023-09-25T16:49:24,027           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,028           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,029           package, please make sure that 'janis_core.tests.data.cwl.tools.requirements.Python' is explicitly added
2023-09-25T16:49:24,029           to the `packages` configuration field.

2023-09-25T16:49:24,030           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,031           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,031           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,032           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,034           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,035           If you don't want 'janis_core.tests.data.cwl.tools.requirements.Python' to be distributed and are
2023-09-25T16:49:24,035           already explicitly excluding 'janis_core.tests.data.cwl.tools.requirements.Python' via
2023-09-25T16:49:24,036           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,037           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,037           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,038           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,039           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,040           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,041                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,041                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,041                 directory, all directories are treated like packages.
2023-09-25T16:49:24,042           ********************************************************************************

2023-09-25T16:49:24,043   !!
2023-09-25T16:49:24,043     check.warn(importable)
2023-09-25T16:49:24,043   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows' is absent from the `packages` configuration.
2023-09-25T16:49:24,044   !!

2023-09-25T16:49:24,045           ********************************************************************************
2023-09-25T16:49:24,045           ############################
2023-09-25T16:49:24,045           # Package would be ignored #
2023-09-25T16:49:24,046           ############################
2023-09-25T16:49:24,046           Python recognizes 'janis_core.tests.data.cwl.workflows' as an importable package[^1],
2023-09-25T16:49:24,047           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,048           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,048           package, please make sure that 'janis_core.tests.data.cwl.workflows' is explicitly added
2023-09-25T16:49:24,049           to the `packages` configuration field.

2023-09-25T16:49:24,050           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,051           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,051           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,052           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,054           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,055           If you don't want 'janis_core.tests.data.cwl.workflows' to be distributed and are
2023-09-25T16:49:24,055           already explicitly excluding 'janis_core.tests.data.cwl.workflows' via
2023-09-25T16:49:24,056           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,056           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,057           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,058           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,059           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,060           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,061                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,061                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,062                 directory, all directories are treated like packages.
2023-09-25T16:49:24,063           ********************************************************************************

2023-09-25T16:49:24,064   !!
2023-09-25T16:49:24,064     check.warn(importable)
2023-09-25T16:49:24,065   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.CroMaSt' is absent from the `packages` configuration.
2023-09-25T16:49:24,066   !!

2023-09-25T16:49:24,067           ********************************************************************************
2023-09-25T16:49:24,067           ############################
2023-09-25T16:49:24,067           # Package would be ignored #
2023-09-25T16:49:24,068           ############################
2023-09-25T16:49:24,068           Python recognizes 'janis_core.tests.data.cwl.workflows.CroMaSt' as an importable package[^1],
2023-09-25T16:49:24,069           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,069           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,070           package, please make sure that 'janis_core.tests.data.cwl.workflows.CroMaSt' is explicitly added
2023-09-25T16:49:24,070           to the `packages` configuration field.

2023-09-25T16:49:24,071           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,071           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,072           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,073           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,073           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,074           If you don't want 'janis_core.tests.data.cwl.workflows.CroMaSt' to be distributed and are
2023-09-25T16:49:24,075           already explicitly excluding 'janis_core.tests.data.cwl.workflows.CroMaSt' via
2023-09-25T16:49:24,075           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,075           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,076           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,077           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,078           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,080           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,080                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,081                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,082                 directory, all directories are treated like packages.
2023-09-25T16:49:24,082           ********************************************************************************

2023-09-25T16:49:24,083   !!
2023-09-25T16:49:24,084     check.warn(importable)
2023-09-25T16:49:24,084   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,085   !!

2023-09-25T16:49:24,086           ********************************************************************************
2023-09-25T16:49:24,086           ############################
2023-09-25T16:49:24,087           # Package would be ignored #
2023-09-25T16:49:24,087           ############################
2023-09-25T16:49:24,088           Python recognizes 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools' as an importable package[^1],
2023-09-25T16:49:24,088           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,089           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,090           package, please make sure that 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools' is explicitly added
2023-09-25T16:49:24,091           to the `packages` configuration field.

2023-09-25T16:49:24,092           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,092           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,093           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,094           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,095           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,095           If you don't want 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools' to be distributed and are
2023-09-25T16:49:24,096           already explicitly excluding 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools' via
2023-09-25T16:49:24,096           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,096           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,097           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,097           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,098           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,099           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,100                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,100                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,100                 directory, all directories are treated like packages.
2023-09-25T16:49:24,101           ********************************************************************************

2023-09-25T16:49:24,102   !!
2023-09-25T16:49:24,102     check.warn(importable)
2023-09-25T16:49:24,103   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools.Python' is absent from the `packages` configuration.
2023-09-25T16:49:24,103   !!

2023-09-25T16:49:24,104           ********************************************************************************
2023-09-25T16:49:24,105           ############################
2023-09-25T16:49:24,106           # Package would be ignored #
2023-09-25T16:49:24,106           ############################
2023-09-25T16:49:24,107           Python recognizes 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools.Python' as an importable package[^1],
2023-09-25T16:49:24,107           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,109           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,109           package, please make sure that 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools.Python' is explicitly added
2023-09-25T16:49:24,110           to the `packages` configuration field.

2023-09-25T16:49:24,111           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,111           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,112           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,113           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,114           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,114           If you don't want 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools.Python' to be distributed and are
2023-09-25T16:49:24,115           already explicitly excluding 'janis_core.tests.data.cwl.workflows.CroMaSt.Tools.Python' via
2023-09-25T16:49:24,115           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,116           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,116           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,118           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,119           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,120           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,120                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,120                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,121                 directory, all directories are treated like packages.
2023-09-25T16:49:24,121           ********************************************************************************

2023-09-25T16:49:24,122   !!
2023-09-25T16:49:24,122     check.warn(importable)
2023-09-25T16:49:24,123   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.CroMaSt.translated' is absent from the `packages` configuration.
2023-09-25T16:49:24,123   !!

2023-09-25T16:49:24,124           ********************************************************************************
2023-09-25T16:49:24,124           ############################
2023-09-25T16:49:24,124           # Package would be ignored #
2023-09-25T16:49:24,125           ############################
2023-09-25T16:49:24,125           Python recognizes 'janis_core.tests.data.cwl.workflows.CroMaSt.translated' as an importable package[^1],
2023-09-25T16:49:24,125           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,126           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,127           package, please make sure that 'janis_core.tests.data.cwl.workflows.CroMaSt.translated' is explicitly added
2023-09-25T16:49:24,127           to the `packages` configuration field.

2023-09-25T16:49:24,128           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,129           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,130           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,131           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,132           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,133           If you don't want 'janis_core.tests.data.cwl.workflows.CroMaSt.translated' to be distributed and are
2023-09-25T16:49:24,134           already explicitly excluding 'janis_core.tests.data.cwl.workflows.CroMaSt.translated' via
2023-09-25T16:49:24,134           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,135           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,135           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,136           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,137           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,139           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,139                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,140                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,140                 directory, all directories are treated like packages.
2023-09-25T16:49:24,141           ********************************************************************************

2023-09-25T16:49:24,142   !!
2023-09-25T16:49:24,142     check.warn(importable)
2023-09-25T16:49:24,143   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.CroMaSt.yml' is absent from the `packages` configuration.
2023-09-25T16:49:24,143   !!

2023-09-25T16:49:24,145           ********************************************************************************
2023-09-25T16:49:24,145           ############################
2023-09-25T16:49:24,145           # Package would be ignored #
2023-09-25T16:49:24,146           ############################
2023-09-25T16:49:24,146           Python recognizes 'janis_core.tests.data.cwl.workflows.CroMaSt.yml' as an importable package[^1],
2023-09-25T16:49:24,146           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,147           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,147           package, please make sure that 'janis_core.tests.data.cwl.workflows.CroMaSt.yml' is explicitly added
2023-09-25T16:49:24,148           to the `packages` configuration field.

2023-09-25T16:49:24,148           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,149           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,149           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,150           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,151           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,151           If you don't want 'janis_core.tests.data.cwl.workflows.CroMaSt.yml' to be distributed and are
2023-09-25T16:49:24,152           already explicitly excluding 'janis_core.tests.data.cwl.workflows.CroMaSt.yml' via
2023-09-25T16:49:24,152           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,153           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,153           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,154           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,155           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,157           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,158                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,158                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,159                 directory, all directories are treated like packages.
2023-09-25T16:49:24,159           ********************************************************************************

2023-09-25T16:49:24,160   !!
2023-09-25T16:49:24,161     check.warn(importable)
2023-09-25T16:49:24,162   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.align_sort_markdup.subworkflows' is absent from the `packages` configuration.
2023-09-25T16:49:24,162   !!

2023-09-25T16:49:24,163           ********************************************************************************
2023-09-25T16:49:24,164           ############################
2023-09-25T16:49:24,164           # Package would be ignored #
2023-09-25T16:49:24,165           ############################
2023-09-25T16:49:24,165           Python recognizes 'janis_core.tests.data.cwl.workflows.align_sort_markdup.subworkflows' as an importable package[^1],
2023-09-25T16:49:24,166           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,167           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,167           package, please make sure that 'janis_core.tests.data.cwl.workflows.align_sort_markdup.subworkflows' is explicitly added
2023-09-25T16:49:24,168           to the `packages` configuration field.

2023-09-25T16:49:24,169           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,169           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,170           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,171           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,172           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,172           If you don't want 'janis_core.tests.data.cwl.workflows.align_sort_markdup.subworkflows' to be distributed and are
2023-09-25T16:49:24,173           already explicitly excluding 'janis_core.tests.data.cwl.workflows.align_sort_markdup.subworkflows' via
2023-09-25T16:49:24,173           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,173           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,174           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,174           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,175           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,176           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,176                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,177                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,177                 directory, all directories are treated like packages.
2023-09-25T16:49:24,178           ********************************************************************************

2023-09-25T16:49:24,179   !!
2023-09-25T16:49:24,179     check.warn(importable)
2023-09-25T16:49:24,179   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.align_sort_markdup.tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,180   !!

2023-09-25T16:49:24,181           ********************************************************************************
2023-09-25T16:49:24,182           ############################
2023-09-25T16:49:24,182           # Package would be ignored #
2023-09-25T16:49:24,183           ############################
2023-09-25T16:49:24,184           Python recognizes 'janis_core.tests.data.cwl.workflows.align_sort_markdup.tools' as an importable package[^1],
2023-09-25T16:49:24,184           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,185           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,186           package, please make sure that 'janis_core.tests.data.cwl.workflows.align_sort_markdup.tools' is explicitly added
2023-09-25T16:49:24,186           to the `packages` configuration field.

2023-09-25T16:49:24,187           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,188           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,188           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,189           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,190           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,191           If you don't want 'janis_core.tests.data.cwl.workflows.align_sort_markdup.tools' to be distributed and are
2023-09-25T16:49:24,191           already explicitly excluding 'janis_core.tests.data.cwl.workflows.align_sort_markdup.tools' via
2023-09-25T16:49:24,192           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,192           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,193           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,194           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,195           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,196           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,197                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,197                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,197                 directory, all directories are treated like packages.
2023-09-25T16:49:24,198           ********************************************************************************

2023-09-25T16:49:24,198   !!
2023-09-25T16:49:24,199     check.warn(importable)
2023-09-25T16:49:24,199   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.structuralvariants' is absent from the `packages` configuration.
2023-09-25T16:49:24,199   !!

2023-09-25T16:49:24,200           ********************************************************************************
2023-09-25T16:49:24,200           ############################
2023-09-25T16:49:24,201           # Package would be ignored #
2023-09-25T16:49:24,201           ############################
2023-09-25T16:49:24,202           Python recognizes 'janis_core.tests.data.cwl.workflows.structuralvariants' as an importable package[^1],
2023-09-25T16:49:24,202           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,203           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,203           package, please make sure that 'janis_core.tests.data.cwl.workflows.structuralvariants' is explicitly added
2023-09-25T16:49:24,204           to the `packages` configuration field.

2023-09-25T16:49:24,205           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,205           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,206           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,207           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,208           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,209           If you don't want 'janis_core.tests.data.cwl.workflows.structuralvariants' to be distributed and are
2023-09-25T16:49:24,209           already explicitly excluding 'janis_core.tests.data.cwl.workflows.structuralvariants' via
2023-09-25T16:49:24,210           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,211           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,211           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,213           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,214           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,216           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,217                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,217                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,218                 directory, all directories are treated like packages.
2023-09-25T16:49:24,218           ********************************************************************************

2023-09-25T16:49:24,219   !!
2023-09-25T16:49:24,220     check.warn(importable)
2023-09-25T16:49:24,221   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations' is absent from the `packages` configuration.
2023-09-25T16:49:24,221   !!

2023-09-25T16:49:24,222           ********************************************************************************
2023-09-25T16:49:24,223           ############################
2023-09-25T16:49:24,224           # Package would be ignored #
2023-09-25T16:49:24,224           ############################
2023-09-25T16:49:24,225           Python recognizes 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations' as an importable package[^1],
2023-09-25T16:49:24,225           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,226           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,226           package, please make sure that 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations' is explicitly added
2023-09-25T16:49:24,227           to the `packages` configuration field.

2023-09-25T16:49:24,227           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,228           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,228           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,229           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,229           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,230           If you don't want 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations' to be distributed and are
2023-09-25T16:49:24,231           already explicitly excluding 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations' via
2023-09-25T16:49:24,231           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,231           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,232           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,233           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,234           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,235           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,236                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,237                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,237                 directory, all directories are treated like packages.
2023-09-25T16:49:24,238           ********************************************************************************

2023-09-25T16:49:24,239   !!
2023-09-25T16:49:24,239     check.warn(importable)
2023-09-25T16:49:24,240   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations.subworkflows' is absent from the `packages` configuration.
2023-09-25T16:49:24,240   !!

2023-09-25T16:49:24,241           ********************************************************************************
2023-09-25T16:49:24,242           ############################
2023-09-25T16:49:24,242           # Package would be ignored #
2023-09-25T16:49:24,243           ############################
2023-09-25T16:49:24,243           Python recognizes 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations.subworkflows' as an importable package[^1],
2023-09-25T16:49:24,244           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,245           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,245           package, please make sure that 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations.subworkflows' is explicitly added
2023-09-25T16:49:24,246           to the `packages` configuration field.

2023-09-25T16:49:24,247           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,248           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,249           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,250           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,251           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,252           If you don't want 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations.subworkflows' to be distributed and are
2023-09-25T16:49:24,252           already explicitly excluding 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_operations.subworkflows' via
2023-09-25T16:49:24,253           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,253           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,253           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,254           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,255           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,257           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,257                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,257                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,258                 directory, all directories are treated like packages.
2023-09-25T16:49:24,259           ********************************************************************************

2023-09-25T16:49:24,259   !!
2023-09-25T16:49:24,260     check.warn(importable)
2023-09-25T16:49:24,261   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_workflow' is absent from the `packages` configuration.
2023-09-25T16:49:24,261   !!

2023-09-25T16:49:24,262           ********************************************************************************
2023-09-25T16:49:24,263           ############################
2023-09-25T16:49:24,264           # Package would be ignored #
2023-09-25T16:49:24,264           ############################
2023-09-25T16:49:24,265           Python recognizes 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_workflow' as an importable package[^1],
2023-09-25T16:49:24,265           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,267           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,267           package, please make sure that 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_workflow' is explicitly added
2023-09-25T16:49:24,268           to the `packages` configuration field.

2023-09-25T16:49:24,268           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,269           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,269           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,270           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,272           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,273           If you don't want 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_workflow' to be distributed and are
2023-09-25T16:49:24,274           already explicitly excluding 'janis_core.tests.data.cwl.workflows.structuralvariants.abstract_workflow' via
2023-09-25T16:49:24,275           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,276           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,276           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,278           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,278           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,280           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,280                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,280                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,281                 directory, all directories are treated like packages.
2023-09-25T16:49:24,281           ********************************************************************************

2023-09-25T16:49:24,282   !!
2023-09-25T16:49:24,282     check.warn(importable)
2023-09-25T16:49:24,283   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.structuralvariants.subworkflows' is absent from the `packages` configuration.
2023-09-25T16:49:24,283   !!

2023-09-25T16:49:24,284           ********************************************************************************
2023-09-25T16:49:24,284           ############################
2023-09-25T16:49:24,285           # Package would be ignored #
2023-09-25T16:49:24,286           ############################
2023-09-25T16:49:24,286           Python recognizes 'janis_core.tests.data.cwl.workflows.structuralvariants.subworkflows' as an importable package[^1],
2023-09-25T16:49:24,286           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,287           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,288           package, please make sure that 'janis_core.tests.data.cwl.workflows.structuralvariants.subworkflows' is explicitly added
2023-09-25T16:49:24,288           to the `packages` configuration field.

2023-09-25T16:49:24,290           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,290           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,291           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,292           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,293           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,294           If you don't want 'janis_core.tests.data.cwl.workflows.structuralvariants.subworkflows' to be distributed and are
2023-09-25T16:49:24,295           already explicitly excluding 'janis_core.tests.data.cwl.workflows.structuralvariants.subworkflows' via
2023-09-25T16:49:24,296           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,296           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,297           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,298           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,299           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,300           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,301                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,301                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,302                 directory, all directories are treated like packages.
2023-09-25T16:49:24,303           ********************************************************************************

2023-09-25T16:49:24,304   !!
2023-09-25T16:49:24,304     check.warn(importable)
2023-09-25T16:49:24,305   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.structuralvariants.tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,306   !!

2023-09-25T16:49:24,307           ********************************************************************************
2023-09-25T16:49:24,307           ############################
2023-09-25T16:49:24,308           # Package would be ignored #
2023-09-25T16:49:24,308           ############################
2023-09-25T16:49:24,308           Python recognizes 'janis_core.tests.data.cwl.workflows.structuralvariants.tools' as an importable package[^1],
2023-09-25T16:49:24,309           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,310           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,310           package, please make sure that 'janis_core.tests.data.cwl.workflows.structuralvariants.tools' is explicitly added
2023-09-25T16:49:24,310           to the `packages` configuration field.

2023-09-25T16:49:24,311           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,312           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,312           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,313           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,314           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,314           If you don't want 'janis_core.tests.data.cwl.workflows.structuralvariants.tools' to be distributed and are
2023-09-25T16:49:24,315           already explicitly excluding 'janis_core.tests.data.cwl.workflows.structuralvariants.tools' via
2023-09-25T16:49:24,315           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,316           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,317           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,318           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,319           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,321           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,321                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,322                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,323                 directory, all directories are treated like packages.
2023-09-25T16:49:24,323           ********************************************************************************

2023-09-25T16:49:24,324   !!
2023-09-25T16:49:24,325     check.warn(importable)
2023-09-25T16:49:24,325   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.cwl.workflows.subworkflow_test' is absent from the `packages` configuration.
2023-09-25T16:49:24,326   !!

2023-09-25T16:49:24,327           ********************************************************************************
2023-09-25T16:49:24,327           ############################
2023-09-25T16:49:24,328           # Package would be ignored #
2023-09-25T16:49:24,328           ############################
2023-09-25T16:49:24,329           Python recognizes 'janis_core.tests.data.cwl.workflows.subworkflow_test' as an importable package[^1],
2023-09-25T16:49:24,329           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,330           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,331           package, please make sure that 'janis_core.tests.data.cwl.workflows.subworkflow_test' is explicitly added
2023-09-25T16:49:24,332           to the `packages` configuration field.

2023-09-25T16:49:24,333           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,333           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,334           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,334           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,335           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,336           If you don't want 'janis_core.tests.data.cwl.workflows.subworkflow_test' to be distributed and are
2023-09-25T16:49:24,336           already explicitly excluding 'janis_core.tests.data.cwl.workflows.subworkflow_test' via
2023-09-25T16:49:24,337           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,337           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,337           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,338           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,339           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,340           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,340                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,341                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,341                 directory, all directories are treated like packages.
2023-09-25T16:49:24,342           ********************************************************************************

2023-09-25T16:49:24,343   !!
2023-09-25T16:49:24,343     check.warn(importable)
2023-09-25T16:49:24,344   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.galaxy' is absent from the `packages` configuration.
2023-09-25T16:49:24,344   !!

2023-09-25T16:49:24,346           ********************************************************************************
2023-09-25T16:49:24,346           ############################
2023-09-25T16:49:24,347           # Package would be ignored #
2023-09-25T16:49:24,347           ############################
2023-09-25T16:49:24,348           Python recognizes 'janis_core.tests.data.galaxy' as an importable package[^1],
2023-09-25T16:49:24,349           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,350           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,351           package, please make sure that 'janis_core.tests.data.galaxy' is explicitly added
2023-09-25T16:49:24,351           to the `packages` configuration field.

2023-09-25T16:49:24,352           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,353           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,353           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,354           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,355           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,357           If you don't want 'janis_core.tests.data.galaxy' to be distributed and are
2023-09-25T16:49:24,358           already explicitly excluding 'janis_core.tests.data.galaxy' via
2023-09-25T16:49:24,359           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,360           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,361           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,362           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,364           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,366           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,367                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,368                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,368                 directory, all directories are treated like packages.
2023-09-25T16:49:24,370           ********************************************************************************

2023-09-25T16:49:24,371   !!
2023-09-25T16:49:24,372     check.warn(importable)
2023-09-25T16:49:24,373   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.galaxy.abricate' is absent from the `packages` configuration.
2023-09-25T16:49:24,373   !!

2023-09-25T16:49:24,375           ********************************************************************************
2023-09-25T16:49:24,375           ############################
2023-09-25T16:49:24,376           # Package would be ignored #
2023-09-25T16:49:24,376           ############################
2023-09-25T16:49:24,377           Python recognizes 'janis_core.tests.data.galaxy.abricate' as an importable package[^1],
2023-09-25T16:49:24,378           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,379           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,380           package, please make sure that 'janis_core.tests.data.galaxy.abricate' is explicitly added
2023-09-25T16:49:24,380           to the `packages` configuration field.

2023-09-25T16:49:24,381           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,382           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,382           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,384           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,385           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,386           If you don't want 'janis_core.tests.data.galaxy.abricate' to be distributed and are
2023-09-25T16:49:24,387           already explicitly excluding 'janis_core.tests.data.galaxy.abricate' via
2023-09-25T16:49:24,387           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,388           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,389           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,390           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,391           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,392           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,393                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,394                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,394                 directory, all directories are treated like packages.
2023-09-25T16:49:24,395           ********************************************************************************

2023-09-25T16:49:24,396   !!
2023-09-25T16:49:24,396     check.warn(importable)
2023-09-25T16:49:24,397   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis' is absent from the `packages` configuration.
2023-09-25T16:49:24,398   !!

2023-09-25T16:49:24,399           ********************************************************************************
2023-09-25T16:49:24,400           ############################
2023-09-25T16:49:24,400           # Package would be ignored #
2023-09-25T16:49:24,401           ############################
2023-09-25T16:49:24,401           Python recognizes 'janis_core.tests.data.janis' as an importable package[^1],
2023-09-25T16:49:24,402           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,403           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,403           package, please make sure that 'janis_core.tests.data.janis' is explicitly added
2023-09-25T16:49:24,403           to the `packages` configuration field.

2023-09-25T16:49:24,404           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,405           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,405           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,406           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,407           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,408           If you don't want 'janis_core.tests.data.janis' to be distributed and are
2023-09-25T16:49:24,412           already explicitly excluding 'janis_core.tests.data.janis' via
2023-09-25T16:49:24,413           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,414           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,414           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,415           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,416           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,428           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,464                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,468                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,468                 directory, all directories are treated like packages.
2023-09-25T16:49:24,469           ********************************************************************************

2023-09-25T16:49:24,470   !!
2023-09-25T16:49:24,470     check.warn(importable)
2023-09-25T16:49:24,471   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.simple' is absent from the `packages` configuration.
2023-09-25T16:49:24,472   !!

2023-09-25T16:49:24,473           ********************************************************************************
2023-09-25T16:49:24,473           ############################
2023-09-25T16:49:24,474           # Package would be ignored #
2023-09-25T16:49:24,474           ############################
2023-09-25T16:49:24,475           Python recognizes 'janis_core.tests.data.janis.simple' as an importable package[^1],
2023-09-25T16:49:24,475           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,477           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,477           package, please make sure that 'janis_core.tests.data.janis.simple' is explicitly added
2023-09-25T16:49:24,478           to the `packages` configuration field.

2023-09-25T16:49:24,479           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,482           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,487           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,493           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,494           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,495           If you don't want 'janis_core.tests.data.janis.simple' to be distributed and are
2023-09-25T16:49:24,496           already explicitly excluding 'janis_core.tests.data.janis.simple' via
2023-09-25T16:49:24,496           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,496           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,497           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,498           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,502           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,504           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,504                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,505                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,505                 directory, all directories are treated like packages.
2023-09-25T16:49:24,506           ********************************************************************************

2023-09-25T16:49:24,506   !!
2023-09-25T16:49:24,507     check.warn(importable)
2023-09-25T16:49:24,507   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.simple.scripts' is absent from the `packages` configuration.
2023-09-25T16:49:24,508   !!

2023-09-25T16:49:24,509           ********************************************************************************
2023-09-25T16:49:24,509           ############################
2023-09-25T16:49:24,510           # Package would be ignored #
2023-09-25T16:49:24,510           ############################
2023-09-25T16:49:24,511           Python recognizes 'janis_core.tests.data.janis.simple.scripts' as an importable package[^1],
2023-09-25T16:49:24,511           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,512           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,513           package, please make sure that 'janis_core.tests.data.janis.simple.scripts' is explicitly added
2023-09-25T16:49:24,514           to the `packages` configuration field.

2023-09-25T16:49:24,515           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,516           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,525           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,558           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,560           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,561           If you don't want 'janis_core.tests.data.janis.simple.scripts' to be distributed and are
2023-09-25T16:49:24,561           already explicitly excluding 'janis_core.tests.data.janis.simple.scripts' via
2023-09-25T16:49:24,562           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,562           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,563           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,564           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,565           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,567           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,567                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,568                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,569                 directory, all directories are treated like packages.
2023-09-25T16:49:24,570           ********************************************************************************

2023-09-25T16:49:24,572   !!
2023-09-25T16:49:24,573     check.warn(importable)
2023-09-25T16:49:24,573   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.simple.tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,573   !!

2023-09-25T16:49:24,575           ********************************************************************************
2023-09-25T16:49:24,575           ############################
2023-09-25T16:49:24,575           # Package would be ignored #
2023-09-25T16:49:24,576           ############################
2023-09-25T16:49:24,576           Python recognizes 'janis_core.tests.data.janis.simple.tools' as an importable package[^1],
2023-09-25T16:49:24,577           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,578           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,578           package, please make sure that 'janis_core.tests.data.janis.simple.tools' is explicitly added
2023-09-25T16:49:24,579           to the `packages` configuration field.

2023-09-25T16:49:24,580           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,580           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,581           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,582           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,584           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,585           If you don't want 'janis_core.tests.data.janis.simple.tools' to be distributed and are
2023-09-25T16:49:24,586           already explicitly excluding 'janis_core.tests.data.janis.simple.tools' via
2023-09-25T16:49:24,586           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,587           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,587           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,589           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,590           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,592           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,592                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,593                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,594                 directory, all directories are treated like packages.
2023-09-25T16:49:24,595           ********************************************************************************

2023-09-25T16:49:24,596   !!
2023-09-25T16:49:24,596     check.warn(importable)
2023-09-25T16:49:24,597   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.simple_truncated.scripts' is absent from the `packages` configuration.
2023-09-25T16:49:24,598   !!

2023-09-25T16:49:24,599           ********************************************************************************
2023-09-25T16:49:24,599           ############################
2023-09-25T16:49:24,600           # Package would be ignored #
2023-09-25T16:49:24,600           ############################
2023-09-25T16:49:24,601           Python recognizes 'janis_core.tests.data.janis.simple_truncated.scripts' as an importable package[^1],
2023-09-25T16:49:24,602           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,603           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,603           package, please make sure that 'janis_core.tests.data.janis.simple_truncated.scripts' is explicitly added
2023-09-25T16:49:24,604           to the `packages` configuration field.

2023-09-25T16:49:24,605           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,606           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,606           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,607           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,608           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,609           If you don't want 'janis_core.tests.data.janis.simple_truncated.scripts' to be distributed and are
2023-09-25T16:49:24,610           already explicitly excluding 'janis_core.tests.data.janis.simple_truncated.scripts' via
2023-09-25T16:49:24,611           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,611           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,612           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,613           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,614           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,616           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,617                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,618                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,618                 directory, all directories are treated like packages.
2023-09-25T16:49:24,619           ********************************************************************************

2023-09-25T16:49:24,620   !!
2023-09-25T16:49:24,621     check.warn(importable)
2023-09-25T16:49:24,622   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.simple_truncated.tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,622   !!

2023-09-25T16:49:24,623           ********************************************************************************
2023-09-25T16:49:24,624           ############################
2023-09-25T16:49:24,625           # Package would be ignored #
2023-09-25T16:49:24,625           ############################
2023-09-25T16:49:24,626           Python recognizes 'janis_core.tests.data.janis.simple_truncated.tools' as an importable package[^1],
2023-09-25T16:49:24,626           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,628           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,628           package, please make sure that 'janis_core.tests.data.janis.simple_truncated.tools' is explicitly added
2023-09-25T16:49:24,629           to the `packages` configuration field.

2023-09-25T16:49:24,630           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,631           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,632           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,633           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,634           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,636           If you don't want 'janis_core.tests.data.janis.simple_truncated.tools' to be distributed and are
2023-09-25T16:49:24,636           already explicitly excluding 'janis_core.tests.data.janis.simple_truncated.tools' via
2023-09-25T16:49:24,637           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,638           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,639           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,640           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,641           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,643           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,644                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,645                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,645                 directory, all directories are treated like packages.
2023-09-25T16:49:24,646           ********************************************************************************

2023-09-25T16:49:24,647   !!
2023-09-25T16:49:24,648     check.warn(importable)
2023-09-25T16:49:24,648   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.wgs_somatic_dep' is absent from the `packages` configuration.
2023-09-25T16:49:24,649   !!

2023-09-25T16:49:24,650           ********************************************************************************
2023-09-25T16:49:24,651           ############################
2023-09-25T16:49:24,652           # Package would be ignored #
2023-09-25T16:49:24,653           ############################
2023-09-25T16:49:24,653           Python recognizes 'janis_core.tests.data.janis.wgs_somatic_dep' as an importable package[^1],
2023-09-25T16:49:24,654           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,655           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,656           package, please make sure that 'janis_core.tests.data.janis.wgs_somatic_dep' is explicitly added
2023-09-25T16:49:24,656           to the `packages` configuration field.

2023-09-25T16:49:24,658           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,658           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,659           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,660           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,662           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,663           If you don't want 'janis_core.tests.data.janis.wgs_somatic_dep' to be distributed and are
2023-09-25T16:49:24,664           already explicitly excluding 'janis_core.tests.data.janis.wgs_somatic_dep' via
2023-09-25T16:49:24,665           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,665           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,666           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,667           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,668           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,670           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,671                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,672                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,672                 directory, all directories are treated like packages.
2023-09-25T16:49:24,673           ********************************************************************************

2023-09-25T16:49:24,674   !!
2023-09-25T16:49:24,675     check.warn(importable)
2023-09-25T16:49:24,676   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.wgs_somatic_dep.cwl' is absent from the `packages` configuration.
2023-09-25T16:49:24,676   !!

2023-09-25T16:49:24,678           ********************************************************************************
2023-09-25T16:49:24,678           ############################
2023-09-25T16:49:24,679           # Package would be ignored #
2023-09-25T16:49:24,679           ############################
2023-09-25T16:49:24,680           Python recognizes 'janis_core.tests.data.janis.wgs_somatic_dep.cwl' as an importable package[^1],
2023-09-25T16:49:24,680           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,681           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,682           package, please make sure that 'janis_core.tests.data.janis.wgs_somatic_dep.cwl' is explicitly added
2023-09-25T16:49:24,682           to the `packages` configuration field.

2023-09-25T16:49:24,683           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,684           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,684           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,685           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,687           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,688           If you don't want 'janis_core.tests.data.janis.wgs_somatic_dep.cwl' to be distributed and are
2023-09-25T16:49:24,688           already explicitly excluding 'janis_core.tests.data.janis.wgs_somatic_dep.cwl' via
2023-09-25T16:49:24,688           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,689           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,690           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,691           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,692           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,694           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,694                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,694                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,695                 directory, all directories are treated like packages.
2023-09-25T16:49:24,696           ********************************************************************************

2023-09-25T16:49:24,697   !!
2023-09-25T16:49:24,698     check.warn(importable)
2023-09-25T16:49:24,698   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.wgs_somatic_dep.cwl.tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,699   !!

2023-09-25T16:49:24,700           ********************************************************************************
2023-09-25T16:49:24,700           ############################
2023-09-25T16:49:24,701           # Package would be ignored #
2023-09-25T16:49:24,701           ############################
2023-09-25T16:49:24,702           Python recognizes 'janis_core.tests.data.janis.wgs_somatic_dep.cwl.tools' as an importable package[^1],
2023-09-25T16:49:24,702           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,703           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,704           package, please make sure that 'janis_core.tests.data.janis.wgs_somatic_dep.cwl.tools' is explicitly added
2023-09-25T16:49:24,704           to the `packages` configuration field.

2023-09-25T16:49:24,706           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,706           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,706           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,707           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,708           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,709           If you don't want 'janis_core.tests.data.janis.wgs_somatic_dep.cwl.tools' to be distributed and are
2023-09-25T16:49:24,709           already explicitly excluding 'janis_core.tests.data.janis.wgs_somatic_dep.cwl.tools' via
2023-09-25T16:49:24,710           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,710           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,710           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,711           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,712           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,713           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,714                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,714                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,715                 directory, all directories are treated like packages.
2023-09-25T16:49:24,715           ********************************************************************************

2023-09-25T16:49:24,716   !!
2023-09-25T16:49:24,716     check.warn(importable)
2023-09-25T16:49:24,717   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.wgs_somatic_dep.wdl' is absent from the `packages` configuration.
2023-09-25T16:49:24,718   !!

2023-09-25T16:49:24,718           ********************************************************************************
2023-09-25T16:49:24,719           ############################
2023-09-25T16:49:24,719           # Package would be ignored #
2023-09-25T16:49:24,720           ############################
2023-09-25T16:49:24,720           Python recognizes 'janis_core.tests.data.janis.wgs_somatic_dep.wdl' as an importable package[^1],
2023-09-25T16:49:24,721           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,722           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,722           package, please make sure that 'janis_core.tests.data.janis.wgs_somatic_dep.wdl' is explicitly added
2023-09-25T16:49:24,723           to the `packages` configuration field.

2023-09-25T16:49:24,724           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,724           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,725           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,726           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,727           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,728           If you don't want 'janis_core.tests.data.janis.wgs_somatic_dep.wdl' to be distributed and are
2023-09-25T16:49:24,729           already explicitly excluding 'janis_core.tests.data.janis.wgs_somatic_dep.wdl' via
2023-09-25T16:49:24,729           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,730           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,730           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,731           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,732           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,733           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,734                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,734                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,735                 directory, all directories are treated like packages.
2023-09-25T16:49:24,735           ********************************************************************************

2023-09-25T16:49:24,736   !!
2023-09-25T16:49:24,736     check.warn(importable)
2023-09-25T16:49:24,737   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.janis.wgs_somatic_dep.wdl.tools' is absent from the `packages` configuration.
2023-09-25T16:49:24,737   !!

2023-09-25T16:49:24,738           ********************************************************************************
2023-09-25T16:49:24,739           ############################
2023-09-25T16:49:24,739           # Package would be ignored #
2023-09-25T16:49:24,739           ############################
2023-09-25T16:49:24,740           Python recognizes 'janis_core.tests.data.janis.wgs_somatic_dep.wdl.tools' as an importable package[^1],
2023-09-25T16:49:24,740           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,741           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,741           package, please make sure that 'janis_core.tests.data.janis.wgs_somatic_dep.wdl.tools' is explicitly added
2023-09-25T16:49:24,742           to the `packages` configuration field.

2023-09-25T16:49:24,743           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,743           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,744           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,745           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,746           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,747           If you don't want 'janis_core.tests.data.janis.wgs_somatic_dep.wdl.tools' to be distributed and are
2023-09-25T16:49:24,747           already explicitly excluding 'janis_core.tests.data.janis.wgs_somatic_dep.wdl.tools' via
2023-09-25T16:49:24,748           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,748           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,749           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,750           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,750           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,752           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,752                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,753                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,753                 directory, all directories are treated like packages.
2023-09-25T16:49:24,754           ********************************************************************************

2023-09-25T16:49:24,755   !!
2023-09-25T16:49:24,755     check.warn(importable)
2023-09-25T16:49:24,756   /tmp/pip-build-env-60m_snib/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:204: _Warning: Package 'janis_core.tests.data.wdl' is absent from the `packages` configuration.
2023-09-25T16:49:24,756   !!

2023-09-25T16:49:24,757           ********************************************************************************
2023-09-25T16:49:24,758           ############################
2023-09-25T16:49:24,759           # Package would be ignored #
2023-09-25T16:49:24,759           ############################
2023-09-25T16:49:24,759           Python recognizes 'janis_core.tests.data.wdl' as an importable package[^1],
2023-09-25T16:49:24,760           but it is absent from setuptools' `packages` configuration.

2023-09-25T16:49:24,761           This leads to an ambiguous overall configuration. If you want to distribute this
2023-09-25T16:49:24,761           package, please make sure that 'janis_core.tests.data.wdl' is explicitly added
2023-09-25T16:49:24,761           to the `packages` configuration field.

2023-09-25T16:49:24,762           Alternatively, you can also rely on setuptools' discovery methods
2023-09-25T16:49:24,763           (for example by using `find_namespace_packages(...)`/`find_namespace:`
2023-09-25T16:49:24,763           instead of `find_packages(...)`/`find:`).

2023-09-25T16:49:24,764           You can read more about "package discovery" on setuptools documentation page:

2023-09-25T16:49:24,765           - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html

2023-09-25T16:49:24,766           If you don't want 'janis_core.tests.data.wdl' to be distributed and are
2023-09-25T16:49:24,766           already explicitly excluding 'janis_core.tests.data.wdl' via
2023-09-25T16:49:24,767           `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`,
2023-09-25T16:49:24,767           you can try to use `exclude_package_data`, or `include-package-data=False` in
2023-09-25T16:49:24,768           combination with a more fine grained `package-data` configuration.

2023-09-25T16:49:24,769           You can read more about "package data files" on setuptools documentation page:

2023-09-25T16:49:24,770           - https://setuptools.pypa.io/en/latest/userguide/datafiles.html


2023-09-25T16:49:24,771           [^1]: For Python, any directory (with suitable naming) can be imported,
2023-09-25T16:49:24,771                 even if it does not contain any `.py` files.
2023-09-25T16:49:24,772                 On the other hand, currently there is no concept of package data
2023-09-25T16:49:24,772                 directory, all directories are treated like packages.
2023-09-25T16:49:24,773           ********************************************************************************

2023-09-25T16:49:24,774   !!
2023-09-25T16:49:24,775     check.warn(importable)
2023-09-25T16:49:24,775   copying janis_core/messages/config.yaml -> build/lib/janis_core/messages
2023-09-25T16:49:24,775   creating build/lib/janis_core/ingestion/data
2023-09-25T16:49:24,776   copying janis_core/ingestion/data/janis_types.yaml -> build/lib/janis_core/ingestion/data
2023-09-25T16:49:24,776   copying janis_core/ingestion/data/logging_config.yaml -> build/lib/janis_core/ingestion/data
2023-09-25T16:49:24,777   creating build/lib/janis_core/ingestion/data/galaxy
2023-09-25T16:49:24,777   copying janis_core/ingestion/data/galaxy/galaxy_config.yaml -> build/lib/janis_core/ingestion/data/galaxy
2023-09-25T16:49:24,778   copying janis_core/ingestion/data/galaxy/datatypes_conf.xml.sample -> build/lib/janis_core/ingestion/data/galaxy
2023-09-25T16:49:24,778   creating build/lib/janis_core/tests/data
2023-09-25T16:49:24,779   copying janis_core/tests/data/aln.sam -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,779   copying janis_core/tests/data/aln.sorted.bam -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,780   copying janis_core/tests/data/aln.sorted.bam.bai -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,780   copying janis_core/tests/data/mutant_R1.fastq -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,781   copying janis_core/tests/data/test.txt -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,781   copying janis_core/tests/data/test_diff.txt -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,782   copying janis_core/tests/data/wildtype.fna -> build/lib/janis_core/tests/data
2023-09-25T16:49:24,782   creating build/lib/janis_core/tests/data/cwl
2023-09-25T16:49:24,783   creating build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,784   copying janis_core/tests/data/cwl/tools/BasicTestTool.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,784   copying janis_core/tests/data/cwl/tools/bwamem.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,784   copying janis_core/tests/data/cwl/tools/echo.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,785   copying janis_core/tests/data/cwl/tools/fastqc.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,785   copying janis_core/tests/data/cwl/tools/fastqc2.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,786   copying janis_core/tests/data/cwl/tools/gatk_haplotype_caller.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,786   copying janis_core/tests/data/cwl/tools/gatk_haplotype_caller_long.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,786   copying janis_core/tests/data/cwl/tools/rename_png.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,787   copying janis_core/tests/data/cwl/tools/rose.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,787   copying janis_core/tests/data/cwl/tools/samtools_flagstat.cwl -> build/lib/janis_core/tests/data/cwl/tools
2023-09-25T16:49:24,788   creating build/lib/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:24,788   copying janis_core/tests/data/cwl/tools/datatypes/array_types.cwl -> build/lib/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:24,789   copying janis_core/tests/data/cwl/tools/datatypes/basic_types.cwl -> build/lib/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:24,789   copying janis_core/tests/data/cwl/tools/datatypes/secondary_types.cwl -> build/lib/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:24,790   creating build/lib/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:24,790   copying janis_core/tests/data/cwl/tools/expressions/inputs_arguments.cwl -> build/lib/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:24,791   copying janis_core/tests/data/cwl/tools/expressions/outputs.cwl -> build/lib/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:24,791   copying janis_core/tests/data/cwl/tools/expressions/requirements.cwl -> build/lib/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:24,791   copying janis_core/tests/data/cwl/tools/expressions/resources.cwl -> build/lib/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:24,792   copying janis_core/tests/data/cwl/tools/expressions/streams.cwl -> build/lib/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:24,792   creating build/lib/janis_core/tests/data/cwl/tools/expressiontools
2023-09-25T16:49:24,793   copying janis_core/tests/data/cwl/tools/expressiontools/check_value.cwl -> build/lib/janis_core/tests/data/cwl/tools/expressiontools
2023-09-25T16:49:24,793   creating build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,794   copying janis_core/tests/data/cwl/tools/requirements/add_crossmapped2resmapped.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,794   copying janis_core/tests/data/cwl/tools/requirements/amplicon_architect.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,795   copying janis_core/tests/data/cwl/tools/requirements/antismash_v4.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,795   copying janis_core/tests/data/cwl/tools/requirements/bundle_secondaryfiles.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,796   copying janis_core/tests/data/cwl/tools/requirements/check_threshold.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,796   copying janis_core/tests/data/cwl/tools/requirements/control-freec-11-6-sbg.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,797   copying janis_core/tests/data/cwl/tools/requirements/prepare_fasta_db.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,798   copying janis_core/tests/data/cwl/tools/requirements/return_directory.cwl -> build/lib/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:24,798   creating build/lib/janis_core/tests/data/cwl/tools/requirements/Python
2023-09-25T16:49:24,798   copying janis_core/tests/data/cwl/tools/requirements/Python/add_crossmapped2resmapped.py -> build/lib/janis_core/tests/data/cwl/tools/requirements/Python
2023-09-25T16:49:24,799   copying janis_core/tests/data/cwl/tools/requirements/Python/check_threshold.py -> build/lib/janis_core/tests/data/cwl/tools/requirements/Python
2023-09-25T16:49:24,799   creating build/lib/janis_core/tests/data/cwl/workflows
2023-09-25T16:49:24,800   copying janis_core/tests/data/cwl/workflows/expressions.cwl -> build/lib/janis_core/tests/data/cwl/workflows
2023-09-25T16:49:24,800   copying janis_core/tests/data/cwl/workflows/super_enhancer_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows
2023-09-25T16:49:24,800   creating build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,801   copying janis_core/tests/data/cwl/workflows/CroMaSt/CONTRIBUTING.md -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,801   copying janis_core/tests/data/cwl/workflows/CroMaSt/CroMaSt.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,802   copying janis_core/tests/data/cwl/workflows/CroMaSt/LICENSE -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,802   copying janis_core/tests/data/cwl/workflows/CroMaSt/README.md -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,803   copying janis_core/tests/data/cwl/workflows/CroMaSt/ro-crate-metadata.json -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,803   copying janis_core/tests/data/cwl/workflows/CroMaSt/ro-crate-preview.html -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,804   copying janis_core/tests/data/cwl/workflows/CroMaSt/workflow-390-9f3832867eab6c7a6363f8ca594a4bcf2ff7e96f-diagram.svg -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:24,804   creating build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,805   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/add_crossmapped2resmapped.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,805   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/add_domain_num.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,806   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/align_compute_avg.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,806   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/check_threshold.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,807   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/chop_struct2domains.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,807   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/compare_cath_pfam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,808   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/core_avg_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,808   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/create_param.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,809   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/crossmapped_per_unp_dom.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,809   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/download_data.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,810   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/filter_align_scores.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,810   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/gather_lost_resmap.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,811   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/get_family_ids.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,811   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/list_true_domains.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,811   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/map_unique_struct_cath2pfam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,812   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/map_unique_struct_pfam2cath.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,812   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/merge_df2json.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,813   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/move_files.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,813   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/other_avg_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,814   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/pairwise_aligner.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,815   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_cath2up.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,815   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_cath_instances_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,815   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_pfam2pdb.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,816   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_pfam_instances_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,816   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/separate_cath.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,817   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/separate_pfam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,818   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/unmapped_unp_avg_align.cwl -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:24,818   creating build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,819   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/add_crossmapped2resmapped.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,819   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/add_domain_num.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,820   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/align_compute_avg.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,820   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/check_threshold.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,821   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/chop_struct2domains.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,821   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/compare_cath_pfam.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,822   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/create_param.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,823   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/crossmapped_per_unp_dom.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,823   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/filter_align_scores.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,824   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/get_family_ids.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,825   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/map_unique_struct_cath2pfam.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,825   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/map_unique_struct_pfam2cath.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,825   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/merge_df2json.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,826   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/pairwise_aligner.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,826   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/residue_mapping.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,827   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/resmapping_cath2up.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,827   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/resmapping_pfam2pdb.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,828   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/separate_cath.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,829   copying janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/separate_pfam.py -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:24,829   creating build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/translated
2023-09-25T16:49:24,830   copying janis_core/tests/data/cwl/workflows/CroMaSt/translated/main.nf -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/translated
2023-09-25T16:49:24,830   creating build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:24,831   copying janis_core/tests/data/cwl/workflows/CroMaSt/yml/CroMaSt_input.yml -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:24,831   copying janis_core/tests/data/cwl/workflows/CroMaSt/yml/download_data.yml -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:24,832   copying janis_core/tests/data/cwl/workflows/CroMaSt/yml/environment.yml -> build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:24,833   creating build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup
2023-09-25T16:49:24,834   creating build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows
2023-09-25T16:49:24,835   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows/align.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows
2023-09-25T16:49:24,837   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows/align_sort_markdup.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows
2023-09-25T16:49:24,839   creating build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:24,840   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/align_and_tag.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:24,842   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/index_bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:24,844   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/mark_duplicates_and_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:24,846   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/merge_bams_samtools.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:24,848   copying janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/name_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:24,850   creating build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows
2023-09-25T16:49:24,850   creating build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines
2023-09-25T16:49:24,852   copying janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines/alignment_exome.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines
2023-09-25T16:49:24,854   creating build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,855   copying janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/align.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,857   copying janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/align_sort_markdup.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,859   copying janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/hs_metrics.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,861   copying janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/qc_exome.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,864   copying janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/sequence_align_and_tag_adapter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,866   copying janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/sequence_to_bqsr.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:24,868   creating build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,869   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/align_and_tag.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,872   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/apply_bqsr.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,874   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/bqsr.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,877   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_alignment_summary_metrics.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,879   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_hs_metrics.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,881   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_insert_size_metrics.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,883   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/gatk_haplotype_caller.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,885   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/index_bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,887   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/mark_duplicates_and_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,889   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/merge_bams.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,891   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/merge_bams_samtools.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,893   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/name_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,895   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/samtools_flagstat.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,897   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/select_variants.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,899   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/sequence_align_and_tag.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,901   copying janis_core/tests/data/cwl/workflows/analysis-workflows/tools/verify_bam_id.cwl -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:24,903   creating build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:24,904   copying janis_core/tests/data/cwl/workflows/analysis-workflows/types/labelled_file.yml -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:24,906   copying janis_core/tests/data/cwl/workflows/analysis-workflows/types/sequence_data.yml -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:24,908   copying janis_core/tests/data/cwl/workflows/analysis-workflows/types/trimming_options.yml -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:24,910   copying janis_core/tests/data/cwl/workflows/analysis-workflows/types/vep_custom_annotation.yml -> build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:24,912   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics
2023-09-25T16:49:24,912   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools
2023-09-25T16:49:24,913   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly
2023-09-25T16:49:24,914   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,915   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-output_formats.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,917   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-strand_values.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,919   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,921   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,923   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21_docker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,926   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastx-v0.9.21.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,928   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastx-v0.9.21.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,930   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.makedb-v0.9.21.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,932   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.makedb-v0.9.21.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,934   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond_blastp_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,935   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond_blastx_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,937   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/diamond-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,939   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/diamond-subwf.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:24,941   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,942   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,945   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,948   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,950   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.test.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,953   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_post_run_join.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,955   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,958   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,960   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.test.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,962   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,965   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.job.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,967   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:24,969   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:24,970   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_10 -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:24,974   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_10_sorted -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:24,976   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_db -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:24,979   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example
2023-09-25T16:49:24,980   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example/example_diamond_10_sorted_join -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example
2023-09-25T16:49:24,983   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG
2023-09-25T16:49:24,984   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggnog-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG
2023-09-25T16:49:24,987   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggnog-subwf.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG
2023-09-25T16:49:24,989   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:24,990   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:24,993   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnog.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:24,996   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnog.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:24,999   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/emapper.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:25,004   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,005   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/__init__.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,008   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/annota.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,011   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/annota_mongo.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,014   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/common.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,017   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/orthology.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,020   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/search.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,023   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/seqio.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,025   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/server.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,028   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/utils.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,031   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/vars.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,035   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/version.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:25,038   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:25,039   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/build_assembly_gff.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:25,042   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/gff_generation.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:25,044   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/gff_generation.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:25,046   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:25,047   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:25,049   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/genome_properties.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:25,052   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/genome_properties.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:25,054   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/gp_docker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:25,056   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:25,057   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/JSON_test_single_protein.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:25,097   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/LONGFORM_REPORT_test_single_protein.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:25,124   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/MATCHES_test_single_protein.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:25,126   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/SUMMARY_FILE_test_single_protein.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:25,129   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/TABLE_test_single_protein.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:25,140   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input
2023-09-25T16:49:25,141   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input/InterProScan.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input
2023-09-25T16:49:25,143   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis
2023-09-25T16:49:25,144   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/make_graphs.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis
2023-09-25T16:49:25,147   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:25,148   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:25,150   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/help_commands.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:25,153   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/run_pathways.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:25,156   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:25,158   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/give_pathways.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:25,164   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/kegg_pathways.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:25,169   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/kegg_pathways.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:25,171   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification
2023-09-25T16:49:25,172   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification/modification_table.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification
2023-09-25T16:49:25,174   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification/modification_table.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification
2023-09-25T16:49:25,176   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:25,177   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:25,179   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:25,182   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:25,184   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output
2023-09-25T16:49:25,186   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output/assembly-SRR1620013_small_FASTA_FASTA.summary.kegg_contigs.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output
2023-09-25T16:49:25,189   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output/assembly-SRR1620013_small_FASTA_FASTA.summary.kegg_pathways -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output
2023-09-25T16:49:25,191   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral
2023-09-25T16:49:25,192   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral
2023-09-25T16:49:25,194   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash
2023-09-25T16:49:25,195   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:25,196   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash_chunking_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:25,198   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:25,201   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/filtering_fasta_for_antismash.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:25,204   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/no_antismash_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:25,206   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/wf_antismash.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:25,208   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:25,209   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/antismash_v4.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:25,211   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/antismash_v4.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:25,213   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/run_antismash_short.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:25,215   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value
2023-09-25T16:49:25,216   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value/check_value.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value
2023-09-25T16:49:25,218   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value/check_value.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value
2023-09-25T16:49:25,220   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing
2023-09-25T16:49:25,221   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:25,221   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_antismash_output.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:25,224   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_output.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:25,226   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_output.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:25,228   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt
2023-09-25T16:49:25,229   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt/change_geneclusters_ctg.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt
2023-09-25T16:49:25,231   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt/change_geneclusters_txt.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt
2023-09-25T16:49:25,233   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:25,234   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:25,236   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:25,239   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:25,241   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash
2023-09-25T16:49:25,242   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash/reformat_antismash.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash
2023-09-25T16:49:25,244   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash/reformat_antismash.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash
2023-09-25T16:49:25,246   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:25,247   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/antismash_rename_contigs.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:25,250   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/rename_contigs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:25,252   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/rename_contigs.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:25,254   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,255   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/empty.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,257   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test-1-contig.embl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,276   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test-1-contig.table -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,279   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.2.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,281   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,283   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.fasta.1 -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:25,285   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output
2023-09-25T16:49:25,286   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output/output-contig-1.embl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output
2023-09-25T16:49:25,316   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output/output-contig-1.gbk -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output
2023-09-25T16:49:25,345   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated
2023-09-25T16:49:25,347   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/config -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated
2023-09-25T16:49:25,351   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/main.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated
2023-09-25T16:49:25,357   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,359   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/FGS.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,364   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/QC_FLAG.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,368   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_crossmapped_to_resmapped.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,373   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_domain_positions.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,377   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_island_names.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,381   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/align_avg_structs_pairwise.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,384   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/assign_genes.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,388   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_averaged_structures.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,392   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_averaged_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,397   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_chopped_structs_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,399   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_chopped_structures_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,401   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bam_index.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,403   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bed_to_bigbed.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,405   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bed_to_macs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,407   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bundle_secondaries.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,409   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bwa_index.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,411   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/carveme.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,413   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/carveme_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,415   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cat.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,417   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cat_models.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,419   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/check_alignment_scores.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,421   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/check_threshold_step.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,423   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_SC_fasta_nucleotide.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,425   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_fasta_nucleotide.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,427   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_fasta_proteins.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,429   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chop_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,432   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chunking_tsv.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,434   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/classifications_to_otu_counts.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,436   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/clean_classification.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,438   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/clean_fasta_headers.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,440   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cmsearch.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,443   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/collect_lost_instances.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,446   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,450   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine_ips.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,454   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine_trimmed.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,458   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compare_instances_CATH_Pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,463   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,467   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_carveme.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,469   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_mapseq.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,471   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_prodigal.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,473   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compression.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,475   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/conversion.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,477   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/convert_trimmed_reads_to_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,479   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/copy_avg_dom.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,481   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_ITS_seqs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,483   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_cds.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,485   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_lines_mapseq.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,487   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_lsu_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,489   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_masked_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,492   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_overlapped_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,494   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_processed_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,496   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_ssu_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,498   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_submitted_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,500   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_submitted_reads_single.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,501   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/counts_to_hdf5.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,504   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/counts_to_json.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,506   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/create_new_parameters.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,508   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/crossmapping_CATH2Pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,510   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/crossmapping_Pfam2CATH.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,512   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/expressiontool_bam_index.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,514   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,517   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_sequences.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,519   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_subunits.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,521   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_subunits_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,523   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/fastqc.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,526   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/fastqc_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,528   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_cath_structures.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,532   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_paired.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,536   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_pfam_structures.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,540   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/folder_compression.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,545   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/format_core_list.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,549   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/functional_stats.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,551   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gather_domain_like.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,553   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gather_failed_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,555   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gatk_selectvariants_manta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,557   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gemstats.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,559   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,561   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_family_ids.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,563   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_ncrnas.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,565   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/go_summary.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,567   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,569   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_LSU.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,571   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_SSU.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,573   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_files.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,576   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_masked_ITS.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,578   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hashsum_paired.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,580   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hashsum_single.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,582   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/header_addition.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,584   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hmmsearch.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,586   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/index_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,588   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/index_strelka_bed.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,590   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/interproscan.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,592   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/kofamscan.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,594   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/length_filter.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,596   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/make_gff.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,598   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/make_tab_sep.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,600   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/manta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,602   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/mapseq.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,604   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/mask_for_ITS.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,606   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,608   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_report_snapshot.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,610   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_run.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,613   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/motus_classification.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,615   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/move_to_functional_annotation_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,617   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/move_to_seq_cat_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,619   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,621   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,623   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax_to_tsv_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,625   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/no_tax_file_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,627   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/overlap_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,629   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pairwise_align_avg_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,632   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/per_dom_instance.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,634   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/per_unp_dom_instance.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,636   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,638   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/phyloseq_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,640   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picard_create_sequence_dictionary.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,642   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picrust2.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,644   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picrust_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,646   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pilon.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,648   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/post_processing.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,650   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/prodigal.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,653   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/prodigal_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,655   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/qc_stats.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,657   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/readmapping_pilon.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,659   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reads_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,662   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reduce_bed.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,665   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reformat_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,668   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/remove_overlaps.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,671   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_manta_samples.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,673   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_ncrnas.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,675   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_png.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,677   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/resmapping_for_CATH_PDB2UP.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,679   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/resmapping_for_Pfam_UP2PDB.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,681   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_its_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,683   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_output_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,685   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_seq_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,688   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_tax_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,690   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_concatenate_deoverlapped_matches.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,692   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_concatenate_matches.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,694   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_quality_control_filtering.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,696   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_rose.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,699   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/sam_to_sorted_bam.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,701   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/samtools_faidx.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,705   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/smetana.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,707   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/sort_bed.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,709   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/split_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,711   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/split_seqs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,714   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/suppress_tax.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,716   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/tohdt.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,718   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_empty_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,720   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_file_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,722   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_no_cds_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,724   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/trim_quality_control.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,726   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/unzip_merged_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,728   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/unzip_single_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,730   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/vcf_compress.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,732   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/visualize_otu_counts.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,734   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/write_summaries.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:25,736   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,738   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/ITS.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,740   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/after_qc.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,742   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/avg_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,745   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/before_qc.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,747   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cath_domain_instances.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,750   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cgc.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,752   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_CATH2Pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,755   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_Pfam2CATH.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,758   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_core.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,760   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_from_list.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,763   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chunking_final.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,765   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/classify_LSUs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,768   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/classify_SSUs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,771   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cmsearch_assembly.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,774   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cmsearch_raw_data.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,776   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/combined_gene_caller.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,779   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/find_ribosomal_ncRNAs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,781   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/functional_annotation.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,784   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/functional_annotation_and_post_processing.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,786   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/motus_taxonomy.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,789   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/other_ncrnas.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,792   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/overlap_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,794   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/pfam_domain_instances.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,797   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/prepare_reference.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,799   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/resmapping_cath_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,802   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/resmapping_pfam_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,805   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/rna_prediction.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,808   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_IPS.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,810   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_hmmer.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,813   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_itsonedb.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,815   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_manta.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,818   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_unite.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,820   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/trimming.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,823   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/unmapped_from_cath.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,826   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/unmapped_from_pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,828   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/write_summaries.nf -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:25,831   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:25,832   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/antismash_chunking_subwf.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:25,835   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/antismash_subwf.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:25,837   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/no_antismash_subwf.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:25,840   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/wf_antismash.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:25,842   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary
2023-09-25T16:49:25,843   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary
2023-09-25T16:49:25,846   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary
2023-09-25T16:49:25,848   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:25,849   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/fasta_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:25,851   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/fasta_index.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:25,853   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/run_samtools.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:25,855   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input
2023-09-25T16:49:25,856   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input/test.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input
2023-09-25T16:49:25,858   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,859   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/FGS.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,861   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/FGS.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,863   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/faselector -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,866   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/post-processing.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,868   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_assemblies.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,870   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_assemblies.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,872   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_reads.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,874   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/prodigal.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,876   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/run_FGS.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,878   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/unite_protein_predictions.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:25,880   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,881   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,884   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,885   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,888   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,890   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller_conf.json -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,892   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller_docker.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:25,895   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:25,896   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,218   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.fgs.faa -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,345   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.fgs.ffn -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,628   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,635   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal.faa -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,646   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal.ffn -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,667   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/ERR3414571_FASTA.cmsearch.all.tblout.deoverlapped -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:26,684   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:26,685   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:26,687   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go-basic-metagenomics_release_20160705.obo -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,222   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go-basic-metagenomics_release_20160705.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,730   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary-config.json -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,733   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,735   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,737   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary_pipeline-1.0.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,740   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/metagenomics_go_slim_banding.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,742   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/metagenomics_go_slim_ids.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:27,745   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output
2023-09-25T16:49:27,746   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output/test -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output
2023-09-25T16:49:27,749   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output/test_slim -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output
2023-09-25T16:49:27,751   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:27,752   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:27,755   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools-runner-all.jar -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:28,251   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools.vmoptions -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:28,253   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input
2023-09-25T16:49:28,254   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input/ips_out.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input
2023-09-25T16:49:28,257   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:28,258   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-apps.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:28,260   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-protein_formats.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:28,262   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5-none_docker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:28,264   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:28,267   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:28,268   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse
2023-09-25T16:49:28,269   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/pfam_annotations.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse
2023-09-25T16:49:28,271   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/pfam_annotations.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse
2023-09-25T16:49:28,274   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output
2023-09-25T16:49:28,275   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output/testfile.annotations.pfam -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output
2023-09-25T16:49:28,277   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input
2023-09-25T16:49:28,278   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input/testfile.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input
2023-09-25T16:49:28,280   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction
2023-09-25T16:49:28,281   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,282   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,284   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert-table.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,286   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert-test.job-input.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,288   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,290   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,293   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,295   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,297   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,299   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:28,301   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output
2023-09-25T16:49:28,301   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:28,302   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.hdf5 -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:28,306   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.json -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:28,308   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:28,310   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:28,311   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.html -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:28,317   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.mseq.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:28,319   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:28,321   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty_json.biom -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:28,323   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,324   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,326   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.html -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,332   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.mseq.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,334   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,336   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU_json.biom -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,338   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/test-mapseq.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:28,341   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch
2023-09-25T16:49:28,342   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/infernal-cmsearch-v1.1.2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch
2023-09-25T16:49:28,344   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/infernal-cmsearch.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch
2023-09-25T16:49:28,347   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:28,347   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap-v0.02.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:28,350   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap-v0.02.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:28,352   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap.pl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:28,354   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output
2023-09-25T16:49:28,356   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output/1.cmsearch.tblout.deoverlapped -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output
2023-09-25T16:49:28,359   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input
2023-09-25T16:49:28,360   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input/1.cmsearch.tblout -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input
2023-09-25T16:49:28,365   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input/ribo.claninfo -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input
2023-09-25T16:49:28,367   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output
2023-09-25T16:49:28,368   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output/mrum-genome.fa.cmsearch_matches.tbl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output
2023-09-25T16:49:28,371   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:28,372   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/mrum-genome.fa -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:28,429   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/mt-tmRNA.cm -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:28,433   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/tRNA5.c.cm -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:28,436   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:28,437   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-index.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:28,439   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-index-test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:28,441   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:28,443   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-manyseqs-test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:28,445   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-manyseqs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:28,447   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:28,449   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test-cmsearch_matched_seqs_with_coords.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:28,451   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:28,454   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test.fasta.ssi -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:28,456   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:28,457   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/matched_seqs_with_coords -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:28,461   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/test-cmsearch.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:28,463   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/test.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:28,466   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:28,467   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/awk_tool -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:28,469   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/extract-coords_awk.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:28,471   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/extract-coords_awk.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:28,473   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output
2023-09-25T16:49:28,474   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output/matched_seqs_with_coords -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output
2023-09-25T16:49:28,476   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input
2023-09-25T16:49:28,477   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input/test-cmsearch.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input
2023-09-25T16:49:28,479   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:28,480   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:28,482   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:28,484   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:28,486   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:28,487   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/5s -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:28,489   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/LSUs -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:28,491   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/SSUs -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:28,493   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input
2023-09-25T16:49:28,495   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input/matched_seqs_with_coords -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input
2023-09-25T16:49:28,497   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:28,498   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:28,500   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:28,502   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:28,504   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input
2023-09-25T16:49:28,505   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input/test.get_subunits -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input
2023-09-25T16:49:28,507   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:28,508   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/5S.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:28,510   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/LSU.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:28,512   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/SSU.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:28,514   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/prefix_LSU_rRNA_bacteria.RF02541.fa -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:28,516   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/prefix_SSU_rRNA_bacteria.RF00177.fa -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:28,518   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:28,520   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:28,522   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/krona-test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:28,524   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/krona.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:28,526   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/expected-output
2023-09-25T16:49:28,527   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/expected-output/test.html -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/expected-output
2023-09-25T16:49:28,533   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input
2023-09-25T16:49:28,534   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input/test.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input
2023-09-25T16:49:28,537   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:28,538   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:28,540   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/mapseq-test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:28,542   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/mapseq.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:28,544   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:28,545   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:28,547   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom-test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:28,549   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:28,551   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom.pl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:28,554   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output
2023-09-25T16:49:28,555   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output/test-mapseq.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output
2023-09-25T16:49:28,557   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output/test.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output
2023-09-25T16:49:28,560   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input
2023-09-25T16:49:28,561   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input/test-mapseq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input
2023-09-25T16:49:28,567   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input/test-otu -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input
2023-09-25T16:49:28,569   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:28,570   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/pull_ncrnas.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:28,573   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/pull_ncrnas.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:28,575   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/pull_ncrnas.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:28,577   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output
2023-09-25T16:49:28,577   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output/cyano_tmRNA -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output
2023-09-25T16:49:28,579   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads
2023-09-25T16:49:28,580   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:28,581   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/clean_motus_output.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:28,583   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/clean_motus_output.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:28,585   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/mOTUs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:28,587   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/motus-test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:28,589   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output
2023-09-25T16:49:28,590   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output/classifications.motus.biom -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output
2023-09-25T16:49:28,626   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input
2023-09-25T16:49:28,627   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input/unpaired.fq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input
2023-09-25T16:49:28,985   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep
2023-09-25T16:49:28,986   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep/seqprep.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep
2023-09-25T16:49:28,989   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep/seqprep.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep
2023-09-25T16:49:28,991   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:28,993   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/LICENSE -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:28,997   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-PE.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,000   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-PE.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,002   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-SE.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,005   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-SE.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,008   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic_PE_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,011   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic_SE_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,013   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-end_mode.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,015   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-illumina_clipping.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,018   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-max_info.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,021   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-phred.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,023   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-sliding_window.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,025   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,027   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic_help.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:29,030   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:29,031   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_left_ok.fq.trimmed.fastq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:29,078   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_left_ok.fq.trimmed.unpaired.fastq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:29,080   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_right_ok.fq.trimmed.fastq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:29,126   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_right_ok.fq.trimmed.unpaired.fastq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:29,128   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:29,129   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/protein_chunker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:29,132   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/protein_chunker.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:29,134   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/remove_headers.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:29,137   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/remove_headers.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:29,139   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/split_to_chunks.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:29,141   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:29,142   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:29,145   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/esl-ssplit.pl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:29,148   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/esl-ssplit.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:29,150   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/fasta_chunker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:29,153   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/fasta_chunker.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:29,155   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker
2023-09-25T16:49:29,156   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker/100_150.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker
2023-09-25T16:49:29,159   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker/1_100.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker
2023-09-25T16:49:29,163   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input
2023-09-25T16:49:29,164   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input/empty.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input
2023-09-25T16:49:29,166   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer
2023-09-25T16:49:29,167   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer
2023-09-25T16:49:29,170   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmsearch.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer
2023-09-25T16:49:29,172   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/db
2023-09-25T16:49:29,173   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/db/db_kofam.hmm.h3i -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/db
2023-09-25T16:49:29,186   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:29,188   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/chunking-subwf-hmmscan.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:29,190   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/hmmscan-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:29,193   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/hmmscan.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:29,196   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/hmmscan.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:29,198   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:29,199   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:29,202   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab_modification.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:29,204   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab_modification.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:29,206   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output
2023-09-25T16:49:29,208   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output/hmmscan_result.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output
2023-09-25T16:49:29,210   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/test-input
2023-09-25T16:49:29,212   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/test-input/hmmscan_result.tbl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/test-input
2023-09-25T16:49:29,215   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,216   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bedtools.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,218   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bedtools.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,220   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/format-bedfile.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,222   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/format-bedfile.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,224   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/its-length-new.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,227   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/suppress_tax.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,229   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/suppress_tax_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:29,231   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bash_scripts
2023-09-25T16:49:29,232   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bash_scripts/format_bedfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bash_scripts
2023-09-25T16:49:29,234   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output
2023-09-25T16:49:29,236   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output/ITS-maskfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output
2023-09-25T16:49:29,238   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output/masked-for-its.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output
2023-09-25T16:49:29,240   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input
2023-09-25T16:49:29,241   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU-and-LSU -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input
2023-09-25T16:49:29,243   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/test-cmsearch.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input
2023-09-25T16:49:29,245   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/LSU
2023-09-25T16:49:29,246   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/LSU/LSU.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/LSU
2023-09-25T16:49:29,248   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU
2023-09-25T16:49:29,249   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU/SSU.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU
2023-09-25T16:49:29,251   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:29,252   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/qc-filtering-job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:29,254   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/qc-filtering.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:29,256   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/run_quality_filtering.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:29,258   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output
2023-09-25T16:49:29,259   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output/stats_summary -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output
2023-09-25T16:49:29,261   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output/test_seqs.filtered.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output
2023-09-25T16:49:29,263   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/test-input
2023-09-25T16:49:29,264   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/test-input/test_seqs.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/test-input
2023-09-25T16:49:29,266   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:29,267   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/Dockerfile -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:29,270   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/MGRAST_base.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:29,272   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/qc-stats-job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:29,274   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/qc-stats.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:29,276   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output
2023-09-25T16:49:29,277   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,278   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,280   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full_bin -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,282   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full_pcbin -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,284   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/nucleotide-distribution.out.full -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,287   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,289   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full_bin -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,291   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full_pcbin -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:29,293   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs
2023-09-25T16:49:29,294   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs/test.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs
2023-09-25T16:49:29,297   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,298   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/functional_stats.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,300   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/functional_stats.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,303   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/functional_stats.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,305   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/write_summaries.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,307   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/write_summaries.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,310   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/write_summaries.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:29,312   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,313   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/clean_fasta_headers.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,315   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/concatenate.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,318   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_fasta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,325   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_fasta.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,332   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_number_lines.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,335   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastp.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,337   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_tab_sep.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,339   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/move.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,341   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/multiple-gunzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,343   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/qc-flag.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,346   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/return_directory.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,348   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/return_directory.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,350   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/touch_file.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:29,352   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:29,353   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header/add_header -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:29,355   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header/add_header.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:29,358   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header/add_header.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:29,361   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:29,362   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_fastq_exp.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:29,364   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_lines.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:29,366   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_lines.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:29,368   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_lines.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:29,370   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta
2023-09-25T16:49:29,373   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta/empty_fasta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta
2023-09-25T16:49:29,376   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta/empty_fasta.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta
2023-09-25T16:49:29,378   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs
2023-09-25T16:49:29,379   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker
2023-09-25T16:49:29,381   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker/test_01_b_test_01_b.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker
2023-09-25T16:49:29,383   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker/test_02_test_02.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker
2023-09-25T16:49:29,385   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:29,386   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:29,389   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker.test.job.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:29,391   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker_test.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:29,393   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:29,394   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:29,396   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.cwltest.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:29,397   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:29,399   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.test.job-input.yaml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:29,401   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum
2023-09-25T16:49:29,402   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum/generate_checksum.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum
2023-09-25T16:49:29,405   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum/generate_checksum.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum
2023-09-25T16:49:29,407   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:29,408   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:29,410   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab_modification.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:29,412   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab_modification.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:29,414   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output
2023-09-25T16:49:29,415   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output/hmmscan_result.tsv -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output
2023-09-25T16:49:29,417   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input
2023-09-25T16:49:29,418   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input/hmmscan_result.tbl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input
2023-09-25T16:49:29,421   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:29,422   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/make_csv.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:29,424   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/make_csv.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:29,426   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/output -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:29,428   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/test.txt -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:29,429   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz
2023-09-25T16:49:29,430   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz/gzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz
2023-09-25T16:49:29,432   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,433   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/__init__.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,436   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/chunkFastaResultFileUtil.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,438   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/chunkTSVFileUtil.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,442   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/cleaningUtils.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,445   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/result_chunker.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,447   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/run_result_file_chunker.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:29,449   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs
2023-09-25T16:49:29,450   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs/test_seqs.fasta -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs
2023-09-25T16:49:29,453   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs/test_seqs.fq -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs
2023-09-25T16:49:29,455   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:29,456   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/amplicon-wf--v.5-cond.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:29,458   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/assembly-wf--v.5-cond.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:29,461   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/raw-reads-wf--v.5-cond.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:29,463   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals
2023-09-25T16:49:29,464   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/README -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals
2023-09-25T16:49:29,466   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/out_json_parser.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals
2023-09-25T16:49:29,468   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon
2023-09-25T16:49:29,469   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon/amplicon-1.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon
2023-09-25T16:49:29,471   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon/amplicon-2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon
2023-09-25T16:49:29,474   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly
2023-09-25T16:49:29,475   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly/assembly-1.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly
2023-09-25T16:49:29,477   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly/assembly-2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly
2023-09-25T16:49:29,479   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads
2023-09-25T16:49:29,480   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads/raw-reads-1.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads
2023-09-25T16:49:29,482   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads/raw-reads-2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads
2023-09-25T16:49:29,485   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling
2023-09-25T16:49:29,486   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling/profiling_parser.py -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling
2023-09-25T16:49:29,489   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling/run_profiling.sh -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling
2023-09-25T16:49:29,491   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,493   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/chunking-subwf-IPS.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,496   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/chunking-subwf-hmmsearch.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,498   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/classify-otu-visualise.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,501   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/cmsearch-condition.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,504   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/cmsearch-multimodel-raw-data.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,506   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/final_chunking.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,509   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/func_summaries.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,511   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/other_ncrnas.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,514   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/rna_prediction-sub-wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,517   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/seqprep-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:29,520   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:29,521   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/ITS-wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:29,524   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/trim_and_reformat_reads.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:29,536   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/trimming-not-empty-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:29,549   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,555   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/CGC-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,564   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/change_formats_and_names.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,572   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/cmsearch-multimodel-assembly.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,575   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/deal_with_functional_annotation.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,578   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/func_ann_and_post_processing-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,581   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/functional_annotation.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,584   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/functional_annotation.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,587   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/kegg_analysis.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,589   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/kegg_analysis.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:29,592   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:29,593   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/CGC-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:29,596   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/func_ann_and_post_proccessing-subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:29,599   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/functional_annotation_raw.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:29,601   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/mOTUs-workflow.cwl -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:29,604   creating build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:29,605   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/amplicon-wf--v.5-cond.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:29,608   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/assembly-pipeline-v.5.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:29,611   copying janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/raw-reads--v.5-cond.yml -> build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:29,614   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow
2023-09-25T16:49:29,615   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/README.md -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow
2023-09-25T16:49:29,619   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated
2023-09-25T16:49:29,621   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/kfdrc_production_somatic_variant_cnv_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated
2023-09-25T16:49:29,625   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/samtools_cram2bam_plus_calmd.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated
2023-09-25T16:49:29,628   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:29,630   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:29,638   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec_R.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:29,645   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec_visualize.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:29,647   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/gen_controlfreec_configfile.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:29,649   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:29,650   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:29,653   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec_R.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:29,656   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec_visualize.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:29,658   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,659   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/build_strelka2_mnp.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,662   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/cnv_using_subwf_test.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,665   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/custom_split.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,668   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/delme_pbta_temp_vcftomaf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,671   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/delme_tcga_temp_vcftomaf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,674   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gatk_intervallisttool.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,677   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gatk_sortvcf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,683   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gen_germline_controlfreec_config.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,687   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/lancet.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,690   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/output_vcf_pick.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,693   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/quick_split_bed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,695   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/samtools_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,698   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/temp_rerun_vcf2maf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,701   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/vardictjava.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:29,703   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,704   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/add_strelka2_fields.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,708   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/consensus_merge.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,711   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/hotspot.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,720   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/kf_mskcc_vcf2maf_1.6.21.pl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,725   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_cveto_util.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,730   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,734   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv_methods.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,737   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv_visualisations.py -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:29,740   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,741   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_cnvkit_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,744   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_controlfreec_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,747   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_gatk_cnv_somatic_pair_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,751   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_lancet_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,755   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_manta_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,757   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_mutect2_filter_support_subwf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,760   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_mutect2_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,763   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_run_theta2_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,766   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_strelka2_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,770   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_vardict_sub_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,773   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/prepare_reference.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:29,775   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,776   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/aa_classifier.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,779   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/add_basename.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,782   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/add_strelka2_fields.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,784   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/amplicon_architect.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,787   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/annotsv.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,790   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/awk_min_seg_length.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,792   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_filter_vardict_somatic.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,794   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_normalize_vcf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,796   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_variant_recall_ensemble.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,798   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_annotate.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,800   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_filter_vcf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,803   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_reheader_vcf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,805   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_strip_ann.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,807   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bedtools_intersect.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,810   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bundle_secondaryfiles.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,814   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bwa_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,821   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/canvas_paired_wes.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,835   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cns_to_aa_bed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,849   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_batch.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,867   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_batch_only.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,873   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_call.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,876   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_export_theta2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,878   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_import_theta2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,881   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvnator.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,885   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/consensus_merge.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,889   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/control-freec-11-6-sbg.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,896   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/control_freec_mini_pileup.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,898   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_flatten_file_list.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,900   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_flatten_list.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,902   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_pickvalue_workaround.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,903   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_run_aa_if_wgs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,905   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_Mutect2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,907   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_annotateintervals.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,910   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_calculatecontamination.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,912   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_callcopyratiosegments.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,914   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_collectalleliccounts.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,917   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_collectreadcounts.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,919   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_createreadcountpanelofnormals.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,921   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_denoisereadcounts.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,924   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_filter_germline_variant.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,926   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_filtermutectcalls.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,928   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_funcotatesegments.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,930   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_gatherpileupsummaries.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,932   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_getpileupsummaries.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,934   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_indexfeaturefile.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,936   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_intervallisttool.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,938   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_learnorientationbias.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,940   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_mergemutectstats.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,942   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_mergevcfs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,944   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_modelsegments.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,947   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_plotdenoisedcopyratios.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,949   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_plotmodeledsegments.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,951   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_preprocessintervals.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,953   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_selectvariants.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,955   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_sortvcf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,958   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_variant_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,960   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/generic_rename_outputs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,968   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/hotspots_annotation.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,973   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/kf_mskcc_vcf2maf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,976   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lancet.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,978   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lumpy-sv_germline.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,980   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lumpy-sv_somatic.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,983   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/manta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,985   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_defaults.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,987   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_list_selector.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,989   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_selector.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,991   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/normalize_vcf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,994   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/picard_createsequencedictionary.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:29,997   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/prep_mnp_variants.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,000   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/prepare_aa.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,003   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/preprocess_lancet_intervals.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,005   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/python_vardict_interval_split.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,007   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_calmd.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,009   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_cram2bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,011   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_faidx.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,013   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_reheader_bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,015   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_1_0_0.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,018   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_prepare_files_for_scatter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,020   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_rename_files.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,030   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/seurat.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,032   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/smoove_lumpy.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,034   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/snpEff_annotate.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,036   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/speedseq_sv_annotate.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,041   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/strelka2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,043   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/tabix_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,045   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/tar.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,047   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/theta2_purity.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,049   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/ubuntu_ratio2seg.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,051   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/ubuntu_rename_outputs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,053   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/untar_gzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,055   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/vardictjava.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,057   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/variant_effect_predictor_105.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:30,060   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,061   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc-somatic-variant-workflow.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,066   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_annot_vcf_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,070   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_consensus_calling.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,073   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_gatk_create_cnv_pon_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,075   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_amplicon_architect.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,078   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_cnvkit_theta2_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,080   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_cnvkit_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,084   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_controlfreec_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,086   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_lancet_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,089   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_manta_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,091   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_mutect2_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,094   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_strelka2_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,096   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_theta2_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,099   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_vardict_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,101   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/sb_multicnv_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:30,104   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated
2023-09-25T16:49:30,105   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/config -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated
2023-09-25T16:49:30,107   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/main.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated
2023-09-25T16:49:30,109   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,110   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/FGS.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,113   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/QC_FLAG.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,114   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/add_crossmapped_to_resmapped.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,116   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/add_domain_positions.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,118   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/align_avg_structs_pairwise.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,120   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/antismash_gff.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,122   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/antismash_summary.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,124   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_averaged_structures.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,126   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_averaged_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,128   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_chopped_structs_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,130   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_chopped_structures_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,132   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/bam_index.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,134   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/calc_chunking_number.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,136   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/carveme.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,138   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/carveme_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,140   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cat.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,142   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cat_models.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,144   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_alignment_scores.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,146   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_threshold_step.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,148   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_value.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,150   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_SC_fasta_nucleotide.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,153   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_fasta_nucleotide.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,155   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_fasta_proteins.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,158   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chop_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,161   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chunking_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,163   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chunking_tsv.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,166   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/classifications_to_otu_counts.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,168   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_classification.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,171   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_fasta_headers.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,173   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_headers.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,176   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cmsearch.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,180   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/collect_lost_instances.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,183   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,186   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine_ips.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,188   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine_trimmed.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,191   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compare_instances_CATH_Pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,193   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,195   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_carveme.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,198   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_mapseq.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,201   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_prodigal.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,206   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compression.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,211   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compression_func_ann.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,214   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/conversion.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,216   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/convert_trimmed_reads_to_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,218   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/copy_avg_dom.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,221   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_ITS_seqs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,223   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_cds.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,225   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_lines_mapseq.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,227   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_lsu_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,229   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_masked_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,231   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_overlapped_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,234   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_processed_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,236   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,238   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_reads_after_filtering.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,240   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_ssu_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,243   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_submitted_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,245   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_submitted_reads_single.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,247   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/counts_to_hdf5.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,250   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/counts_to_json.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,252   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_csv_gp.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,254   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_csv_kp.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,256   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_new_parameters.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,259   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/crossmapping_CATH2Pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,261   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/crossmapping_Pfam2CATH.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,263   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/diamond_run.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,265   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/eggnog_annotation.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,267   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/eggnog_homology_searches.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,269   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/expressiontool_bam_index.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,271   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,273   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_sequences.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,275   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_subunits.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,277   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_subunits_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,279   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fasta_index.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,281   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fastqc.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,283   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fastqc_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,285   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_cath_structures.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,287   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_contigs_antismash.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,290   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_paired.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,292   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_pfam_structures.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,294   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fix_embl_and_gbk.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,296   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fix_geneclusters_txt.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,298   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/folder_compression.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,300   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/format_core_list.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,302   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/functional_stats.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,304   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gather_domain_like.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,306   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gather_failed_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,308   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gemstats.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,311   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/genome_properties.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,313   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,315   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_family_ids.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,318   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_ncrnas.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,320   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gff.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,322   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/go_summary.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,324   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,326   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_LSU.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,329   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_SSU.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,331   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_files.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,333   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_masked_ITS.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,335   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzipped_embl.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,337   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzipped_gbk.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,339   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,341   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum_paired.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,343   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum_single.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,345   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/header_addition.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,347   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hmmsearch.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,349   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/index_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,351   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/interproscan.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,353   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/join.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,354   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/kegg_pathways.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,357   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/kofamscan.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,359   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/length_filter.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,361   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/make_tab_sep.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,363   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/mapseq.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,365   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/mask_for_ITS.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,367   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,369   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_report_snapshot.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,372   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_run.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,374   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/motus_classification.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,376   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_antismash_summary_to_pathways_systems_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,378   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_functional_annotation_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,380   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_pathways_systems_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,382   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_seq_cat_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,384   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,386   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,389   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax_to_tsv_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,391   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/no_tax_file_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,393   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/overlap_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,395   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pairwise_align_avg_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,397   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/parsing_hmmscan.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,399   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/per_dom_instance.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,401   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/per_unp_dom_instance.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,403   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,406   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/phyloseq_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,408   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/picrust2.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,410   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/picrust_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,412   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pilon.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,414   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/post_processing.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,416   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/prodigal.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,418   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/prodigal_files_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,420   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/qc_stats.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,422   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/readmapping_pilon.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,424   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/reads_to_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,426   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/reformat_coords.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,428   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/remove_overlaps.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,430   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_contigs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,432   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_geneclusters.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,434   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_ncrnas.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,436   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/resmapping_for_CATH_PDB2UP.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,439   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/resmapping_for_Pfam_UP2PDB.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,441   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_antismash_in_folder.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,443   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_its_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,445   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_output_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,447   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_seq_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,449   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_tax_dir.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,451   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_antismash.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,453   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_concatenate_deoverlapped_matches.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,455   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_concatenate_matches.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,458   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_quality_control_filtering.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,460   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/sam_to_sorted_bam.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,462   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/smetana.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,464   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/sorting.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,467   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/split_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,469   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/split_seqs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,471   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/suppress_tax.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,474   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/tab_modification.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,476   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/tohdt.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,478   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_empty_fasta.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,480   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_file_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,483   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_no_antismash_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,485   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_no_cds_flag.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,487   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/trim_quality_control.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,489   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_embl.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,491   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_gbk.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,493   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_geneclusters_txt.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,495   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_seed_orthologs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,498   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,500   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip_merged_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,503   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip_single_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,505   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/vcf_compress.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,508   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/visualize_otu_counts.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,511   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/write_summaries.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:30,514   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,515   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/ITS.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,518   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/after_qc.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,522   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/antismash.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,525   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/avg_unp_domains.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,528   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/before_qc.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,531   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cath_domain_instances.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,533   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cgc.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,536   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/change_formats_and_names.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,538   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_CATH2Pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,541   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_Pfam2CATH.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,543   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_core.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,546   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_from_list.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,549   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chunking.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,551   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chunking_final.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,554   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/classify_LSUs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,557   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/classify_SSUs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,560   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cmsearch_assembly.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,563   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cmsearch_raw_data.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,566   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/combined_gene_caller.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,568   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/diamond.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,571   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/eggnog.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,574   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/filtering.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,576   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/find_ribosomal_ncRNAs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,579   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/folder_functional_annotation.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,581   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/functional_annotation.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,584   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/functional_annotation_and_post_processing.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,587   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/motus_taxonomy.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,590   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/no_antismash_subwf.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,592   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/other_ncrnas.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,595   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/overlap_reads.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,597   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/pathways.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,599   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/pfam_domain_instances.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,601   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/post_processing_uniref90.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,603   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/resmapping_cath_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,606   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/resmapping_pfam_structs.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,608   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/rna_prediction.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,610   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_IPS.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,613   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_antismash.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,615   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_hmmer.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,617   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_itsonedb.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,619   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_unite.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,621   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/trimming.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,623   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/unmapped_from_cath.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,625   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/unmapped_from_pfam.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,627   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/write_summaries.nf -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:30,629   creating build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,630   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/cnvkit_single_sample_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,633   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/control-freec-germline.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,635   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnv_caller_wes_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,637   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnvkit_batch_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,639   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnvkit_plus_theta2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,642   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_combined_somatic_wgs_cnv_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,645   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_controlfreec_cnv.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,647   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_lancet_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,650   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_mutect2_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,652   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_production_WES_somatic_variant_cnv_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,655   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_production_WGS_somatic_variant_cnv.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,658   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_somatic_WES_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,660   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_somatic_caller_workflow.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,663   copying janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_vardict_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:30,665   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock
2023-09-25T16:49:30,665   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq
2023-09-25T16:49:30,666   copying janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/.gitkeep -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq
2023-09-25T16:49:30,668   copying janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/featurecounts.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq
2023-09-25T16:49:30,670   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto
2023-09-25T16:49:30,671   copying janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto/kallisto_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto
2023-09-25T16:49:30,673   copying janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto/kallisto_quant.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto
2023-09-25T16:49:30,675   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star
2023-09-25T16:49:30,676   copying janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star/star_align.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star
2023-09-25T16:49:30,679   copying janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star/star_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star
2023-09-25T16:49:30,681   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/aragorn
2023-09-25T16:49:30,682   copying janis_core/tests/data/cwl/workflows/m-unlock/aragorn/aragorn.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/aragorn
2023-09-25T16:49:30,684   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,685   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/compress.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,687   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/compress_directory.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,689   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/concatenate.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,692   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/decompress.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,694   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/grep_count.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,696   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/pigz.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,698   copying janis_core/tests/data/cwl/workflows/m-unlock/bash/rename.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:30,700   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:30,701   copying janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbduk_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:30,703   copying janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbduk_rrna-filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:30,705   copying janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbmap.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:30,707   copying janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbmap_filter-reads.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:30,710   copying janis_core/tests/data/cwl/workflows/m-unlock/bbmap/prepare_fasta_db.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:30,712   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:30,713   copying janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_align.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:30,715   copying janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_align_simple.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:30,717   copying janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:30,719   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/busco
2023-09-25T16:49:30,720   copying janis_core/tests/data/cwl/workflows/m-unlock/busco/busco.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/busco
2023-09-25T16:49:30,723   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/carveme
2023-09-25T16:49:30,724   copying janis_core/tests/data/cwl/workflows/m-unlock/carveme/GEMstats.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/carveme
2023-09-25T16:49:30,726   copying janis_core/tests/data/cwl/workflows/m-unlock/carveme/carveme.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/carveme
2023-09-25T16:49:30,728   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/checkm
2023-09-25T16:49:30,729   copying janis_core/tests/data/cwl/workflows/m-unlock/checkm/checkm_lineagewf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/checkm
2023-09-25T16:49:30,731   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/clustalo
2023-09-25T16:49:30,732   copying janis_core/tests/data/cwl/workflows/m-unlock/clustalo/clustalo.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/clustalo
2023-09-25T16:49:30,734   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/das_tool
2023-09-25T16:49:30,736   copying janis_core/tests/data/cwl/workflows/m-unlock/das_tool/das_tool.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/das_tool
2023-09-25T16:49:30,738   copying janis_core/tests/data/cwl/workflows/m-unlock/das_tool/fasta_to_contig2bin.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/das_tool
2023-09-25T16:49:30,740   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/diamond
2023-09-25T16:49:30,741   copying janis_core/tests/data/cwl/workflows/m-unlock/diamond/diamond.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/diamond
2023-09-25T16:49:30,744   copying janis_core/tests/data/cwl/workflows/m-unlock/diamond/view.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/diamond
2023-09-25T16:49:30,746   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ena
2023-09-25T16:49:30,747   copying janis_core/tests/data/cwl/workflows/m-unlock/ena/ena_wget.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ena
2023-09-25T16:49:30,749   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/eukrep
2023-09-25T16:49:30,750   copying janis_core/tests/data/cwl/workflows/m-unlock/eukrep/eukrep.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/eukrep
2023-09-25T16:49:30,752   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,753   copying janis_core/tests/data/cwl/workflows/m-unlock/expressions/array_to_file.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,755   copying janis_core/tests/data/cwl/workflows/m-unlock/expressions/files_to_folder.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,757   copying janis_core/tests/data/cwl/workflows/m-unlock/expressions/folder_file_regex.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,759   copying janis_core/tests/data/cwl/workflows/m-unlock/expressions/folder_to_files.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,761   copying janis_core/tests/data/cwl/workflows/m-unlock/expressions/merge_dir_arrays.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,763   copying janis_core/tests/data/cwl/workflows/m-unlock/expressions/merge_file_arrays.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:30,765   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastp
2023-09-25T16:49:30,766   copying janis_core/tests/data/cwl/workflows/m-unlock/fastp/fastp.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastp
2023-09-25T16:49:30,768   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastq
2023-09-25T16:49:30,769   copying janis_core/tests/data/cwl/workflows/m-unlock/fastq/fastq_to_fasta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastq
2023-09-25T16:49:30,771   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastqc
2023-09-25T16:49:30,773   copying janis_core/tests/data/cwl/workflows/m-unlock/fastqc/fastqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastqc
2023-09-25T16:49:30,775   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/filtlong
2023-09-25T16:49:30,776   copying janis_core/tests/data/cwl/workflows/m-unlock/filtlong/filtlong.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/filtlong
2023-09-25T16:49:30,778   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/flye
2023-09-25T16:49:30,779   copying janis_core/tests/data/cwl/workflows/m-unlock/flye/flye.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/flye
2023-09-25T16:49:30,782   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk
2023-09-25T16:49:30,783   copying janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk/gtdbtk_classify_wf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk
2023-09-25T16:49:30,786   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/gunc
2023-09-25T16:49:30,786   copying janis_core/tests/data/cwl/workflows/m-unlock/gunc/gunc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/gunc
2023-09-25T16:49:30,789   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/guppy
2023-09-25T16:49:30,790   copying janis_core/tests/data/cwl/workflows/m-unlock/guppy/guppy.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/guppy
2023-09-25T16:49:30,793   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/humann
2023-09-25T16:49:30,794   copying janis_core/tests/data/cwl/workflows/m-unlock/humann/humann.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/humann
2023-09-25T16:49:30,796   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/irods
2023-09-25T16:49:30,797   copying janis_core/tests/data/cwl/workflows/m-unlock/irods/irods_hdt.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/irods
2023-09-25T16:49:30,799   copying janis_core/tests/data/cwl/workflows/m-unlock/irods/irods_manager.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/irods
2023-09-25T16:49:30,801   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/kraken2
2023-09-25T16:49:30,802   copying janis_core/tests/data/cwl/workflows/m-unlock/kraken2/kraken2-build.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/kraken2
2023-09-25T16:49:30,804   copying janis_core/tests/data/cwl/workflows/m-unlock/kraken2/kraken2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/kraken2
2023-09-25T16:49:30,806   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/krona
2023-09-25T16:49:30,807   copying janis_core/tests/data/cwl/workflows/m-unlock/krona/krona.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/krona
2023-09-25T16:49:30,809   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/longqc
2023-09-25T16:49:30,810   copying janis_core/tests/data/cwl/workflows/m-unlock/longqc/longqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/longqc
2023-09-25T16:49:30,813   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/maxbin2
2023-09-25T16:49:30,814   copying janis_core/tests/data/cwl/workflows/m-unlock/maxbin2/maxbin2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/maxbin2
2023-09-25T16:49:30,816   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/medaka
2023-09-25T16:49:30,817   copying janis_core/tests/data/cwl/workflows/m-unlock/medaka/medaka.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/medaka
2023-09-25T16:49:30,820   copying janis_core/tests/data/cwl/workflows/m-unlock/medaka/medaka_py.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/medaka
2023-09-25T16:49:30,822   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/memote
2023-09-25T16:49:30,823   copying janis_core/tests/data/cwl/workflows/m-unlock/memote/memote.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/memote
2023-09-25T16:49:30,825   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/merge
2023-09-25T16:49:30,826   copying janis_core/tests/data/cwl/workflows/m-unlock/merge/merge.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/merge
2023-09-25T16:49:30,829   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:30,830   copying janis_core/tests/data/cwl/workflows/m-unlock/metabat2/aggregateBinDepths.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:30,832   copying janis_core/tests/data/cwl/workflows/m-unlock/metabat2/metabat2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:30,835   copying janis_core/tests/data/cwl/workflows/m-unlock/metabat2/metabatContigDepths.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:30,837   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:30,838   copying janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/assembly_bins_readstats.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:30,840   copying janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/bins_summary.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:30,843   copying janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/get_unbinned_contigs.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:30,845   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:30,846   copying janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:30,848   copying janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2_to_fastq.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:30,851   copying janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2_to_sorted-bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:30,853   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minionqc
2023-09-25T16:49:30,854   copying janis_core/tests/data/cwl/workflows/m-unlock/minionqc/minionqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minionqc
2023-09-25T16:49:30,856   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/multiqc
2023-09-25T16:49:30,857   copying janis_core/tests/data/cwl/workflows/m-unlock/multiqc/multiqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/multiqc
2023-09-25T16:49:30,859   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/nanoqc
2023-09-25T16:49:30,860   copying janis_core/tests/data/cwl/workflows/m-unlock/nanoqc/nanoqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/nanoqc
2023-09-25T16:49:30,862   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:30,863   copying janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:30,865   copying janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_demultiplexing.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:30,867   copying janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_to_biom.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:30,869   copying janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_to_tsv-fasta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:30,872   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,873   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_NonSpliced_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,878   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_Spliced_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,883   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_kallisto_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,889   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_demultiplexing_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,891   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ena_annotation_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,893   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_genomesync_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,896   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_illumina_assembly_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,902   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_illumina_quality_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,907   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_indexbuilder_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,910   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_longread_quality_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,915   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_GEM_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,918   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_assembly_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,932   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_binning_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,937   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,938   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_read_annotation_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,944   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_microbial_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,947   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_mock_ngtax_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,949   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_nanopore_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,951   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ngtax_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,954   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ngtax_picrust2_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,957   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_pilon_mapping_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,960   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_prepare_fasta_db_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,963   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_samsa2_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,966   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_sapp_microbes_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,969   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_sapp_others_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,971   copying janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_toHDT_compression_packed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:30,974   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/picrust2
2023-09-25T16:49:30,975   copying janis_core/tests/data/cwl/workflows/m-unlock/picrust2/picrust2_pipeline.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/picrust2
2023-09-25T16:49:30,977   copying janis_core/tests/data/cwl/workflows/m-unlock/picrust2/picrust_to_biom.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/picrust2
2023-09-25T16:49:30,979   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/pilon
2023-09-25T16:49:30,981   copying janis_core/tests/data/cwl/workflows/m-unlock/pilon/pilon.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/pilon
2023-09-25T16:49:30,983   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/prodigal
2023-09-25T16:49:30,984   copying janis_core/tests/data/cwl/workflows/m-unlock/prodigal/prodigal.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/prodigal
2023-09-25T16:49:30,986   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/pycoqc
2023-09-25T16:49:30,987   copying janis_core/tests/data/cwl/workflows/m-unlock/pycoqc/pycoqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/pycoqc
2023-09-25T16:49:30,989   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/quast
2023-09-25T16:49:30,990   copying janis_core/tests/data/cwl/workflows/m-unlock/quast/metaquast.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/quast
2023-09-25T16:49:30,993   copying janis_core/tests/data/cwl/workflows/m-unlock/quast/quast.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/quast
2023-09-25T16:49:30,995   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/resfinder
2023-09-25T16:49:30,996   copying janis_core/tests/data/cwl/workflows/m-unlock/resfinder/resfinder.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/resfinder
2023-09-25T16:49:30,998   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samsa2
2023-09-25T16:49:30,999   copying janis_core/tests/data/cwl/workflows/m-unlock/samsa2/convert.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samsa2
2023-09-25T16:49:31,001   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,002   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/expression_bam_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,004   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/merge-sorted-bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,006   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_fastq_PE.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,008   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_fastq_SE.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,011   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_sorted-bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,013   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_unmapped_fastq_SE.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,017   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_flagstat.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,020   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_idxstats.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,022   copying janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:31,024   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,025   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,027   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion_rdf2fasta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,029   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion_rdf2gtf.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,031   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/crt.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,033   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/infernal.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,036   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/interproscan.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,038   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/kofamscan.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,040   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/prodigal.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,042   copying janis_core/tests/data/cwl/workflows/m-unlock/sapp/toHDT.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:31,045   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/semibin
2023-09-25T16:49:31,046   copying janis_core/tests/data/cwl/workflows/m-unlock/semibin/semibin_rename_bins.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/semibin
2023-09-25T16:49:31,048   copying janis_core/tests/data/cwl/workflows/m-unlock/semibin/semibin_single_easy_bin.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/semibin
2023-09-25T16:49:31,051   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/smetana
2023-09-25T16:49:31,052   copying janis_core/tests/data/cwl/workflows/m-unlock/smetana/smetana.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/smetana
2023-09-25T16:49:31,054   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/spades
2023-09-25T16:49:31,055   copying janis_core/tests/data/cwl/workflows/m-unlock/spades/spades.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/spades
2023-09-25T16:49:31,057   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/stats
2023-09-25T16:49:31,058   copying janis_core/tests/data/cwl/workflows/m-unlock/stats/raw_n50.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/stats
2023-09-25T16:49:31,060   copying janis_core/tests/data/cwl/workflows/m-unlock/stats/seqinfo.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/stats
2023-09-25T16:49:31,062   creating build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,063   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/demultiplexing.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,066   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/metagenomics_GEM.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,068   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/mock_ngtax.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,070   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/ngtax.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,073   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/ngtax_picrust2.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,075   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/pilon_mapping.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,077   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/sapp_microbes.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,079   copying janis_core/tests/data/cwl/workflows/m-unlock/workflows/toHDT_compression.cwl -> build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:31,082   creating build/lib/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:31,083   copying janis_core/tests/data/cwl/workflows/structuralvariants/workflow.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:31,085   copying janis_core/tests/data/cwl/workflows/structuralvariants/workflow.yaml -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:31,088   copying janis_core/tests/data/cwl/workflows/structuralvariants/workflow_idxs.yaml -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:31,090   creating build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,091   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/batch_parser.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,093   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bedops_union.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,096   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bgzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,098   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bundle_secondaryfiles.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,100   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,102   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_mem_paired.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,104   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_mem_unpaired.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,106   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/codex.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,108   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/codex_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,110   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/collapse.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,112   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/exome_depth.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,114   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/exome_depth_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,117   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/fastp.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,119   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/fastqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,121   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gridss.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,123   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gridss_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,125   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gunzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,127   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/manta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,129   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/manta_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,132   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/merge_all.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,134   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/picard_markduplicates.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,136   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_faidx.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,138   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,140   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_merge.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,142   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,145   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_view.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,147   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_view_sam2bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,149   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/structural_variants.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,151   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/svtools.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,153   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/tabix.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:31,155   creating build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,156   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bam_filtering.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,158   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bwa_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,160   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bwa_mem.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,163   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_codex.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,165   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_exome_depth.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,167   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_gridss.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,169   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_manta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,172   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/final_filtering.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,174   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/indexing_bed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,176   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/picard_markduplicates.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,178   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/samtools_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,180   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/samtools_view_sam2bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,182   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/trimmed_fastq.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:31,184   creating build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow
2023-09-25T16:49:31,185   copying janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow/abstract_workflow.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow
2023-09-25T16:49:31,188   creating build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,189   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bam_filtering.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,191   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bwa_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,193   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bwa_mem.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,195   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_codex.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,198   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_exome_depth.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,200   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_gridss.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,202   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_manta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,204   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/final_filtering.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,206   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/indexing_bed.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,208   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/indexing_bed.yaml -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,210   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/picard_markduplicates.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,213   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/samtools_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,215   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/samtools_view_sam2bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,217   copying janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/trimmed_fastq.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:31,219   creating build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,220   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/batch_parser.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,223   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bedops_union.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,225   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bgzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,227   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bundle_secondaryfiles.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,229   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,231   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_index_grace.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,234   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_paired.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,236   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_paired_grace.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,238   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_unpaired.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,240   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_unpaired_grace.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,242   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/codex.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,245   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/codex_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,247   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/collapse.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,249   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/exome_depth.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,251   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/exome_depth_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,254   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/fastp.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,256   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/fastqc.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,258   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/gridss.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,260   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/gridss_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,263   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/gunzip.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,265   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/manta.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,267   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/manta_filter.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,269   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/merge_all.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,271   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/picard_markduplicates.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,273   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_faidx.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,275   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_index.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,277   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_merge.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,280   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_sort.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,282   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_view.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,284   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_view_sam2bam.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,286   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/structural_variants.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,288   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/svtools.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,290   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/tabix.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,292   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/tools_list.txt -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,294   copying janis_core/tests/data/cwl/workflows/structuralvariants/tools/unicycler.cwl -> build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:31,297   creating build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:31,298   copying janis_core/tests/data/cwl/workflows/subworkflow_test/basic.cwl -> build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:31,300   copying janis_core/tests/data/cwl/workflows/subworkflow_test/main.cwl -> build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:31,303   copying janis_core/tests/data/cwl/workflows/subworkflow_test/mandatory_input_types.cwl -> build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:31,306   copying janis_core/tests/data/cwl/workflows/subworkflow_test/optional_input_types.cwl -> build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:31,309   copying janis_core/tests/data/cwl/workflows/subworkflow_test/subworkflow.cwl -> build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:31,311   creating build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,313   copying janis_core/tests/data/galaxy/annotate-my-ids-wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,316   copying janis_core/tests/data/galaxy/cutadapt_wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,320   copying janis_core/tests/data/galaxy/fastqc_wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,323   copying janis_core/tests/data/galaxy/goseq_wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,326   copying janis_core/tests/data/galaxy/hisat2_wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,330   copying janis_core/tests/data/galaxy/limma_voom_wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,333   copying janis_core/tests/data/galaxy/nanoplot_wf.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,336   copying janis_core/tests/data/galaxy/rna_seq_counts_to_genes.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,339   copying janis_core/tests/data/galaxy/rna_seq_genes_to_pathways.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,343   copying janis_core/tests/data/galaxy/rna_seq_reads_to_counts.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,347   copying janis_core/tests/data/galaxy/unicycler_assembly.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,351   copying janis_core/tests/data/galaxy/wf_abricate.ga -> build/lib/janis_core/tests/data/galaxy
2023-09-25T16:49:31,353   creating build/lib/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:31,355   copying janis_core/tests/data/galaxy/abricate/.shed.yml -> build/lib/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:31,358   copying janis_core/tests/data/galaxy/abricate/abricate.xml -> build/lib/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:31,361   copying janis_core/tests/data/galaxy/abricate/abricate_list.xml -> build/lib/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:31,364   copying janis_core/tests/data/galaxy/abricate/abricate_summary.xml -> build/lib/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:31,367   copying janis_core/tests/data/galaxy/abricate/macros.xml -> build/lib/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:31,369   creating build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,371   copying janis_core/tests/data/galaxy/abricate/test-data/Acetobacter.fna -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,379   copying janis_core/tests/data/galaxy/abricate/test-data/MRSA0252.fna -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,428   copying janis_core/tests/data/galaxy/abricate/test-data/output_db-card.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,431   copying janis_core/tests/data/galaxy/abricate/test-data/output_db-megares.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,433   copying janis_core/tests/data/galaxy/abricate/test-data/output_gbk.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,435   copying janis_core/tests/data/galaxy/abricate/test-data/output_list.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,437   copying janis_core/tests/data/galaxy/abricate/test-data/output_mincov100.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,439   copying janis_core/tests/data/galaxy/abricate/test-data/output_minid100.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,442   copying janis_core/tests/data/galaxy/abricate/test-data/output_mrsa.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,444   copying janis_core/tests/data/galaxy/abricate/test-data/output_noheader.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,446   copying janis_core/tests/data/galaxy/abricate/test-data/output_noresults.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,448   copying janis_core/tests/data/galaxy/abricate/test-data/output_summary.txt -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,450   copying janis_core/tests/data/galaxy/abricate/test-data/test.gbk -> build/lib/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:31,452   creating build/lib/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee
2023-09-25T16:49:31,453   copying janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee/.hg_archival.txt -> build/lib/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee
2023-09-25T16:49:31,455   copying janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee/rgFastQC.xml -> build/lib/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee
2023-09-25T16:49:31,458   creating build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:31,459   copying janis_core/tests/data/galaxy/hisat2-6c19daec423d/.hg_archival.txt -> build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:31,461   copying janis_core/tests/data/galaxy/hisat2-6c19daec423d/hisat2.xml -> build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:31,465   copying janis_core/tests/data/galaxy/hisat2-6c19daec423d/hisat2_macros.xml -> build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:31,468   copying janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool_data_table_conf.xml.sample -> build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:31,470   copying janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool_data_table_conf.xml.test -> build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:31,472   creating build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data
2023-09-25T16:49:31,473   copying janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data/hisat2_indexes.loc.sample -> build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data
2023-09-25T16:49:31,475   creating build/lib/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5
2023-09-25T16:49:31,476   copying janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5/.hg_archival.txt -> build/lib/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5
2023-09-25T16:49:31,478   copying janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5/nanoplot.xml -> build/lib/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5
2023-09-25T16:49:31,481   creating build/lib/janis_core/tests/data/galaxy/quast-675488238c96
2023-09-25T16:49:31,482   copying janis_core/tests/data/galaxy/quast-675488238c96/macros.xml -> build/lib/janis_core/tests/data/galaxy/quast-675488238c96
2023-09-25T16:49:31,485   copying janis_core/tests/data/galaxy/quast-675488238c96/quast.xml -> build/lib/janis_core/tests/data/galaxy/quast-675488238c96
2023-09-25T16:49:31,488   creating build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,489   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/.hg_archival.txt -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,491   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/ansi2html.sh -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,494   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/awk.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,496   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/cat.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,498   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/cut.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,501   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/easyjoin -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,504   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/easyjoin.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,506   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/find_and_replace -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,509   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/find_and_replace.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,512   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/grep.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,515   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/head.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,517   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/macros.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,519   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/multijoin -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,522   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/multijoin.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,524   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/readme.rst -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,527   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/recurring_lines.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,529   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/replace_text_in_column.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,531   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/replace_text_in_line.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,534   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/sed.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,536   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/sort-header -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,538   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/sort.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,540   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/sort_rows.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,542   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/sorted_uniq.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,545   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/tac.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,547   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/tail.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,549   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/unfold_column.py -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,551   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/unfold_column.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,553   copying janis_core/tests/data/galaxy/text_processing-d698c222f354/unsorted_uniq.xml -> build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:31,555   creating build/lib/janis_core/tests/data/janis
2023-09-25T16:49:31,556   copying janis_core/tests/data/janis/test_codetool.py -> build/lib/janis_core/tests/data/janis
2023-09-25T16:49:31,558   creating build/lib/janis_core/tests/data/janis/simple
2023-09-25T16:49:31,559   copying janis_core/tests/data/janis/simple/workflow.py -> build/lib/janis_core/tests/data/janis/simple
2023-09-25T16:49:31,562   creating build/lib/janis_core/tests/data/janis/simple/scripts
2023-09-25T16:49:31,563   copying janis_core/tests/data/janis/simple/scripts/multiqc_multiqc_config -> build/lib/janis_core/tests/data/janis/simple/scripts
2023-09-25T16:49:31,565   creating build/lib/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:31,566   copying janis_core/tests/data/janis/simple/tools/fastqc.py -> build/lib/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:31,569   copying janis_core/tests/data/janis/simple/tools/multiqc.py -> build/lib/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:31,571   copying janis_core/tests/data/janis/simple/tools/prokka.py -> build/lib/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:31,574   copying janis_core/tests/data/janis/simple/tools/quast.py -> build/lib/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:31,576   copying janis_core/tests/data/janis/simple/tools/unicycler.py -> build/lib/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:31,579   creating build/lib/janis_core/tests/data/janis/simple_truncated
2023-09-25T16:49:31,579   creating build/lib/janis_core/tests/data/janis/simple_truncated/scripts
2023-09-25T16:49:31,581   copying janis_core/tests/data/janis/simple_truncated/scripts/multiqc_multiqc_config -> build/lib/janis_core/tests/data/janis/simple_truncated/scripts
2023-09-25T16:49:31,583   creating build/lib/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:31,584   copying janis_core/tests/data/janis/simple_truncated/tools/multiqc.py -> build/lib/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:31,586   copying janis_core/tests/data/janis/simple_truncated/tools/prokka.py -> build/lib/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:31,588   copying janis_core/tests/data/janis/simple_truncated/tools/quast.py -> build/lib/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:31,591   creating build/lib/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:31,592   copying janis_core/tests/data/janis/wgs_somatic_dep/__init__.py -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:31,594   copying janis_core/tests/data/janis/wgs_somatic_dep/wgssomatic.py -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:31,597   copying janis_core/tests/data/janis/wgs_somatic_dep/wgssomatic_variantsonly.py -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:31,599   creating build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl
2023-09-25T16:49:31,600   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/WGSSomaticMultiCallers-inp.yml -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl
2023-09-25T16:49:31,602   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/WGSSomaticMultiCallers_1_4_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl
2023-09-25T16:49:31,605   creating build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,606   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/AddBamStatsSomatic_v0_1_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,608   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/BwaAligner_1_0_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,611   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/BwaMemSamtoolsView_0_7_17_1_9.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,613   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/ConcatStrelkaSomaticVcf_0_1_16.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,616   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/FilterVardictSomaticVcf_v1_9.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,618   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GATK4_SomaticVariantCaller_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,620   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,622   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4ApplyBQSR_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,625   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4BaseRecalibrator_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,628   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4CalculateContamination_4_1_4_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,630   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4CollectInsertSizeMetrics_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,632   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4FilterMutectCalls_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,634   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4GatherVcfs_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,637   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4GetPileupSummaries_4_1_6_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,639   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4LearnReadOrientationModel_4_1_4_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,641   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4MarkDuplicates_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,643   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4MergeSamFiles_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,646   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4Mutect2_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,649   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4SortSam_4_1_2_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,651   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4SplitReads_4_1_3_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,654   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GenerateGenomeFileForBedtoolsCoverage_v0_1_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,656   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GenerateVardictHeaderLines_v0_1_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,658   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/ParseFastqcAdaptors_v0_1_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,661   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/PerformanceSummaryGenome_v0_1_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,663   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsFlagstat_1_9_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,665   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsMpileup_1_9_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,668   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsView_1_9_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,670   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SplitMultiAllele_v0_5772.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,672   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/UncompressArchive_v1_0_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,675   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/VcfTools_0_1_16.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,677   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/addBamStats_0_0_7.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,679   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bcftoolsAnnotate_v1_5.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,681   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bcftoolssort_v1_9.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,683   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bedtoolsgenomeCoverageBed_v2_29_2.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,686   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bgzip_1_2_1.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,688   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/combinevariants_0_0_8.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,690   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/cutadapt_2_1.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,693   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/extractStrelkaSomaticADDP_0_1_1.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,695   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/fastqc_v0_11_8.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,697   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/gridss_v2_6_2.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,700   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/manta_1_5_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,702   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/mergeAndMarkBams_4_1_3.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,704   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/performanceSummary_0_0_7.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,706   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/samtools_mpileup_subpipeline.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,708   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/somatic_subpipeline.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,710   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/split_bam_subpipeline.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,713   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/strelkaSomaticVariantCaller_v0_1_1.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,715   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/strelka_somatic_2_9_10.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,718   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/tabix_1_2_1.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,720   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/trimIUPAC_0_0_5.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,722   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/vardictSomaticVariantCaller_v0_1_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,724   copying janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/vardict_somatic_1_6_0.cwl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:31,727   creating build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl
2023-09-25T16:49:31,728   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/WGSSomaticMultiCallers-inp.json -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl
2023-09-25T16:49:31,731   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/WGSSomaticMultiCallers_1_4_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl
2023-09-25T16:49:31,733   creating build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,734   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/AddBamStatsSomatic_v0_1_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,737   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/BwaAligner_1_0_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,739   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/BwaMemSamtoolsView_0_7_17_1_9.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,741   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/ConcatStrelkaSomaticVcf_0_1_16.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,743   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/FilterVardictSomaticVcf_v1_9.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,745   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GATK4_SomaticVariantCaller_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,747   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,750   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4ApplyBQSR_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,752   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4BaseRecalibrator_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,754   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4CalculateContamination_4_1_4_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,756   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4CollectInsertSizeMetrics_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,758   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4FilterMutectCalls_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,760   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4GatherVcfs_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,762   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4GetPileupSummaries_4_1_6_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,765   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4LearnReadOrientationModel_4_1_4_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,767   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4MarkDuplicates_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,769   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4MergeSamFiles_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,771   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4Mutect2_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,774   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4SortSam_4_1_2_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,777   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4SplitReads_4_1_3_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,779   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GenerateGenomeFileForBedtoolsCoverage_v0_1_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,782   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GenerateVardictHeaderLines_v0_1_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,784   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/ParseFastqcAdaptors_v0_1_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,786   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/PerformanceSummaryGenome_v0_1_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,788   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsFlagstat_1_9_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,790   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsMpileup_1_9_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,792   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsView_1_9_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,794   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SplitMultiAllele_v0_5772.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,796   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/UncompressArchive_v1_0_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,798   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/VcfTools_0_1_16.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,800   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/addBamStats_0_0_7.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,802   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bcftoolsAnnotate_v1_5.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,805   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bcftoolssort_v1_9.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,806   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bedtoolsgenomeCoverageBed_v2_29_2.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,809   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bgzip_1_2_1.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,811   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/combinevariants_0_0_8.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,813   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/cutadapt_2_1.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,816   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/extractStrelkaSomaticADDP_0_1_1.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,818   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/fastqc_v0_11_8.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,820   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/gridss_v2_6_2.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,823   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/manta_1_5_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,825   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/mergeAndMarkBams_4_1_3.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,827   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/performanceSummary_0_0_7.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,830   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/samtools_mpileup_subpipeline.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,832   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/somatic_subpipeline.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,834   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/split_bam_subpipeline.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,836   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/strelkaSomaticVariantCaller_v0_1_1.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,838   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/strelka_somatic_2_9_10.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,841   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/tabix_1_2_1.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,843   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/trimIUPAC_0_0_5.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,845   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/vardictSomaticVariantCaller_v0_1_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,847   copying janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/vardict_somatic_1_6_0.wdl -> build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:31,849   creating build/lib/janis_core/tests/data/wdl
2023-09-25T16:49:31,850   copying janis_core/tests/data/wdl/Multisample_jointgt_GATK4.wdl -> build/lib/janis_core/tests/data/wdl
2023-09-25T16:49:31,854   copying janis_core/tests/data/wdl/bwa.wdl -> build/lib/janis_core/tests/data/wdl
2023-09-25T16:49:31,856   copying janis_core/tests/data/wdl/somatic_wf.wdl -> build/lib/janis_core/tests/data/wdl
2023-09-25T16:49:31,859   copying janis_core/ingestion/galaxy/internal_model/workflow/step/post_step.txt -> build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:31,861   copying janis_core/tests/integration/README.md -> build/lib/janis_core/tests/integration
2023-09-25T16:49:31,922   installing to build/bdist.linux-armv7l/wheel
2023-09-25T16:49:31,923   running install
2023-09-25T16:49:31,947   running install_lib
2023-09-25T16:49:31,951   creating build/bdist.linux-armv7l
2023-09-25T16:49:31,952   creating build/bdist.linux-armv7l/wheel
2023-09-25T16:49:31,954   creating build/bdist.linux-armv7l/wheel/janis_core
2023-09-25T16:49:31,955   creating build/bdist.linux-armv7l/wheel/janis_core/workflow
2023-09-25T16:49:31,956   copying build/lib/janis_core/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/workflow
2023-09-25T16:49:31,958   copying build/lib/janis_core/workflow/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/workflow
2023-09-25T16:49:31,961   creating build/bdist.linux-armv7l/wheel/janis_core/redefinitions
2023-09-25T16:49:31,962   copying build/lib/janis_core/redefinitions/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions
2023-09-25T16:49:31,965   creating build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,966   copying build/lib/janis_core/redefinitions/tools/strelka.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,968   copying build/lib/janis_core/redefinitions/tools/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,970   copying build/lib/janis_core/redefinitions/tools/cat.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,972   copying build/lib/janis_core/redefinitions/tools/performancesummary.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,974   copying build/lib/janis_core/redefinitions/tools/tabix.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,976   copying build/lib/janis_core/redefinitions/tools/bgzip.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,978   copying build/lib/janis_core/redefinitions/tools/addbamstats.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,980   copying build/lib/janis_core/redefinitions/tools/parse.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,982   copying build/lib/janis_core/redefinitions/tools/manta.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,984   copying build/lib/janis_core/redefinitions/tools/gridss.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,987   copying build/lib/janis_core/redefinitions/tools/bioinformaticstool.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,989   copying build/lib/janis_core/redefinitions/tools/splitmultiallele.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,991   copying build/lib/janis_core/redefinitions/tools/cutadapt.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,994   copying build/lib/janis_core/redefinitions/tools/trimiupac.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,995   copying build/lib/janis_core/redefinitions/tools/bwamem_samtoolsview.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:31,998   copying build/lib/janis_core/redefinitions/tools/gatk4.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,003   copying build/lib/janis_core/redefinitions/tools/generate.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,005   copying build/lib/janis_core/redefinitions/tools/petermacutils.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,007   copying build/lib/janis_core/redefinitions/tools/echo.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,009   copying build/lib/janis_core/redefinitions/tools/uncompressarchive.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,011   copying build/lib/janis_core/redefinitions/tools/fastqc.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,013   copying build/lib/janis_core/redefinitions/tools/bedtoolsgenomecoverage.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,016   copying build/lib/janis_core/redefinitions/tools/vcftools.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,018   copying build/lib/janis_core/redefinitions/tools/vardict.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,021   copying build/lib/janis_core/redefinitions/tools/bcftools.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,023   copying build/lib/janis_core/redefinitions/tools/samtools.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,026   copying build/lib/janis_core/redefinitions/tools/combinevariants.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/tools
2023-09-25T16:49:32,028   copying build/lib/janis_core/redefinitions/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions
2023-09-25T16:49:32,030   copying build/lib/janis_core/redefinitions/types.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions
2023-09-25T16:49:32,034   creating build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,035   copying build/lib/janis_core/redefinitions/workflows/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,037   copying build/lib/janis_core/redefinitions/workflows/gatkgermlinevariantcaller.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,039   copying build/lib/janis_core/redefinitions/workflows/illuminagermlinevariantcaller.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,040   copying build/lib/janis_core/redefinitions/workflows/mergeandmark.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,042   copying build/lib/janis_core/redefinitions/workflows/gatkbaserecalbqsr.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,044   copying build/lib/janis_core/redefinitions/workflows/addbamstats.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,045   copying build/lib/janis_core/redefinitions/workflows/performancesummarygenome.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,047   copying build/lib/janis_core/redefinitions/workflows/vardictgermlinevariantcaller.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,049   copying build/lib/janis_core/redefinitions/workflows/wgsgermline.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,051   copying build/lib/janis_core/redefinitions/workflows/bioinformaticsworkflow.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,053   copying build/lib/janis_core/redefinitions/workflows/bwaaligner.py -> build/bdist.linux-armv7l/wheel/janis_core/redefinitions/workflows
2023-09-25T16:49:32,056   creating build/bdist.linux-armv7l/wheel/janis_core/toolbox
2023-09-25T16:49:32,057   copying build/lib/janis_core/toolbox/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/toolbox
2023-09-25T16:49:32,058   copying build/lib/janis_core/toolbox/register.py -> build/bdist.linux-armv7l/wheel/janis_core/toolbox
2023-09-25T16:49:32,060   copying build/lib/janis_core/toolbox/toolbox.py -> build/bdist.linux-armv7l/wheel/janis_core/toolbox
2023-09-25T16:49:32,062   copying build/lib/janis_core/toolbox/entrypoints.py -> build/bdist.linux-armv7l/wheel/janis_core/toolbox
2023-09-25T16:49:32,064   copying build/lib/janis_core/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core
2023-09-25T16:49:32,066   creating build/bdist.linux-armv7l/wheel/janis_core/translation_utils
2023-09-25T16:49:32,067   copying build/lib/janis_core/translation_utils/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translation_utils
2023-09-25T16:49:32,068   copying build/lib/janis_core/translation_utils/graph.py -> build/bdist.linux-armv7l/wheel/janis_core/translation_utils
2023-09-25T16:49:32,070   copying build/lib/janis_core/translation_utils/datatypes.py -> build/bdist.linux-armv7l/wheel/janis_core/translation_utils
2023-09-25T16:49:32,073   creating build/bdist.linux-armv7l/wheel/janis_core/translations
2023-09-25T16:49:32,074   creating build/bdist.linux-armv7l/wheel/janis_core/translations/cwl
2023-09-25T16:49:32,075   copying build/lib/janis_core/translations/cwl/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/cwl
2023-09-25T16:49:32,077   copying build/lib/janis_core/translations/cwl/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/cwl
2023-09-25T16:49:32,081   creating build/bdist.linux-armv7l/wheel/janis_core/translations/common
2023-09-25T16:49:32,082   copying build/lib/janis_core/translations/common/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common
2023-09-25T16:49:32,084   copying build/lib/janis_core/translations/common/trace.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common
2023-09-25T16:49:32,088   creating build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing
2023-09-25T16:49:32,089   creating build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/builders
2023-09-25T16:49:32,090   copying build/lib/janis_core/translations/common/preprocessing/builders/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/builders
2023-09-25T16:49:32,092   copying build/lib/janis_core/translations/common/preprocessing/builders/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/builders
2023-09-25T16:49:32,094   copying build/lib/janis_core/translations/common/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing
2023-09-25T16:49:32,096   creating build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,097   copying build/lib/janis_core/translations/common/preprocessing/prune/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,098   copying build/lib/janis_core/translations/common/preprocessing/prune/gather.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,100   copying build/lib/janis_core/translations/common/preprocessing/prune/history.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,102   copying build/lib/janis_core/translations/common/preprocessing/prune/tools.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,104   copying build/lib/janis_core/translations/common/preprocessing/prune/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,106   copying build/lib/janis_core/translations/common/preprocessing/prune/workflows.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,108   copying build/lib/janis_core/translations/common/preprocessing/prune/common.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/common/preprocessing/prune
2023-09-25T16:49:32,110   copying build/lib/janis_core/translations/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations
2023-09-25T16:49:32,111   copying build/lib/janis_core/translations/translationbase.py -> build/bdist.linux-armv7l/wheel/janis_core/translations
2023-09-25T16:49:32,114   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,115   copying build/lib/janis_core/translations/nextflow/nulls.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,117   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/params
2023-09-25T16:49:32,118   copying build/lib/janis_core/translations/nextflow/params/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/params
2023-09-25T16:49:32,120   copying build/lib/janis_core/translations/nextflow/params/update.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/params
2023-09-25T16:49:32,122   copying build/lib/janis_core/translations/nextflow/params/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/params
2023-09-25T16:49:32,124   copying build/lib/janis_core/translations/nextflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,126   copying build/lib/janis_core/translations/nextflow/expressions.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,128   copying build/lib/janis_core/translations/nextflow/variables.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,130   copying build/lib/janis_core/translations/nextflow/nfgen_utils.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,132   copying build/lib/janis_core/translations/nextflow/unwrap.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,135   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:32,136   copying build/lib/janis_core/translations/nextflow/casefmt/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:32,138   copying build/lib/janis_core/translations/nextflow/casefmt/mapping.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:32,140   copying build/lib/janis_core/translations/nextflow/casefmt/patterns.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:32,141   copying build/lib/janis_core/translations/nextflow/casefmt/casefmt.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/casefmt
2023-09-25T16:49:32,143   copying build/lib/janis_core/translations/nextflow/scope.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,145   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate
2023-09-25T16:49:32,146   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,147   copying build/lib/janis_core/translations/nextflow/generate/workflow/call.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,150   copying build/lib/janis_core/translations/nextflow/generate/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,151   copying build/lib/janis_core/translations/nextflow/generate/workflow/scatter.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,153   copying build/lib/janis_core/translations/nextflow/generate/workflow/datatype_mismatch.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,155   copying build/lib/janis_core/translations/nextflow/generate/workflow/edge_cases.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,157   copying build/lib/janis_core/translations/nextflow/generate/workflow/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,159   copying build/lib/janis_core/translations/nextflow/generate/workflow/common.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/workflow
2023-09-25T16:49:32,161   copying build/lib/janis_core/translations/nextflow/generate/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate
2023-09-25T16:49:32,163   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:32,164   copying build/lib/janis_core/translations/nextflow/generate/process/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:32,166   copying build/lib/janis_core/translations/nextflow/generate/process/directives.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:32,169   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,170   copying build/lib/janis_core/translations/nextflow/generate/process/script/ordering.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,172   copying build/lib/janis_core/translations/nextflow/generate/process/script/selection.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,174   copying build/lib/janis_core/translations/nextflow/generate/process/script/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,176   copying build/lib/janis_core/translations/nextflow/generate/process/script/ctype.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,178   copying build/lib/janis_core/translations/nextflow/generate/process/script/script.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,181   copying build/lib/janis_core/translations/nextflow/generate/process/script/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,183   copying build/lib/janis_core/translations/nextflow/generate/process/script/prescript.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,185   copying build/lib/janis_core/translations/nextflow/generate/process/script/attributes.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,187   copying build/lib/janis_core/translations/nextflow/generate/process/script/common.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/script
2023-09-25T16:49:32,189   copying build/lib/janis_core/translations/nextflow/generate/process/inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:32,191   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:32,192   copying build/lib/janis_core/translations/nextflow/generate/process/outputs/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:32,194   copying build/lib/janis_core/translations/nextflow/generate/process/outputs/factory_pythontool.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:32,196   copying build/lib/janis_core/translations/nextflow/generate/process/outputs/factory_cmdtool.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:32,199   copying build/lib/janis_core/translations/nextflow/generate/process/outputs/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process/outputs
2023-09-25T16:49:32,201   copying build/lib/janis_core/translations/nextflow/generate/process/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/process
2023-09-25T16:49:32,204   copying build/lib/janis_core/translations/nextflow/generate/config.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate
2023-09-25T16:49:32,206   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,207   copying build/lib/janis_core/translations/nextflow/generate/files/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,209   copying build/lib/janis_core/translations/nextflow/generate/files/process.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,211   copying build/lib/janis_core/translations/nextflow/generate/files/variable_declarations.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,213   copying build/lib/janis_core/translations/nextflow/generate/files/channel_declarations.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,215   copying build/lib/janis_core/translations/nextflow/generate/files/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,217   copying build/lib/janis_core/translations/nextflow/generate/files/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/generate/files
2023-09-25T16:49:32,219   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing
2023-09-25T16:49:32,220   copying build/lib/janis_core/translations/nextflow/preprocessing/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing
2023-09-25T16:49:32,223   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,224   copying build/lib/janis_core/translations/nextflow/preprocessing/task_inputs/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,226   copying build/lib/janis_core/translations/nextflow/preprocessing/task_inputs/populator.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,228   copying build/lib/janis_core/translations/nextflow/preprocessing/task_inputs/history.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,230   copying build/lib/janis_core/translations/nextflow/preprocessing/task_inputs/categories.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,232   copying build/lib/janis_core/translations/nextflow/preprocessing/task_inputs/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,234   copying build/lib/janis_core/translations/nextflow/preprocessing/task_inputs/common.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing/task_inputs
2023-09-25T16:49:32,236   copying build/lib/janis_core/translations/nextflow/preprocessing/unique_task_names.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/preprocessing
2023-09-25T16:49:32,238   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/naming
2023-09-25T16:49:32,239   copying build/lib/janis_core/translations/nextflow/naming/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/naming
2023-09-25T16:49:32,241   copying build/lib/janis_core/translations/nextflow/naming/process.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/naming
2023-09-25T16:49:32,243   copying build/lib/janis_core/translations/nextflow/naming/constructs.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/naming
2023-09-25T16:49:32,246   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model
2023-09-25T16:49:32,247   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/workflow
2023-09-25T16:49:32,248   copying build/lib/janis_core/translations/nextflow/model/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/workflow
2023-09-25T16:49:32,250   copying build/lib/janis_core/translations/nextflow/model/workflow/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/workflow
2023-09-25T16:49:32,252   copying build/lib/janis_core/translations/nextflow/model/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model
2023-09-25T16:49:32,254   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/process
2023-09-25T16:49:32,255   copying build/lib/janis_core/translations/nextflow/model/process/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/process
2023-09-25T16:49:32,257   copying build/lib/janis_core/translations/nextflow/model/process/directives.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/process
2023-09-25T16:49:32,259   copying build/lib/janis_core/translations/nextflow/model/process/process.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/process
2023-09-25T16:49:32,261   copying build/lib/janis_core/translations/nextflow/model/process/inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/process
2023-09-25T16:49:32,264   copying build/lib/janis_core/translations/nextflow/model/process/outputs.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/process
2023-09-25T16:49:32,266   creating build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/files
2023-09-25T16:49:32,267   copying build/lib/janis_core/translations/nextflow/model/files/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/files
2023-09-25T16:49:32,269   copying build/lib/janis_core/translations/nextflow/model/files/variables.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/files
2023-09-25T16:49:32,271   copying build/lib/janis_core/translations/nextflow/model/files/files.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/files
2023-09-25T16:49:32,272   copying build/lib/janis_core/translations/nextflow/model/files/channels.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow/model/files
2023-09-25T16:49:32,274   copying build/lib/janis_core/translations/nextflow/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,276   copying build/lib/janis_core/translations/nextflow/task_inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/nextflow
2023-09-25T16:49:32,279   creating build/bdist.linux-armv7l/wheel/janis_core/translations/janis
2023-09-25T16:49:32,280   copying build/lib/janis_core/translations/janis/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/janis
2023-09-25T16:49:32,282   copying build/lib/janis_core/translations/janis/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/janis
2023-09-25T16:49:32,285   copying build/lib/janis_core/translations/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations
2023-09-25T16:49:32,287   creating build/bdist.linux-armv7l/wheel/janis_core/translations/wdl
2023-09-25T16:49:32,288   copying build/lib/janis_core/translations/wdl/ordering.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/wdl
2023-09-25T16:49:32,290   copying build/lib/janis_core/translations/wdl/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/wdl
2023-09-25T16:49:32,292   copying build/lib/janis_core/translations/wdl/main.py -> build/bdist.linux-armv7l/wheel/janis_core/translations/wdl
2023-09-25T16:49:32,297   creating build/bdist.linux-armv7l/wheel/janis_core/translation_deps
2023-09-25T16:49:32,298   copying build/lib/janis_core/translation_deps/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/translation_deps
2023-09-25T16:49:32,300   copying build/lib/janis_core/translation_deps/exportpath.py -> build/bdist.linux-armv7l/wheel/janis_core/translation_deps
2023-09-25T16:49:32,302   copying build/lib/janis_core/translation_deps/supportedtranslations.py -> build/bdist.linux-armv7l/wheel/janis_core/translation_deps
2023-09-25T16:49:32,304   creating build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,305   copying build/lib/janis_core/operators/operator.py -> build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,307   copying build/lib/janis_core/operators/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,309   copying build/lib/janis_core/operators/stringformatter.py -> build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,311   copying build/lib/janis_core/operators/logical.py -> build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,314   copying build/lib/janis_core/operators/standard.py -> build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,316   copying build/lib/janis_core/operators/selectors.py -> build/bdist.linux-armv7l/wheel/janis_core/operators
2023-09-25T16:49:32,319   creating build/bdist.linux-armv7l/wheel/janis_core/code
2023-09-25T16:49:32,320   copying build/lib/janis_core/code/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/code
2023-09-25T16:49:32,322   copying build/lib/janis_core/code/pythontool.py -> build/bdist.linux-armv7l/wheel/janis_core/code
2023-09-25T16:49:32,324   copying build/lib/janis_core/code/codetool.py -> build/bdist.linux-armv7l/wheel/janis_core/code
2023-09-25T16:49:32,326   creating build/bdist.linux-armv7l/wheel/janis_core/hints
2023-09-25T16:49:32,327   copying build/lib/janis_core/hints/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/hints
2023-09-25T16:49:32,330   creating build/bdist.linux-armv7l/wheel/janis_core/transformation
2023-09-25T16:49:32,331   copying build/lib/janis_core/transformation/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/transformation
2023-09-25T16:49:32,333   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion
2023-09-25T16:49:32,335   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,336   copying build/lib/janis_core/ingestion/cwl/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,337   copying build/lib/janis_core/ingestion/cwl/graph.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,339   copying build/lib/janis_core/ingestion/cwl/identifiers.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,341   copying build/lib/janis_core/ingestion/cwl/expressions.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,343   copying build/lib/janis_core/ingestion/cwl/preprocessing.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,345   copying build/lib/janis_core/ingestion/cwl/loading.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,347   copying build/lib/janis_core/ingestion/cwl/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,349   copying build/lib/janis_core/ingestion/cwl/types.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl
2023-09-25T16:49:32,351   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:32,352   copying build/lib/janis_core/ingestion/cwl/parsing/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:32,354   copying build/lib/janis_core/ingestion/cwl/parsing/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:32,357   copying build/lib/janis_core/ingestion/cwl/parsing/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/cwl/parsing
2023-09-25T16:49:32,359   copying build/lib/janis_core/ingestion/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion
2023-09-25T16:49:32,361   copying build/lib/janis_core/ingestion/SupportedIngestion.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion
2023-09-25T16:49:32,363   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/data
2023-09-25T16:49:32,363   copying build/lib/janis_core/ingestion/data/janis_types.yaml -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/data
2023-09-25T16:49:32,368   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/data/galaxy
2023-09-25T16:49:32,369   copying build/lib/janis_core/ingestion/data/galaxy/galaxy_config.yaml -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/data/galaxy
2023-09-25T16:49:32,371   copying build/lib/janis_core/ingestion/data/galaxy/datatypes_conf.xml.sample -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/data/galaxy
2023-09-25T16:49:32,375   copying build/lib/janis_core/ingestion/data/logging_config.yaml -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/data
2023-09-25T16:49:32,377   copying build/lib/janis_core/ingestion/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion
2023-09-25T16:49:32,379   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/wdl
2023-09-25T16:49:32,379   copying build/lib/janis_core/ingestion/wdl/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/wdl
2023-09-25T16:49:32,382   copying build/lib/janis_core/ingestion/wdl/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/wdl
2023-09-25T16:49:32,385   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy
2023-09-25T16:49:32,386   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:32,387   copying build/lib/janis_core/ingestion/galaxy/tags/groups.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:32,390   copying build/lib/janis_core/ingestion/galaxy/tags/manager.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:32,392   copying build/lib/janis_core/ingestion/galaxy/tags/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:32,393   copying build/lib/janis_core/ingestion/galaxy/tags/rules.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:32,395   copying build/lib/janis_core/ingestion/galaxy/tags/strategies.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/tags
2023-09-25T16:49:32,397   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:32,398   copying build/lib/janis_core/ingestion/galaxy/fileio/initialisation.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:32,400   copying build/lib/janis_core/ingestion/galaxy/fileio/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:32,402   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:32,403   copying build/lib/janis_core/ingestion/galaxy/fileio/formats/Format.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:32,405   copying build/lib/janis_core/ingestion/galaxy/fileio/formats/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:32,406   copying build/lib/janis_core/ingestion/galaxy/fileio/formats/DefaultFormat.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:32,408   copying build/lib/janis_core/ingestion/galaxy/fileio/formats/SubworkflowFormat.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/formats
2023-09-25T16:49:32,409   copying build/lib/janis_core/ingestion/galaxy/fileio/write.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio
2023-09-25T16:49:32,412   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:32,413   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,414   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/InputsText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,416   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/StepText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,418   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,420   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/ConfigText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,421   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowInputText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,423   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowOutputText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,425   copying build/lib/janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/workflow
2023-09-25T16:49:32,427   copying build/lib/janis_core/ingestion/galaxy/fileio/text/ordering.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:32,429   copying build/lib/janis_core/ingestion/galaxy/fileio/text/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:32,431   copying build/lib/janis_core/ingestion/galaxy/fileio/text/formatting.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:32,433   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,434   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,436   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/ToolText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,438   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/ToolInputSectionText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,439   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/ConfigfileText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,441   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/ToolInputText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,443   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/ToolOutputText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,444   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/ToolOutputSectionText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,446   copying build/lib/janis_core/ingestion/galaxy/fileio/text/tool/UnstranslatedText.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text/tool
2023-09-25T16:49:32,448   copying build/lib/janis_core/ingestion/galaxy/fileio/text/TextRender.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/fileio/text
2023-09-25T16:49:32,449   copying build/lib/janis_core/ingestion/galaxy/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy
2023-09-25T16:49:32,451   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:32,452   copying build/lib/janis_core/ingestion/galaxy/gxtool/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:32,454   copying build/lib/janis_core/ingestion/galaxy/gxtool/TestRegister.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:32,456   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,457   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:32,458   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:32,460   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens/prioritisation.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:32,462   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens/factory.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:32,464   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:32,466   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/tokens/token.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/tokens
2023-09-25T16:49:32,468   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,470   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,471   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epath/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,472   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epath/analysis.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,475   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epath/Annotator.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,477   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epath/ExecutionPath.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,479   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epath/ComponentOrderingStrategy.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,480   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epath/ExecutionPathAnnotator.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/epath
2023-09-25T16:49:32,482   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/update.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,484   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/epaths.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,488   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/Command.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,491   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,491   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,493   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/MainStatementInferrer.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,495   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/analysis.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,497   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/constructs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,499   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/generate.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,501   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/DynamicCommandStatement.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,503   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/RealisedTokenValues.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,504   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,506   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/cmdstr/CommandString.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/cmdstr
2023-09-25T16:49:32,508   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/loading.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,509   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,512   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:32,513   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/ValueRecord.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:32,515   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:32,517   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/CommandComponent.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:32,519   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,519   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs/Flag.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,521   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,523   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs/InputComponent.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,524   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs/Positional.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,526   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,528   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/inputs/Option.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/inputs
2023-09-25T16:49:32,529   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/factory.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components
2023-09-25T16:49:32,532   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:32,533   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:32,534   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs/InputOutput.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:32,536   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs/OutputComponent.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:32,538   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs/RedirectOutput.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:32,539   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/outputs/WildcardOutput.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/outputs
2023-09-25T16:49:32,541   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:32,542   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:32,544   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux/Tee.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:32,546   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/components/linux/streams.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command/components/linux
2023-09-25T16:49:32,548   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/tokenise.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,550   copying build/lib/janis_core/ingestion/galaxy/gxtool/command/annotation.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/command
2023-09-25T16:49:32,552   copying build/lib/janis_core/ingestion/galaxy/gxtool/mock.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool
2023-09-25T16:49:32,555   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,556   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:32,557   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/params/param.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:32,559   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/params/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:32,560   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/params/input_param.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:32,562   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/params/param_register.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:32,564   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/params/output_param.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model/params
2023-09-25T16:49:32,565   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,567   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,569   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,570   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/requirement.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,572   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/script.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,573   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/tests.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,575   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/citations.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,576   copying build/lib/janis_core/ingestion/galaxy/gxtool/model/configfile.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/model
2023-09-25T16:49:32,578   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text
2023-09-25T16:49:32,579   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text
2023-09-25T16:49:32,581   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:32,582   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah/evaluation.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:32,584   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:32,586   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/cheetah/blocks.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/cheetah
2023-09-25T16:49:32,588   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:32,589   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:32,591   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification/simplify.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:32,593   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification/aliases.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:32,595   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/simplification/filters.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text/simplification
2023-09-25T16:49:32,597   copying build/lib/janis_core/ingestion/galaxy/gxtool/text/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/text
2023-09-25T16:49:32,599   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:32,599   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:32,601   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/param_flattener.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:32,604   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,605   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,606   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests/custom_preprocessors.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,608   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests/checks.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,609   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests/TestFactoryOld.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,611   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests/mapper.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,613   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/tests/custom_ops.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing/tests
2023-09-25T16:49:32,615   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:32,616   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/outputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:32,618   copying build/lib/janis_core/ingestion/galaxy/gxtool/parsing/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxtool/parsing
2023-09-25T16:49:32,621   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers
2023-09-25T16:49:32,622   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers
2023-09-25T16:49:32,625   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:32,626   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:32,627   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers/WrapperCache.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:32,629   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/wrappers/Wrapper.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/wrappers
2023-09-25T16:49:32,631   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,633   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,634   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/scraping.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,636   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/repositories.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,637   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/revisions.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,639   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/single.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,641   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/wrappers.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,643   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/scraping/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/scraping
2023-09-25T16:49:32,645   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/requests
2023-09-25T16:49:32,645   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/requests/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/requests
2023-09-25T16:49:32,647   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/requests/versions.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/requests
2023-09-25T16:49:32,649   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:32,650   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:32,652   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads/wrappers.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:32,653   copying build/lib/janis_core/ingestion/galaxy/gxwrappers/downloads/cache.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxwrappers/downloads
2023-09-25T16:49:32,655   copying build/lib/janis_core/ingestion/galaxy/ingest.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy
2023-09-25T16:49:32,657   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:32,658   copying build/lib/janis_core/ingestion/galaxy/regex_to_glob/convert.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:32,660   copying build/lib/janis_core/ingestion/galaxy/regex_to_glob/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:32,662   copying build/lib/janis_core/ingestion/galaxy/regex_to_glob/patterns.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:32,664   copying build/lib/janis_core/ingestion/galaxy/regex_to_glob/common.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/regex_to_glob
2023-09-25T16:49:32,666   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,667   copying build/lib/janis_core/ingestion/galaxy/containers/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,669   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:32,670   copying build/lib/janis_core/ingestion/galaxy/containers/selection/selection.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:32,672   copying build/lib/janis_core/ingestion/galaxy/containers/selection/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:32,674   copying build/lib/janis_core/ingestion/galaxy/containers/selection/VersionMatcher.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/selection
2023-09-25T16:49:32,676   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,677   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,679   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/ContainerReqFetcher.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,680   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/GA4GHFetcher.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,682   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/Fetcher.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,683   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/QuayIOFetcher.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,685   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,686   copying build/lib/janis_core/ingestion/galaxy/containers/fetching/presets.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers/fetching
2023-09-25T16:49:32,688   copying build/lib/janis_core/ingestion/galaxy/containers/mulled.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,690   copying build/lib/janis_core/ingestion/galaxy/containers/Container.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,692   copying build/lib/janis_core/ingestion/galaxy/containers/cache.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,693   copying build/lib/janis_core/ingestion/galaxy/containers/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,695   copying build/lib/janis_core/ingestion/galaxy/containers/fetch.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/containers
2023-09-25T16:49:32,697   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,698   copying build/lib/janis_core/ingestion/galaxy/datatypes/galaxy.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,703   copying build/lib/janis_core/ingestion/galaxy/datatypes/core.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,704   copying build/lib/janis_core/ingestion/galaxy/datatypes/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,706   copying build/lib/janis_core/ingestion/galaxy/datatypes/register.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,708   copying build/lib/janis_core/ingestion/galaxy/datatypes/JanisDatatype.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,710   copying build/lib/janis_core/ingestion/galaxy/datatypes/strategies.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,712   copying build/lib/janis_core/ingestion/galaxy/datatypes/conversion.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,714   copying build/lib/janis_core/ingestion/galaxy/datatypes/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/datatypes
2023-09-25T16:49:32,716   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:32,717   copying build/lib/janis_core/ingestion/galaxy/janis_mapping/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:32,719   copying build/lib/janis_core/ingestion/galaxy/janis_mapping/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:32,722   copying build/lib/janis_core/ingestion/galaxy/janis_mapping/general.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:32,724   copying build/lib/janis_core/ingestion/galaxy/janis_mapping/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/janis_mapping
2023-09-25T16:49:32,726   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow
2023-09-25T16:49:32,727   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow
2023-09-25T16:49:32,729   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:32,730   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:32,732   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state/load.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:32,734   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/tool_state/filters.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/tool_state
2023-09-25T16:49:32,736   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/connections
2023-09-25T16:49:32,737   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/connections/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/connections
2023-09-25T16:49:32,739   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/connections/scatter.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/connections
2023-09-25T16:49:32,741   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,742   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/scripts.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,744   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,746   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/runtime.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,748   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/default.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,749   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/factory.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,751   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/connection.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,753   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/values/static.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/values
2023-09-25T16:49:32,756   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:32,757   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/updates/optionality.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:32,759   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/updates/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:32,761   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/updates/arrays.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:32,763   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/updates/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:32,765   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/updates/datatypes.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/updates
2023-09-25T16:49:32,767   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:32,768   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:32,769   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:32,771   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:32,772   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:32,774   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:32,776   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:32,778   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/outputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:32,779   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/prepost.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step
2023-09-25T16:49:32,781   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:32,783   copying build/lib/janis_core/ingestion/galaxy/gxworkflow/parsing/step.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/gxworkflow/parsing
2023-09-25T16:49:32,785   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:32,786   copying build/lib/janis_core/ingestion/galaxy/runtime/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:32,788   copying build/lib/janis_core/ingestion/galaxy/runtime/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:32,790   copying build/lib/janis_core/ingestion/galaxy/runtime/dates.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:32,792   copying build/lib/janis_core/ingestion/galaxy/runtime/general.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:32,793   copying build/lib/janis_core/ingestion/galaxy/runtime/exceptions.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime
2023-09-25T16:49:32,796   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:32,797   copying build/lib/janis_core/ingestion/galaxy/runtime/startup/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:32,799   copying build/lib/janis_core/ingestion/galaxy/runtime/startup/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:32,801   copying build/lib/janis_core/ingestion/galaxy/runtime/startup/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/runtime/startup
2023-09-25T16:49:32,803   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model
2023-09-25T16:49:32,805   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:32,806   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:32,808   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:32,810   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:32,811   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers/StepOutputRegister.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:32,813   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:32,814   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/registers/StepInputRegister.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/registers
2023-09-25T16:49:32,817   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,818   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,819   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step/metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,821   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step/inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,824   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step/outputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,826   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step/step.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,827   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/step/post_step.txt -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow/step
2023-09-25T16:49:32,829   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:32,831   copying build/lib/janis_core/ingestion/galaxy/internal_model/workflow/input.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/workflow
2023-09-25T16:49:32,833   copying build/lib/janis_core/ingestion/galaxy/internal_model/protocols.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model
2023-09-25T16:49:32,835   copying build/lib/janis_core/ingestion/galaxy/internal_model/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model
2023-09-25T16:49:32,837   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:32,838   copying build/lib/janis_core/ingestion/galaxy/internal_model/tool/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:32,840   copying build/lib/janis_core/ingestion/galaxy/internal_model/tool/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:32,842   copying build/lib/janis_core/ingestion/galaxy/internal_model/tool/generate.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:32,845   copying build/lib/janis_core/ingestion/galaxy/internal_model/tool/outputs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_model/tool
2023-09-25T16:49:32,848   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:32,849   copying build/lib/janis_core/ingestion/galaxy/expressions/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:32,851   copying build/lib/janis_core/ingestion/galaxy/expressions/matches.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:32,853   copying build/lib/janis_core/ingestion/galaxy/expressions/patterns.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:32,854   copying build/lib/janis_core/ingestion/galaxy/expressions/checks.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/expressions
2023-09-25T16:49:32,856   copying build/lib/janis_core/ingestion/galaxy/logging.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy
2023-09-25T16:49:32,858   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:32,859   copying build/lib/janis_core/ingestion/galaxy/utils/galaxy.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:32,861   copying build/lib/janis_core/ingestion/galaxy/utils/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:32,863   copying build/lib/janis_core/ingestion/galaxy/utils/general.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/utils
2023-09-25T16:49:32,864   copying build/lib/janis_core/ingestion/galaxy/aliases.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy
2023-09-25T16:49:32,867   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_mapping
2023-09-25T16:49:32,868   copying build/lib/janis_core/ingestion/galaxy/internal_mapping/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_mapping
2023-09-25T16:49:32,870   copying build/lib/janis_core/ingestion/galaxy/internal_mapping/main.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/internal_mapping
2023-09-25T16:49:32,872   creating build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:32,873   copying build/lib/janis_core/ingestion/galaxy/messages/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:32,875   copying build/lib/janis_core/ingestion/galaxy/messages/logs.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:32,877   copying build/lib/janis_core/ingestion/galaxy/messages/messages.py -> build/bdist.linux-armv7l/wheel/janis_core/ingestion/galaxy/messages
2023-09-25T16:49:32,879   creating build/bdist.linux-armv7l/wheel/janis_core/graph
2023-09-25T16:49:32,880   copying build/lib/janis_core/graph/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/graph
2023-09-25T16:49:32,882   copying build/lib/janis_core/graph/steptaginput.py -> build/bdist.linux-armv7l/wheel/janis_core/graph
2023-09-25T16:49:32,884   copying build/lib/janis_core/graph/node.py -> build/bdist.linux-armv7l/wheel/janis_core/graph
2023-09-25T16:49:32,887   creating build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,888   copying build/lib/janis_core/tests/test_test_runner.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,891   copying build/lib/janis_core/tests/test_validators.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,893   copying build/lib/janis_core/tests/test_translation_modules.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,895   copying build/lib/janis_core/tests/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,897   copying build/lib/janis_core/tests/test_secondary.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,899   copying build/lib/janis_core/tests/test_receivefrom.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,901   copying build/lib/janis_core/tests/test_tools.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,903   copying build/lib/janis_core/tests/test_types.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,905   copying build/lib/janis_core/tests/test_translation_nextflow.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,910   copying build/lib/janis_core/tests/test_python_tool.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,913   copying build/lib/janis_core/tests/tests_util.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,914   copying build/lib/janis_core/tests/test_operators.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,916   copying build/lib/janis_core/tests/test_commandtool.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,918   copying build/lib/janis_core/tests/test_ingestion_galaxy.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,921   copying build/lib/janis_core/tests/test_running.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,923   creating build/bdist.linux-armv7l/wheel/janis_core/tests/integration
2023-09-25T16:49:32,924   copying build/lib/janis_core/tests/integration/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/integration
2023-09-25T16:49:32,926   copying build/lib/janis_core/tests/integration/README.md -> build/bdist.linux-armv7l/wheel/janis_core/tests/integration
2023-09-25T16:49:32,928   copying build/lib/janis_core/tests/integration/test_directorygenerator.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/integration
2023-09-25T16:49:32,930   copying build/lib/janis_core/tests/test_step.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,932   creating build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,933   copying build/lib/janis_core/tests/testtools/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,935   copying build/lib/janis_core/tests/testtools/components.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,937   copying build/lib/janis_core/tests/testtools/arrays.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,939   copying build/lib/janis_core/tests/testtools/gridss.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,942   copying build/lib/janis_core/tests/testtools/misc_commandtools.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,944   copying build/lib/janis_core/tests/testtools/basics.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,946   copying build/lib/janis_core/tests/testtools/unicycler.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,949   copying build/lib/janis_core/tests/testtools/misc_codetools.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,951   copying build/lib/janis_core/tests/testtools/fastqc.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,953   copying build/lib/janis_core/tests/testtools/bwamem.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,955   copying build/lib/janis_core/tests/testtools/types.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testtools
2023-09-25T16:49:32,958   creating build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,959   creating build/bdist.linux-armv7l/wheel/janis_core/tests/mock/cwl
2023-09-25T16:49:32,960   copying build/lib/janis_core/tests/mock/cwl/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock/cwl
2023-09-25T16:49:32,962   copying build/lib/janis_core/tests/mock/cwl/tools.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock/cwl
2023-09-25T16:49:32,964   copying build/lib/janis_core/tests/mock/cwl/workflows.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock/cwl
2023-09-25T16:49:32,965   copying build/lib/janis_core/tests/mock/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,967   copying build/lib/janis_core/tests/mock/mock_components.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,969   copying build/lib/janis_core/tests/mock/mock_entities.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,971   copying build/lib/janis_core/tests/mock/mock_xmltool.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,973   copying build/lib/janis_core/tests/mock/mock_params.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,975   copying build/lib/janis_core/tests/mock/mock_workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,976   copying build/lib/janis_core/tests/mock/mock_metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,978   copying build/lib/janis_core/tests/mock/mock_tool.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/mock
2023-09-25T16:49:32,980   copying build/lib/janis_core/tests/test_ingestion_wdl.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,981   copying build/lib/janis_core/tests/test_stringbuilder.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,984   copying build/lib/janis_core/tests/test_logger.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,986   copying build/lib/janis_core/tests/test_translation_wdl.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,989   copying build/lib/janis_core/tests/test_janis_translate.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,992   copying build/lib/janis_core/tests/test_conditionals.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,994   copying build/lib/janis_core/tests/test_generics_util.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:32,996   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:33,000   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl
2023-09-25T16:49:33,002   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,003   copying build/lib/janis_core/tests/data/cwl/tools/BasicTestTool.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,005   copying build/lib/janis_core/tests/data/cwl/tools/gatk_haplotype_caller.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,007   copying build/lib/janis_core/tests/data/cwl/tools/bwamem.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,010   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,011   copying build/lib/janis_core/tests/data/cwl/tools/requirements/control-freec-11-6-sbg.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,014   copying build/lib/janis_core/tests/data/cwl/tools/requirements/amplicon_architect.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,017   copying build/lib/janis_core/tests/data/cwl/tools/requirements/check_threshold.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,019   copying build/lib/janis_core/tests/data/cwl/tools/requirements/bundle_secondaryfiles.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,021   copying build/lib/janis_core/tests/data/cwl/tools/requirements/return_directory.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,023   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements/Python
2023-09-25T16:49:33,024   copying build/lib/janis_core/tests/data/cwl/tools/requirements/Python/add_crossmapped2resmapped.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements/Python
2023-09-25T16:49:33,026   copying build/lib/janis_core/tests/data/cwl/tools/requirements/Python/check_threshold.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements/Python
2023-09-25T16:49:33,029   copying build/lib/janis_core/tests/data/cwl/tools/requirements/add_crossmapped2resmapped.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,030   copying build/lib/janis_core/tests/data/cwl/tools/requirements/antismash_v4.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,032   copying build/lib/janis_core/tests/data/cwl/tools/requirements/prepare_fasta_db.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/requirements
2023-09-25T16:49:33,034   copying build/lib/janis_core/tests/data/cwl/tools/fastqc2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,037   copying build/lib/janis_core/tests/data/cwl/tools/rose.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,039   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:33,040   copying build/lib/janis_core/tests/data/cwl/tools/datatypes/secondary_types.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:33,042   copying build/lib/janis_core/tests/data/cwl/tools/datatypes/basic_types.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:33,044   copying build/lib/janis_core/tests/data/cwl/tools/datatypes/array_types.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/datatypes
2023-09-25T16:49:33,045   copying build/lib/janis_core/tests/data/cwl/tools/echo.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,047   copying build/lib/janis_core/tests/data/cwl/tools/fastqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,049   copying build/lib/janis_core/tests/data/cwl/tools/samtools_flagstat.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,050   copying build/lib/janis_core/tests/data/cwl/tools/rename_png.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,053   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:33,054   copying build/lib/janis_core/tests/data/cwl/tools/expressions/outputs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:33,056   copying build/lib/janis_core/tests/data/cwl/tools/expressions/resources.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:33,058   copying build/lib/janis_core/tests/data/cwl/tools/expressions/requirements.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:33,059   copying build/lib/janis_core/tests/data/cwl/tools/expressions/inputs_arguments.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:33,061   copying build/lib/janis_core/tests/data/cwl/tools/expressions/streams.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressions
2023-09-25T16:49:33,063   copying build/lib/janis_core/tests/data/cwl/tools/gatk_haplotype_caller_long.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools
2023-09-25T16:49:33,067   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressiontools
2023-09-25T16:49:33,068   copying build/lib/janis_core/tests/data/cwl/tools/expressiontools/check_value.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/tools/expressiontools
2023-09-25T16:49:33,071   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows
2023-09-25T16:49:33,072   copying build/lib/janis_core/tests/data/cwl/workflows/super_enhancer_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows
2023-09-25T16:49:33,076   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock
2023-09-25T16:49:33,077   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/aragorn
2023-09-25T16:49:33,078   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/aragorn/aragorn.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/aragorn
2023-09-25T16:49:33,080   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ena
2023-09-25T16:49:33,081   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ena/ena_wget.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ena
2023-09-25T16:49:33,083   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/eukrep
2023-09-25T16:49:33,084   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/eukrep/eukrep.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/eukrep
2023-09-25T16:49:33,087   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:33,087   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbmap.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:33,090   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbduk_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:33,091   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbduk_rrna-filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:33,093   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbmap_filter-reads.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:33,095   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bbmap/prepare_fasta_db.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bbmap
2023-09-25T16:49:33,098   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/diamond
2023-09-25T16:49:33,099   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/diamond/view.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/diamond
2023-09-25T16:49:33,101   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/diamond/diamond.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/diamond
2023-09-25T16:49:33,103   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/das_tool
2023-09-25T16:49:33,104   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/das_tool/fasta_to_contig2bin.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/das_tool
2023-09-25T16:49:33,106   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/das_tool/das_tool.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/das_tool
2023-09-25T16:49:33,108   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/quast
2023-09-25T16:49:33,109   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/quast/metaquast.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/quast
2023-09-25T16:49:33,112   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/quast/quast.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/quast
2023-09-25T16:49:33,114   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/smetana
2023-09-25T16:49:33,115   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/smetana/smetana.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/smetana
2023-09-25T16:49:33,118   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/spades
2023-09-25T16:49:33,119   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/spades/spades.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/spades
2023-09-25T16:49:33,121   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/irods
2023-09-25T16:49:33,122   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/irods/irods_manager.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/irods
2023-09-25T16:49:33,124   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/irods/irods_hdt.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/irods
2023-09-25T16:49:33,126   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/humann
2023-09-25T16:49:33,127   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/humann/humann.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/humann
2023-09-25T16:49:33,129   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/picrust2
2023-09-25T16:49:33,130   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/picrust2/picrust2_pipeline.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/picrust2
2023-09-25T16:49:33,132   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/picrust2/picrust_to_biom.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/picrust2
2023-09-25T16:49:33,134   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/clustalo
2023-09-25T16:49:33,135   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/clustalo/clustalo.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/clustalo
2023-09-25T16:49:33,138   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/resfinder
2023-09-25T16:49:33,139   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/resfinder/resfinder.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/resfinder
2023-09-25T16:49:33,141   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/pycoqc
2023-09-25T16:49:33,142   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/pycoqc/pycoqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/pycoqc
2023-09-25T16:49:33,145   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/memote
2023-09-25T16:49:33,145   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/memote/memote.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/memote
2023-09-25T16:49:33,148   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/carveme
2023-09-25T16:49:33,149   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/carveme/carveme.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/carveme
2023-09-25T16:49:33,151   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/carveme/GEMstats.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/carveme
2023-09-25T16:49:33,153   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:33,154   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_align.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:33,157   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:33,159   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_align_simple.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bowtie2
2023-09-25T16:49:33,161   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/kraken2
2023-09-25T16:49:33,162   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/kraken2/kraken2-build.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/kraken2
2023-09-25T16:49:33,164   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/kraken2/kraken2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/kraken2
2023-09-25T16:49:33,166   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:33,167   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/bins_summary.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:33,169   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/get_unbinned_contigs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:33,170   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/assembly_bins_readstats.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metagenomics
2023-09-25T16:49:33,173   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk
2023-09-25T16:49:33,173   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk/gtdbtk_classify_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk
2023-09-25T16:49:33,176   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/minionqc
2023-09-25T16:49:33,177   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minionqc/minionqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/minionqc
2023-09-25T16:49:33,179   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/guppy
2023-09-25T16:49:33,180   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/guppy/guppy.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/guppy
2023-09-25T16:49:33,183   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/maxbin2
2023-09-25T16:49:33,183   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/maxbin2/maxbin2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/maxbin2
2023-09-25T16:49:33,186   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/gunc
2023-09-25T16:49:33,187   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/gunc/gunc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/gunc
2023-09-25T16:49:33,189   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samsa2
2023-09-25T16:49:33,190   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samsa2/convert.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samsa2
2023-09-25T16:49:33,192   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/stats
2023-09-25T16:49:33,193   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/stats/raw_n50.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/stats
2023-09-25T16:49:33,195   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/stats/seqinfo.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/stats
2023-09-25T16:49:33,197   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/busco
2023-09-25T16:49:33,198   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/busco/busco.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/busco
2023-09-25T16:49:33,201   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,202   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_sorted-bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,204   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_unmapped_fastq_SE.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,206   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,207   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_fastq_SE.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,209   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/merge-sorted-bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,211   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_flagstat.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,213   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_idxstats.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,215   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_fastq_PE.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,217   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/samtools/expression_bam_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/samtools
2023-09-25T16:49:33,219   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/medaka
2023-09-25T16:49:33,220   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/medaka/medaka_py.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/medaka
2023-09-25T16:49:33,222   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/medaka/medaka.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/medaka
2023-09-25T16:49:33,224   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/flye
2023-09-25T16:49:33,225   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/flye/flye.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/flye
2023-09-25T16:49:33,228   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:33,229   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_to_tsv-fasta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:33,231   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_demultiplexing.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:33,233   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_to_biom.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:33,235   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/ngtax
2023-09-25T16:49:33,237   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/checkm
2023-09-25T16:49:33,238   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/checkm/checkm_lineagewf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/checkm
2023-09-25T16:49:33,241   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,241   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions/merge_dir_arrays.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,244   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions/folder_file_regex.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,245   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions/merge_file_arrays.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,247   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions/folder_to_files.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,249   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions/files_to_folder.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,251   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/expressions/array_to_file.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/expressions
2023-09-25T16:49:33,253   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/semibin
2023-09-25T16:49:33,254   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/semibin/semibin_rename_bins.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/semibin
2023-09-25T16:49:33,256   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/semibin/semibin_single_easy_bin.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/semibin
2023-09-25T16:49:33,259   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,260   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_demultiplexing_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,263   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ena_annotation_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,264   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_sapp_microbes_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,267   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_toHDT_compression_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,269   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_illumina_quality_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,274   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_indexbuilder_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,277   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ngtax_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,279   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_prepare_fasta_db_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,282   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,284   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ngtax_picrust2_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,288   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_pilon_mapping_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,291   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_sapp_others_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,294   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_Spliced_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,299   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_nanopore_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,301   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_mock_ngtax_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,303   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_genomesync_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,306   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_microbial_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,309   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_kallisto_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,313   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_binning_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,318   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_longread_quality_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,323   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_assembly_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,336   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_illumina_assembly_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,342   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_read_annotation_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,348   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_samsa2_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,351   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_NonSpliced_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,356   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_GEM_packed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/packed
2023-09-25T16:49:33,360   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/krona
2023-09-25T16:49:33,362   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/krona/krona.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/krona
2023-09-25T16:49:33,365   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/filtlong
2023-09-25T16:49:33,366   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/filtlong/filtlong.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/filtlong
2023-09-25T16:49:33,369   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq
2023-09-25T16:49:33,370   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto
2023-09-25T16:49:33,371   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto/kallisto_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto
2023-09-25T16:49:33,373   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto/kallisto_quant.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto
2023-09-25T16:49:33,375   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/.gitkeep -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq
2023-09-25T16:49:33,377   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star
2023-09-25T16:49:33,378   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star/star_align.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star
2023-09-25T16:49:33,380   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star/star_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star
2023-09-25T16:49:33,382   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/featurecounts.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/RNAseq
2023-09-25T16:49:33,385   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/fastp
2023-09-25T16:49:33,385   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastp/fastp.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/fastp
2023-09-25T16:49:33,388   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:33,389   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2/metabat2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:33,391   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2/metabatContigDepths.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:33,393   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/metabat2/aggregateBinDepths.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/metabat2
2023-09-25T16:49:33,395   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/fastqc
2023-09-25T16:49:33,396   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastqc/fastqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/fastqc
2023-09-25T16:49:33,399   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:33,400   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2_to_sorted-bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:33,402   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2_to_fastq.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:33,404   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/minimap2
2023-09-25T16:49:33,406   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,407   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/pigz.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,409   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/compress_directory.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,411   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/concatenate.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,413   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/compress.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,415   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/grep_count.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,417   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/rename.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,419   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/bash/decompress.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/bash
2023-09-25T16:49:33,421   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,422   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/prodigal.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,424   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/infernal.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,426   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/interproscan.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,428   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion_rdf2gtf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,430   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/toHDT.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,432   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,434   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/crt.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,436   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/kofamscan.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,438   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion_rdf2fasta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/sapp
2023-09-25T16:49:33,440   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/longqc
2023-09-25T16:49:33,441   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/longqc/longqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/longqc
2023-09-25T16:49:33,444   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/prodigal
2023-09-25T16:49:33,445   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/prodigal/prodigal.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/prodigal
2023-09-25T16:49:33,448   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/merge
2023-09-25T16:49:33,449   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/merge/merge.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/merge
2023-09-25T16:49:33,451   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/pilon
2023-09-25T16:49:33,452   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/pilon/pilon.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/pilon
2023-09-25T16:49:33,455   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/fastq
2023-09-25T16:49:33,456   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/fastq/fastq_to_fasta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/fastq
2023-09-25T16:49:33,459   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,460   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/demultiplexing.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,462   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/pilon_mapping.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,464   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/sapp_microbes.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,466   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/toHDT_compression.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,468   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/ngtax.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,470   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/mock_ngtax.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,472   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/ngtax_picrust2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,474   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/workflows/metagenomics_GEM.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/workflows
2023-09-25T16:49:33,477   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/multiqc
2023-09-25T16:49:33,478   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/multiqc/multiqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/multiqc
2023-09-25T16:49:33,481   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/nanoqc
2023-09-25T16:49:33,482   copying build/lib/janis_core/tests/data/cwl/workflows/m-unlock/nanoqc/nanoqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/m-unlock/nanoqc
2023-09-25T16:49:33,485   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:33,486   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/workflow.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:33,488   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/workflow.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:33,491   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,492   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/codex.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,494   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,496   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gridss_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,498   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_view_sam2bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,500   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/manta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,501   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bgzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,503   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gridss.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,505   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/picard_markduplicates.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,507   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/manta_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,508   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/batch_parser.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,510   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bundle_secondaryfiles.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,512   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/fastp.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,514   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_merge.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,515   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,517   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_mem_paired.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,519   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/structural_variants.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,521   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,522   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_manta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,524   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/samtools_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,526   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/samtools_view_sam2bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,528   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bam_filtering.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,530   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/picard_markduplicates.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,532   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/indexing_bed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,534   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bwa_mem.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,535   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_codex.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,537   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_gridss.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,539   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/trimmed_fastq.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,541   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_exome_depth.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,543   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bwa_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,545   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/final_filtering.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows
2023-09-25T16:49:33,547   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/exome_depth.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,549   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/collapse.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,550   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/fastqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,552   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/merge_all.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,554   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/tabix.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,556   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gunzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,558   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/svtools.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,560   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,561   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/exome_depth_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,564   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bedops_union.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,565   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/codex_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,567   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_mem_unpaired.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,569   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_faidx.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,571   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_view.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations
2023-09-25T16:49:33,573   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,574   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_manta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,576   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/samtools_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,578   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/samtools_view_sam2bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,580   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bam_filtering.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,582   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/picard_markduplicates.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,583   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/indexing_bed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,585   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bwa_mem.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,587   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_codex.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,589   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_gridss.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,591   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/trimmed_fastq.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,593   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_exome_depth.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,594   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/indexing_bed.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,596   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bwa_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,598   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/final_filtering.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows
2023-09-25T16:49:33,601   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,601   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/unicycler.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,604   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/codex.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,606   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,608   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/gridss_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,610   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_view_sam2bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,612   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/manta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,614   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bgzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,616   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/gridss.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,618   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/picard_markduplicates.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,620   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/manta_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,622   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/batch_parser.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,624   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_index_grace.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,625   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bundle_secondaryfiles.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,627   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/fastp.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,629   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_merge.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,631   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,633   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_paired.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,635   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/structural_variants.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,637   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/tools_list.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,639   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_unpaired_grace.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,640   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/exome_depth.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,643   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/collapse.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,644   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/fastqc.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,646   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/merge_all.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,648   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_paired_grace.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,650   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/tabix.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,651   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/gunzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,653   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/svtools.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,655   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,657   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/exome_depth_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,659   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bedops_union.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,661   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/codex_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,663   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_unpaired.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,665   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_faidx.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,666   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_view.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/tools
2023-09-25T16:49:33,668   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/workflow_idxs.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants
2023-09-25T16:49:33,671   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow
2023-09-25T16:49:33,671   copying build/lib/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow/abstract_workflow.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow
2023-09-25T16:49:33,675   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:33,676   copying build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test/subworkflow.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:33,678   copying build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test/optional_input_types.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:33,679   copying build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test/main.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:33,681   copying build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test/basic.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:33,683   copying build/lib/janis_core/tests/data/cwl/workflows/subworkflow_test/mandatory_input_types.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/subworkflow_test
2023-09-25T16:49:33,685   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,687   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:33,688   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml/CroMaSt_input.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:33,690   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml/download_data.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:33,692   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/yml/environment.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/yml
2023-09-25T16:49:33,694   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/ro-crate-preview.html -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,697   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/CroMaSt.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,701   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,702   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/map_unique_struct_pfam2cath.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,704   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/other_avg_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,706   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/check_threshold.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,708   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/get_family_ids.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,710   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/unmapped_unp_avg_align.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,712   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/merge_df2json.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,714   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/separate_cath.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,716   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/chop_struct2domains.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,717   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/core_avg_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,719   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/pairwise_aligner.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,721   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/create_param.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,723   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/separate_pfam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,725   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_pfam_instances_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,727   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,728   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/pairwise_aligner.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,730   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/map_unique_struct_pfam2cath.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,732   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/add_crossmapped2resmapped.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,734   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/chop_struct2domains.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,737   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/check_threshold.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,739   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/compare_cath_pfam.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,741   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/resmapping_pfam2pdb.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,743   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/get_family_ids.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,745   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/merge_df2json.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,747   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/crossmapped_per_unp_dom.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,749   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/add_domain_num.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,750   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/resmapping_cath2up.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,752   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/map_unique_struct_cath2pfam.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,754   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/filter_align_scores.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,756   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/separate_cath.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,758   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/residue_mapping.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,760   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/separate_pfam.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,762   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/create_param.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,764   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/align_compute_avg.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python
2023-09-25T16:49:33,766   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/add_crossmapped2resmapped.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,768   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_pfam2pdb.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,770   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/download_data.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,772   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/list_true_domains.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,774   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_cath2up.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,776   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/crossmapped_per_unp_dom.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,777   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/move_files.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,779   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/filter_align_scores.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,781   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_cath_instances_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,784   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/add_domain_num.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,786   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/gather_lost_resmap.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,788   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/map_unique_struct_cath2pfam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,790   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/compare_cath_pfam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,792   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/Tools/align_compute_avg.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/Tools
2023-09-25T16:49:33,794   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/CONTRIBUTING.md -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,796   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/ro-crate-metadata.json -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,800   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/README.md -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,802   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/workflow-390-9f3832867eab6c7a6363f8ca594a4bcf2ff7e96f-diagram.svg -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,808   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/translated
2023-09-25T16:49:33,809   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/translated/main.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt/translated
2023-09-25T16:49:33,812   copying build/lib/janis_core/tests/data/cwl/workflows/CroMaSt/LICENSE -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/CroMaSt
2023-09-25T16:49:33,814   copying build/lib/janis_core/tests/data/cwl/workflows/expressions.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows
2023-09-25T16:49:33,817   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow
2023-09-25T16:49:33,818   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,820   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_controlfreec_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,822   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_theta2_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,825   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_consensus_calling.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,828   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_mutect2_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,830   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_cnvkit_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,833   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_gatk_create_cnv_pon_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,836   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_manta_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,838   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/sb_multicnv_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,841   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_lancet_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,844   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_vardict_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,847   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_annot_vcf_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:33,850   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated
2023-09-25T16:49:33,851   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/config -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated
2023-09-25T16:49:33,855   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,856   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/write_summaries.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,858   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/no_antismash_subwf.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,860   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/classify_SSUs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,863   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cath_domain_instances.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,865   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_from_list.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,868   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chunking.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,870   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/trimming.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,872   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/antismash.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,875   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_itsonedb.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,877   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_core.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,879   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/post_processing_uniref90.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,881   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/motus_taxonomy.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,883   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/functional_annotation_and_post_processing.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,886   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/resmapping_cath_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,888   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/find_ribosomal_ncRNAs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,890   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_antismash.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,892   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/resmapping_pfam_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,895   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/ITS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,897   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_hmmer.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,899   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cmsearch_assembly.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,901   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_IPS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,904   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/diamond.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,906   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_unite.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,908   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/pathways.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,910   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cgc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,912   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/unmapped_from_pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,914   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/classify_LSUs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,917   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/overlap_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,919   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/change_formats_and_names.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,921   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_Pfam2CATH.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,923   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/after_qc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,926   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/functional_annotation.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,928   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/folder_functional_annotation.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,930   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_CATH2Pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,932   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/unmapped_from_cath.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,934   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/combined_gene_caller.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,937   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/pfam_domain_instances.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,939   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cmsearch_raw_data.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,942   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/filtering.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,944   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/rna_prediction.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,946   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/other_ncrnas.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,948   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/eggnog.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,950   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/before_qc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,953   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chunking_final.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,955   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/avg_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows
2023-09-25T16:49:33,957   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/main.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated
2023-09-25T16:49:33,964   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,965   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_averaged_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,967   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/write_summaries.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,970   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cat_models.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,972   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/crossmapping_CATH2Pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,974   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/functional_stats.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,976   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chop_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,979   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/make_tab_sep.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,981   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_functional_annotation_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,983   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_pfam_structures.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,985   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_alignment_scores.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,987   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzipped_gbk.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,989   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/classifications_to_otu_counts.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,991   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum_paired.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,993   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/vcf_compress.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,996   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/carveme_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:33,998   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_concatenate_matches.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,000   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_masked_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,002   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_embl.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,004   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,006   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine_trimmed.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,008   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/FGS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,010   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cat.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,011   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,013   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_files.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,015   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compare_instances_CATH_Pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,017   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gather_failed_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,018   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/picrust2.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,020   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_lsu_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,022   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_SC_fasta_nucleotide.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,024   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/genome_properties.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,026   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/interproscan.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,027   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/per_dom_instance.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,029   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_output_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,031   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,033   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_carveme.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,034   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/reads_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,036   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_prodigal.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,038   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_chopped_structs_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,039   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_headers.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,041   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/QC_FLAG.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,043   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/carveme.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,044   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cmsearch.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,047   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_no_cds_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,048   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/counts_to_json.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,050   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/convert_trimmed_reads_to_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,051   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_SSU.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,053   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/crossmapping_Pfam2CATH.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,055   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/smetana.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,056   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine_ips.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,058   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chunking_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,060   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/readmapping_pilon.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,061   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/collect_lost_instances.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,063   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_submitted_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,065   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/format_core_list.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,067   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,068   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/split_seqs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,070   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/sorting.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,072   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gff.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,073   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/add_domain_positions.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,075   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_tax_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,077   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fix_geneclusters_txt.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,078   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/prodigal_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,080   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,082   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/no_tax_file_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,084   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzipped_embl.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,086   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_cath_structures.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,087   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_antismash.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,089   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/reformat_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,091   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/trim_quality_control.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,093   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/mask_for_ITS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,094   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_antismash_in_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,096   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/bam_index.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,098   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_cds.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,099   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_concatenate_deoverlapped_matches.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,101   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/suppress_tax.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,103   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_fasta_headers.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,104   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/expressiontool_bam_index.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,106   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fastqc_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,108   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fastqc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,109   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/sam_to_sorted_bam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,111   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_pathways_systems_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,113   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_fasta_nucleotide.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,115   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compression_func_ann.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,117   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/resmapping_for_Pfam_UP2PDB.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,119   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hmmsearch.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,121   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_contigs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,122   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_fasta_proteins.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,124   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,126   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_lines_mapseq.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,128   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,130   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_seed_orthologs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,131   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_report_snapshot.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,134   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_paired.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,136   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,138   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_mapseq.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,140   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_masked_ITS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,141   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_ITS_seqs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,143   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/index_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,145   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/align_avg_structs_pairwise.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,147   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fasta_index.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,149   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_seq_cat_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,151   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_submitted_reads_single.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,153   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/calc_chunking_number.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,154   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_ncrnas.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,156   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/post_processing.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,158   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,159   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip_merged_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,161   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/motus_classification.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,163   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_subunits_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,165   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_contigs_antismash.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,167   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_csv_gp.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,169   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/per_unp_dom_instance.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,170   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_file_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,172   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fix_embl_and_gbk.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,174   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_geneclusters.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,176   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/diamond_run.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,178   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gemstats.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,179   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_quality_control_filtering.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,181   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/eggnog_homology_searches.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,183   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/visualize_otu_counts.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,185   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/overlap_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,187   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/phyloseq_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,189   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/picrust_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,190   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/split_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,192   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/tohdt.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,194   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/prodigal.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,196   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_no_antismash_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,198   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/kegg_pathways.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,200   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pilon.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,202   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_overlapped_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,204   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_seq_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,205   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_geneclusters_txt.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,207   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/antismash_summary.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,208   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_processed_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,210   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_new_parameters.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,212   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_csv_kp.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,214   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,216   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_classification.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,217   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/qc_stats.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,219   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/mapseq.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,221   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/counts_to_hdf5.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,223   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_chopped_structures_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,225   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/go_summary.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,227   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_LSU.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,229   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_gbk.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,231   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip_single_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,232   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/copy_avg_dom.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,234   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_empty_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,236   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/kofamscan.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,237   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_reads_after_filtering.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,239   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_antismash_summary_to_pathways_systems_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,241   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chunking_tsv.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,243   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_family_ids.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,245   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_threshold_step.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,246   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/folder_compression.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,248   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax_to_tsv_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,250   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_averaged_structures.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,252   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pairwise_align_avg_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,254   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,256   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compression.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,258   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/header_addition.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,260   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_its_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,262   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/tab_modification.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,264   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,265   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/add_crossmapped_to_resmapped.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,267   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/eggnog_annotation.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,269   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/length_filter.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,271   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_ncrnas.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,273   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_run.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,275   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum_single.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,277   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/remove_overlaps.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,278   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_value.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,280   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/conversion.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,282   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/join.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,284   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/resmapping_for_CATH_PDB2UP.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,286   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_sequences.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,288   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/antismash_gff.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,290   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/parsing_hmmscan.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,291   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_ssu_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,293   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gather_domain_like.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,295   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_subunits.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules
2023-09-25T16:49:34,297   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_cnvkit_theta2_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:34,300   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_strelka2_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:34,302   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc-somatic-variant-workflow.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:34,306   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_amplicon_architect.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow
2023-09-25T16:49:34,309   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated
2023-09-25T16:49:34,310   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:34,311   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec_R.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:34,313   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:34,315   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec_visualize.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:34,317   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/gen_controlfreec_configfile.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config
2023-09-25T16:49:34,319   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/kfdrc_production_somatic_variant_cnv_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated
2023-09-25T16:49:34,323   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:34,323   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec_R.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:34,325   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:34,327   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec_visualize.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7
2023-09-25T16:49:34,329   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/samtools_cram2bam_plus_calmd.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated
2023-09-25T16:49:34,331   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,332   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_cveto_util.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,335   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/consensus_merge.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,338   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/kf_mskcc_vcf2maf_1.6.21.pl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,341   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,344   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/hotspot.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,347   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv_visualisations.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,349   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv_methods.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,352   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/add_strelka2_fields.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts
2023-09-25T16:49:34,355   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,356   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_production_WGS_somatic_variant_cnv.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,359   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_mutect2_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,361   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_vardict_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,363   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_lancet_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,365   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_somatic_caller_workflow.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,367   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_combined_somatic_wgs_cnv_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,369   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnvkit_batch_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,371   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnv_caller_wes_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,374   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_production_WES_somatic_variant_cnv_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,377   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_somatic_WES_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,379   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/cnvkit_single_sample_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,381   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnvkit_plus_theta2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,383   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_controlfreec_cnv.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,386   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/control-freec-germline.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated
2023-09-25T16:49:34,390   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,391   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/hotspots_annotation.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,394   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_1_0_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,396   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/control-freec-11-6-sbg.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,399   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_reheader_vcf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,401   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/amplicon_architect.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,403   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_filter_vardict_somatic.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,404   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/speedseq_sv_annotate.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,406   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_getpileupsummaries.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,407   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_intervallisttool.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,409   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_import_theta2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,411   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_pickvalue_workaround.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,413   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/generic_rename_outputs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,414   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/manta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,416   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/python_vardict_interval_split.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,419   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_defaults.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,420   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/variant_effect_predictor_105.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,423   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_calmd.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,425   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_normalize_vcf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,427   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_preprocessintervals.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,428   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_selector.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,430   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_batch.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,433   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_calculatecontamination.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,435   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/kf_mskcc_vcf2maf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,437   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/awk_min_seg_length.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,438   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_strip_ann.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,440   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvnator.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,442   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lumpy-sv_germline.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,444   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_annotate.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,445   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_gatherpileupsummaries.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,447   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_createreadcountpanelofnormals.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,449   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/smoove_lumpy.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,451   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bedtools_intersect.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,453   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_flatten_list.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,455   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_plotdenoisedcopyratios.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,456   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/add_basename.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,458   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_annotateintervals.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,460   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bundle_secondaryfiles.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,463   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_filter_germline_variant.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,465   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_batch_only.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,466   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_list_selector.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,468   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lumpy-sv_somatic.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,470   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/ubuntu_rename_outputs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,472   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_collectreadcounts.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,474   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/consensus_merge.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,476   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/add_strelka2_fields.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,478   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/normalize_vcf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,480   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/ubuntu_ratio2seg.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,482   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_sortvcf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,484   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_indexfeaturefile.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,486   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/vardictjava.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,488   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/snpEff_annotate.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,490   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/preprocess_lancet_intervals.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,492   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_modelsegments.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,494   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_export_theta2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,496   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_filter_vcf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,498   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/prep_mnp_variants.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,500   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/tar.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,501   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_Mutect2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,503   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_variant_filter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,505   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/untar_gzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,507   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_plotmodeledsegments.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,509   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/tabix_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,511   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_filtermutectcalls.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,513   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/theta2_purity.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,516   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_mergevcfs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,518   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_flatten_file_list.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,520   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_reheader_bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,522   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_prepare_files_for_scatter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,525   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_selectvariants.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,527   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_run_aa_if_wgs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,529   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_variant_recall_ensemble.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,531   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lancet.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,534   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_funcotatesegments.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,536   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/canvas_paired_wes.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,538   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bwa_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,540   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cns_to_aa_bed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,542   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/strelka2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,544   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/control_freec_mini_pileup.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,546   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_collectalleliccounts.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,548   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/seurat.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,550   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_mergemutectstats.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,552   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_denoisereadcounts.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,554   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_call.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,556   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_cram2bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,558   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/aa_classifier.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,560   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/prepare_aa.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,562   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_callcopyratiosegments.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,563   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/annotsv.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,566   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_faidx.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,568   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_learnorientationbias.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,570   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_rename_files.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,572   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/picard_createsequencedictionary.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools
2023-09-25T16:49:34,574   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/README.md -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow
2023-09-25T16:49:34,577   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,578   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gatk_intervallisttool.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,580   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/cnv_using_subwf_test.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,582   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/quick_split_bed.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,584   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/delme_tcga_temp_vcftomaf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,586   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gen_germline_controlfreec_config.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,588   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/custom_split.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,590   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/samtools_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,592   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/output_vcf_pick.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,593   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/build_strelka2_mnp.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,595   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/temp_rerun_vcf2maf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,597   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gatk_sortvcf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,599   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/vardictjava.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,601   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/delme_pbta_temp_vcftomaf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,603   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/lancet.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev
2023-09-25T16:49:34,606   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,607   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_manta_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,609   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_lancet_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,611   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_strelka2_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,614   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_gatk_cnv_somatic_pair_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,616   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/prepare_reference.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,618   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_vardict_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,621   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_run_theta2_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,623   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_cnvkit_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,625   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_controlfreec_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,627   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_mutect2_filter_support_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,629   copying build/lib/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_mutect2_sub_wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows
2023-09-25T16:49:34,632   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics
2023-09-25T16:49:34,633   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools
2023-09-25T16:49:34,635   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:34,636   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output
2023-09-25T16:49:34,638   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,639   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full_bin -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,641   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/nucleotide-distribution.out.full -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,643   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full_pcbin -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,645   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full_pcbin -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,647   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,648   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,650   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full_bin -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics
2023-09-25T16:49:34,652   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:34,654   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/MGRAST_base.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:34,657   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/qc-stats.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:34,659   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs
2023-09-25T16:49:34,660   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs/test.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs
2023-09-25T16:49:34,662   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/qc-stats-job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats
2023-09-25T16:49:34,664   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,665   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/FGS.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,667   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/faselector -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,670   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/prodigal.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,672   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_assemblies.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,674   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/unite_protein_predictions.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,677   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/run_FGS.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,678   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_reads.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,680   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/FGS.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,682   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_assemblies.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,685   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,686   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,688   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,691   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,693   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller_docker.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,696   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller_conf.json -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,697   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC
2023-09-25T16:49:34,699   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/post-processing.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller
2023-09-25T16:49:34,701   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:34,702   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:34,978   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal.faa -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:34,990   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/ERR3414571_FASTA.cmsearch.all.tblout.deoverlapped -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:35,018   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.fgs.ffn -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:35,265   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.fgs.faa -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:35,365   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal.ffn -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:35,382   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files
2023-09-25T16:49:35,389   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:35,390   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5-none_docker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:35,393   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-protein_formats.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:35,394   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:35,396   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:35,398   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-apps.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan
2023-09-25T16:49:35,400   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,401   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output
2023-09-25T16:49:35,402   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output/masked-for-its.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output
2023-09-25T16:49:35,404   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output/ITS-maskfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/expected-output
2023-09-25T16:49:35,406   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bedtools.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,408   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/its-length-new.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,411   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bash_scripts
2023-09-25T16:49:35,412   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bash_scripts/format_bedfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bash_scripts
2023-09-25T16:49:35,414   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/suppress_tax.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,416   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/bedtools.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,417   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/suppress_tax_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,420   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input
2023-09-25T16:49:35,421   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/LSU
2023-09-25T16:49:35,422   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/LSU/LSU.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/LSU
2023-09-25T16:49:35,425   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/test-cmsearch.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input
2023-09-25T16:49:35,427   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU
2023-09-25T16:49:35,428   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU/SSU.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU
2023-09-25T16:49:35,429   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input/SSU-and-LSU -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/test-input
2023-09-25T16:49:35,431   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/format-bedfile.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,433   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS/format-bedfile.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/mask-for-ITS
2023-09-25T16:49:35,435   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads
2023-09-25T16:49:35,437   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:35,438   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output
2023-09-25T16:49:35,439   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output/classifications.motus.biom -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output
2023-09-25T16:49:35,481   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/mOTUs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:35,483   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/motus-test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:35,485   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/clean_motus_output.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:35,487   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input
2023-09-25T16:49:35,488   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input/unpaired.fq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input
2023-09-25T16:49:35,855   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/clean_motus_output.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs
2023-09-25T16:49:35,858   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:35,859   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output
2023-09-25T16:49:35,860   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output/test_seqs.filtered.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output
2023-09-25T16:49:35,862   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output/stats_summary -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/expected-output
2023-09-25T16:49:35,864   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/run_quality_filtering.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:35,866   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/qc-filtering-job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:35,869   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/test-input
2023-09-25T16:49:35,869   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/test-input/test_seqs.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/test-input
2023-09-25T16:49:35,871   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering/qc-filtering.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-filtering
2023-09-25T16:49:35,874   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,874   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/write_summaries.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,877   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/write_summaries.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,878   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/functional_stats.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,880   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/functional_stats.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,882   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/functional_stats.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,884   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries/write_summaries.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/summaries
2023-09-25T16:49:35,887   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:35,888   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/protein_chunker.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:35,890   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:35,892   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/fasta_chunker.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:35,894   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:35,895   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/fasta_chunker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:35,897   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/esl-ssplit.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:35,899   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/esl-ssplit.pl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker
2023-09-25T16:49:35,901   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/protein_chunker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:35,903   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker
2023-09-25T16:49:35,904   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker/100_150.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker
2023-09-25T16:49:35,907   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker/1_100.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/expected-output-fasta_chunker
2023-09-25T16:49:35,911   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/remove_headers.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:35,913   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input
2023-09-25T16:49:35,914   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input/empty.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input
2023-09-25T16:49:35,916   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/remove_headers.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:35,917   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/split_to_chunks.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks
2023-09-25T16:49:35,920   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction
2023-09-25T16:49:35,921   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:35,923   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output
2023-09-25T16:49:35,924   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output/matched_seqs_with_coords -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output
2023-09-25T16:49:35,926   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/extract-coords_awk.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:35,927   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/awk_tool -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:35,929   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/extract-coords_awk.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords
2023-09-25T16:49:35,932   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input
2023-09-25T16:49:35,933   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input/test-cmsearch.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input
2023-09-25T16:49:35,935   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,936   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output
2023-09-25T16:49:35,938   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:35,939   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.json -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:35,941   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.hdf5 -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:35,944   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert
2023-09-25T16:49:35,946   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:35,947   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty_json.biom -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:35,949   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:35,951   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.html -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:35,957   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.mseq.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax
2023-09-25T16:49:35,959   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,962   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,963   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.mseq.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,964   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU_json.biom -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,966   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,967   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/test-mapseq.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,969   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,971   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.html -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input
2023-09-25T16:49:35,977   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,978   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,980   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,982   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,983   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert-table.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,985   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,987   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,989   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert-test.job-input.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert
2023-09-25T16:49:35,991   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:35,993   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output
2023-09-25T16:49:35,994   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output/cyano_tmRNA -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output
2023-09-25T16:49:35,996   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/pull_ncrnas.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:35,997   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/pull_ncrnas.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:35,999   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/pull_ncrnas.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas
2023-09-25T16:49:36,001   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch
2023-09-25T16:49:36,003   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output
2023-09-25T16:49:36,004   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output/mrum-genome.fa.cmsearch_matches.tbl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output
2023-09-25T16:49:36,006   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/infernal-cmsearch-v1.1.2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch
2023-09-25T16:49:36,009   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/infernal-cmsearch.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch
2023-09-25T16:49:36,011   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:36,012   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/mrum-genome.fa -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:36,062   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/tRNA5.c.cm -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:36,065   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/mt-tmRNA.cm -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input
2023-09-25T16:49:36,069   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:36,070   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output
2023-09-25T16:49:36,071   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output/1.cmsearch.tblout.deoverlapped -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output
2023-09-25T16:49:36,075   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap-v0.02.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:36,077   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap-v0.02.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:36,079   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input
2023-09-25T16:49:36,080   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input/ribo.claninfo -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input
2023-09-25T16:49:36,082   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input/1.cmsearch.tblout -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input
2023-09-25T16:49:36,086   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap.pl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap
2023-09-25T16:49:36,089   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:36,090   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:36,092   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/5S.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:36,093   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/prefix_LSU_rRNA_bacteria.RF02541.fa -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:36,095   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/prefix_SSU_rRNA_bacteria.RF00177.fa -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:36,097   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/SSU.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:36,099   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/LSU.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output
2023-09-25T16:49:36,101   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:36,103   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input
2023-09-25T16:49:36,104   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input/test.get_subunits -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input
2023-09-25T16:49:36,106   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:36,108   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta
2023-09-25T16:49:36,110   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:36,112   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output
2023-09-25T16:49:36,113   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output/test-mapseq.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output
2023-09-25T16:49:36,115   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output/test.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output
2023-09-25T16:49:36,117   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom-test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:36,119   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:36,121   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:36,123   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input
2023-09-25T16:49:36,124   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input/test-otu -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input
2023-09-25T16:49:36,126   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input/test-mapseq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/test-input
2023-09-25T16:49:36,132   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom.pl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom
2023-09-25T16:49:36,135   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:36,136   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:36,138   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/mapseq-test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:36,140   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/mapseq.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq
2023-09-25T16:49:36,142   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:36,143   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:36,144   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test.fasta.ssi -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:36,146   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:36,148   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test-cmsearch_matched_seqs_with_coords.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output
2023-09-25T16:49:36,150   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-index-test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:36,152   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:36,153   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-manyseqs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:36,155   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:36,156   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/test.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:36,159   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/test-cmsearch.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:36,161   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/matched_seqs_with_coords -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input
2023-09-25T16:49:36,163   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-index.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:36,165   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-manyseqs-test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel
2023-09-25T16:49:36,167   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:36,168   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/expected-output
2023-09-25T16:49:36,169   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/expected-output/test.html -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/expected-output
2023-09-25T16:49:36,176   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:36,177   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/krona.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:36,179   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/krona-test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona
2023-09-25T16:49:36,181   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input
2023-09-25T16:49:36,182   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input/test.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input
2023-09-25T16:49:36,185   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:36,186   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:36,187   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/LSUs -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:36,189   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/SSUs -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:36,191   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/5s -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output
2023-09-25T16:49:36,193   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:36,195   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:36,196   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords
2023-09-25T16:49:36,199   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input
2023-09-25T16:49:36,200   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input/matched_seqs_with_coords -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input
2023-09-25T16:49:36,202   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer
2023-09-25T16:49:36,203   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:36,205   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output
2023-09-25T16:49:36,206   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output/hmmscan_result.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output
2023-09-25T16:49:36,208   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:36,210   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab_modification.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:36,212   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/test-input
2023-09-25T16:49:36,213   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/test-input/hmmscan_result.tbl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/test-input
2023-09-25T16:49:36,215   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab_modification.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification
2023-09-25T16:49:36,217   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer
2023-09-25T16:49:36,219   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:36,221   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/hmmscan.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:36,223   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/hmmscan.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:36,225   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/hmmscan-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:36,226   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan/chunking-subwf-hmmscan.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan
2023-09-25T16:49:36,229   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/db
2023-09-25T16:49:36,229   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/db/db_kofam.hmm.h3i -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/db
2023-09-25T16:49:36,247   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmsearch.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer
2023-09-25T16:49:36,249   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,250   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:36,251   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_left_ok.fq.trimmed.unpaired.fastq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:36,253   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_right_ok.fq.trimmed.fastq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:36,313   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_right_ok.fq.trimmed.unpaired.fastq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:36,314   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_left_ok.fq.trimmed.fastq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output
2023-09-25T16:49:36,360   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-PE.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,362   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-SE.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,364   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic_SE_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,366   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-max_info.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,368   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,370   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-sliding_window.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,372   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-illumina_clipping.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,374   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-phred.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,375   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/LICENSE -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,378   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic-end_mode.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,380   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-SE.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,382   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic_help.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,385   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic_PE_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,387   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/Trimmomatic-v0.36-PE.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic
2023-09-25T16:49:36,390   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,391   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,393   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output
2023-09-25T16:49:36,394   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output/test -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output
2023-09-25T16:49:36,397   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output/test_slim -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output
2023-09-25T16:49:36,399   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/metagenomics_go_slim_ids.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,401   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,403   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,405   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go-basic-metagenomics_release_20160705.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,921   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary_pipeline-1.0.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,923   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary-config.json -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,925   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/metagenomics_go_slim_banding.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:36,928   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input
2023-09-25T16:49:36,929   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input/ips_out.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input
2023-09-25T16:49:36,932   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:36,933   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools-runner-all.jar -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:37,425   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools.vmoptions -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:37,427   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools
2023-09-25T16:49:37,430   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go-basic-metagenomics_release_20160705.obo -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim
2023-09-25T16:49:37,911   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep
2023-09-25T16:49:37,912   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep/seqprep.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep
2023-09-25T16:49:37,914   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep/seqprep.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/SeqPrep
2023-09-25T16:49:37,916   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly
2023-09-25T16:49:37,918   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:37,919   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/run_samtools.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:37,921   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input
2023-09-25T16:49:37,922   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input/test.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input
2023-09-25T16:49:37,924   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/fasta_index.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:37,926   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/fasta_index.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta
2023-09-25T16:49:37,928   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral
2023-09-25T16:49:37,929   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral
2023-09-25T16:49:37,931   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash
2023-09-25T16:49:37,933   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:37,934   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:37,936   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/wf_antismash.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:37,938   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash_chunking_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:37,940   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value
2023-09-25T16:49:37,941   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value/check_value.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value
2023-09-25T16:49:37,943   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value/check_value.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value
2023-09-25T16:49:37,945   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output
2023-09-25T16:49:37,946   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output/output-contig-1.embl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output
2023-09-25T16:49:37,964   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output/output-contig-1.gbk -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output
2023-09-25T16:49:37,981   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:37,982   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/run_antismash_short.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:37,985   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/antismash_v4.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:37,987   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/antismash_v4.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash
2023-09-25T16:49:37,989   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/no_antismash_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:37,992   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:37,993   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.fasta.1 -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:37,995   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:37,998   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test-1-contig.table -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:38,000   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test-1-contig.embl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:38,019   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.2.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:38,021   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/empty.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input
2023-09-25T16:49:38,023   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:38,024   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/rename_contigs.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:38,027   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/rename_contigs.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:38,029   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/antismash_rename_contigs.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs
2023-09-25T16:49:38,031   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated
2023-09-25T16:49:38,032   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/config -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated
2023-09-25T16:49:38,035   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,037   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/write_summaries.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,039   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/classify_SSUs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,041   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cath_domain_instances.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,044   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_from_list.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,046   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/trimming.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,048   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_itsonedb.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,050   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_core.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,052   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/motus_taxonomy.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,054   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/functional_annotation_and_post_processing.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,057   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/resmapping_cath_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,059   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/find_ribosomal_ncRNAs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,061   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/resmapping_pfam_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,063   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/ITS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,066   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_hmmer.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,068   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cmsearch_assembly.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,070   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_IPS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,072   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_unite.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,074   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cgc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,076   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_manta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,078   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/unmapped_from_pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,080   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/classify_LSUs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,082   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/overlap_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,085   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_Pfam2CATH.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,087   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/after_qc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,089   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/functional_annotation.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,091   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_CATH2Pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,094   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/unmapped_from_cath.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,096   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/combined_gene_caller.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,098   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/pfam_domain_instances.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,100   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cmsearch_raw_data.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,102   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/prepare_reference.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,105   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/rna_prediction.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,107   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/other_ncrnas.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,109   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/before_qc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,112   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chunking_final.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,114   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/avg_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows
2023-09-25T16:49:38,116   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/main.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated
2023-09-25T16:49:38,122   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,123   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gatk_selectvariants_manta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,125   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_averaged_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,127   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/write_summaries.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,129   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cat_models.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,131   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/crossmapping_CATH2Pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,134   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/functional_stats.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,136   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chop_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,138   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/make_tab_sep.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,140   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/move_to_functional_annotation_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,142   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_pfam_structures.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,144   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/check_alignment_scores.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,146   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/classifications_to_otu_counts.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,148   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hashsum_paired.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,150   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/vcf_compress.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,152   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/carveme_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,154   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_concatenate_matches.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,156   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_masked_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,158   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine_trimmed.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,161   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/FGS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,163   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cat.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,165   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,167   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_files.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,169   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compare_instances_CATH_Pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,171   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gather_failed_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,173   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picrust2.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,175   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_lsu_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,177   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_SC_fasta_nucleotide.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,179   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/interproscan.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,182   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/per_dom_instance.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,184   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bed_to_macs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,186   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_manta_samples.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,188   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_output_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,190   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,193   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bed_to_bigbed.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,195   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/assign_genes.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,197   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_carveme.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,199   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reads_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,202   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_prodigal.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,204   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_chopped_structs_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,206   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/QC_FLAG.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,208   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/carveme.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,210   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cmsearch.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,213   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reduce_bed.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,215   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_no_cds_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,217   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/counts_to_json.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,219   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/convert_trimmed_reads_to_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,221   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_SSU.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,223   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/crossmapping_Pfam2CATH.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,226   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/smetana.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,228   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine_ips.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,230   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/readmapping_pilon.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,232   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/collect_lost_instances.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,234   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_submitted_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,237   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/format_core_list.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,239   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_island_names.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,242   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,244   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/split_seqs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,246   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_domain_positions.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,248   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_tax_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,250   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/prodigal_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,252   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/no_tax_file_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,254   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_cath_structures.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,257   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reformat_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,259   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/trim_quality_control.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,261   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/mask_for_ITS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,263   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bam_index.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,265   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/make_gff.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,267   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_cds.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,269   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_concatenate_deoverlapped_matches.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,271   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/suppress_tax.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,273   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/clean_fasta_headers.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,275   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/expressiontool_bam_index.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,278   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/fastqc_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,280   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/fastqc.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,282   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/sam_to_sorted_bam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,285   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/index_strelka_bed.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,287   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_fasta_nucleotide.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,289   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/resmapping_for_Pfam_UP2PDB.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,291   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hmmsearch.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,293   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/manta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,296   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_fasta_proteins.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,298   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,300   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_lines_mapseq.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,302   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_report_snapshot.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,304   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_paired.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,306   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,309   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_mapseq.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,311   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_masked_ITS.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,313   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_ITS_seqs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,315   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/index_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,317   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/align_avg_structs_pairwise.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,319   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/move_to_seq_cat_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,321   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_submitted_reads_single.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,323   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_ncrnas.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,325   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/post_processing.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,328   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pfam.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,330   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/unzip_merged_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,332   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/motus_classification.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,334   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_subunits_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,336   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/per_unp_dom_instance.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,338   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_file_flag.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,340   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gemstats.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,342   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_quality_control_filtering.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,344   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/visualize_otu_counts.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,346   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/overlap_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,348   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/phyloseq_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,350   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picrust_files_to_folder.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,353   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/split_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,355   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/tohdt.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,357   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/prodigal.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,359   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_png.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,361   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pilon.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,363   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bwa_index.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,365   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_overlapped_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,367   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_seq_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,369   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_processed_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,371   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/create_new_parameters.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,373   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,376   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/clean_classification.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,378   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/qc_stats.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,380   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/mapseq.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,382   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/counts_to_hdf5.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,384   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_chopped_structures_unp_domains.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,386   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/go_summary.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,388   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_LSU.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,390   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/unzip_single_reads.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,393   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/copy_avg_dom.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,395   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_empty_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,397   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/kofamscan.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,399   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chunking_tsv.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,401   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_family_ids.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,403   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/check_threshold_step.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,405   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/folder_compression.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,407   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/sort_bed.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,409   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax_to_tsv_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,412   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_averaged_structures.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,414   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pairwise_align_avg_structs.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,416   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,418   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compression.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,420   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/header_addition.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,422   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_its_dir.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,424   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_coords.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,427   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_crossmapped_to_resmapped.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,429   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/length_filter.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,431   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_ncrnas.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,433   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_run.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,435   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hashsum_single.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,453   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/remove_overlaps.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,455   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/samtools_faidx.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,458   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/conversion.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,460   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/resmapping_for_CATH_PDB2UP.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,462   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_sequences.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,465   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bundle_secondaries.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,467   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_ssu_fasta.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,469   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gather_domain_like.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,471   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picard_create_sequence_dictionary.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,474   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_subunits.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,476   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_rose.nf -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules
2023-09-25T16:49:38,479   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:38,480   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/antismash_chunking_subwf.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:38,482   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/wf_antismash.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:38,485   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/no_antismash_subwf.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:38,487   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/antismash_subwf.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls
2023-09-25T16:49:38,489   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/filtering_fasta_for_antismash.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals
2023-09-25T16:49:38,492   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing
2023-09-25T16:49:38,494   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:38,495   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:38,498   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:38,500   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash
2023-09-25T16:49:38,502   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt
2023-09-25T16:49:38,504   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt/change_geneclusters_txt.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt
2023-09-25T16:49:38,506   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt/change_geneclusters_ctg.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt
2023-09-25T16:49:38,509   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash
2023-09-25T16:49:38,510   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash/reformat_antismash.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash
2023-09-25T16:49:38,512   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash/reformat_antismash.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash
2023-09-25T16:49:38,515   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:38,516   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_antismash_output.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:38,518   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_output.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:38,521   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_output.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk
2023-09-25T16:49:38,523   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary
2023-09-25T16:49:38,524   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary
2023-09-25T16:49:38,526   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary
2023-09-25T16:49:38,529   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis
2023-09-25T16:49:38,531   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output
2023-09-25T16:49:38,532   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output/assembly-SRR1620013_small_FASTA_FASTA.summary.kegg_contigs.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output
2023-09-25T16:49:38,535   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output/assembly-SRR1620013_small_FASTA_FASTA.summary.kegg_pathways -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output
2023-09-25T16:49:38,537   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:38,539   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/run_pathways.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:38,541   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:38,543   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/help_commands.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker
2023-09-25T16:49:38,546   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:38,547   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/give_pathways.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:38,550   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/kegg_pathways.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:38,552   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/kegg_pathways.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways
2023-09-25T16:49:38,554   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:38,555   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:38,558   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:38,560   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan
2023-09-25T16:49:38,562   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/make_graphs.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis
2023-09-25T16:49:38,565   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification
2023-09-25T16:49:38,566   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification/modification_table.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification
2023-09-25T16:49:38,568   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification/modification_table.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification
2023-09-25T16:49:38,571   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:38,572   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/gff_generation.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:38,575   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/build_assembly_gff.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:38,577   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/gff_generation.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF
2023-09-25T16:49:38,579   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG
2023-09-25T16:49:38,580   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggnog-subwf.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG
2023-09-25T16:49:38,583   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:38,584   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/emapper.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:38,587   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:38,589   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnog.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:38,591   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,592   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/orthology.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,594   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,596   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/seqio.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,598   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/version.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,600   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/vars.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,603   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/annota.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,606   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/search.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,609   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/utils.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,611   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/annota_mongo.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,613   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/common.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,615   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/server.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper
2023-09-25T16:49:38,617   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnog.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG
2023-09-25T16:49:38,619   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggnog-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG
2023-09-25T16:49:38,622   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:38,623   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:38,624   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/SUMMARY_FILE_test_single_protein.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:38,627   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/MATCHES_test_single_protein.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:38,629   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/LONGFORM_REPORT_test_single_protein.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:38,645   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/TABLE_test_single_protein.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:38,658   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/JSON_test_single_protein.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output
2023-09-25T16:49:38,684   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:38,686   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/genome_properties.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:38,688   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input
2023-09-25T16:49:38,690   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input/InterProScan.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input
2023-09-25T16:49:38,692   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/genome_properties.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:38,694   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/gp_docker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties
2023-09-25T16:49:38,696   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,698   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond_blastx_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,700   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.makedb-v0.9.21.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,702   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,706   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,707   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_post_run_join.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,709   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,711   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.test.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,713   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Dockerfile -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,715   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.test.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,717   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,719   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.job.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,722   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:38,723   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_10_sorted -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:38,725   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_db -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:38,728   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example
2023-09-25T16:49:38,729   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example/example_diamond_10_sorted_join -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example
2023-09-25T16:49:38,731   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_10 -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files
2023-09-25T16:49:38,734   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,736   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,738   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,740   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing
2023-09-25T16:49:38,742   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-output_formats.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,744   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastx-v0.9.21.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,746   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.makedb-v0.9.21.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,749   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21_docker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,751   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond_blastp_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,753   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/diamond-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,755   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,757   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/diamond-subwf.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,759   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-strand_values.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,761   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastx-v0.9.21.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond
2023-09-25T16:49:38,764   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse
2023-09-25T16:49:38,766   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output
2023-09-25T16:49:38,767   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output/testfile.annotations.pfam -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output
2023-09-25T16:49:38,769   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/pfam_annotations.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse
2023-09-25T16:49:38,771   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/pfam_annotations.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse
2023-09-25T16:49:38,773   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input
2023-09-25T16:49:38,775   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input/testfile.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input
2023-09-25T16:49:38,778   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,779   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta
2023-09-25T16:49:38,780   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta/empty_fasta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta
2023-09-25T16:49:38,783   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta/empty_fasta.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta
2023-09-25T16:49:38,784   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/clean_fasta_headers.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,787   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:38,788   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output
2023-09-25T16:49:38,790   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output/hmmscan_result.tsv -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output
2023-09-25T16:49:38,792   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:38,795   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab_modification.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:38,797   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input
2023-09-25T16:49:38,799   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input/hmmscan_result.tbl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input
2023-09-25T16:49:38,801   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab_modification.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification
2023-09-25T16:49:38,803   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/concatenate.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,806   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_fasta.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,808   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:38,809   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.cwltest.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:38,811   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.test.job-input.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:38,813   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:38,815   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta
2023-09-25T16:49:38,818   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz
2023-09-25T16:49:38,819   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz/gzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz
2023-09-25T16:49:38,822   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:38,823   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker.test.job.yaml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:38,825   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker_test.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:38,827   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker
2023-09-25T16:49:38,829   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastp.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,831   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/multiple-gunzip.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,833   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_fasta.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,836   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs
2023-09-25T16:49:38,837   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker
2023-09-25T16:49:38,838   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker/test_02_test_02.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker
2023-09-25T16:49:38,841   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker/test_01_b_test_01_b.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker
2023-09-25T16:49:38,843   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_tab_sep.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,845   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/return_directory.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,847   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/qc-flag.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,849   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:38,850   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header/add_header.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:38,852   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header/add_header.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:38,854   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header/add_header -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/add_header
2023-09-25T16:49:38,856   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/touch_file.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,858   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,860   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,861   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/cleaningUtils.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,864   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/run_result_file_chunker.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,866   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/result_chunker.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,868   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/chunkFastaResultFileUtil.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,871   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/chunkTSVFileUtil.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker
2023-09-25T16:49:38,874   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:38,875   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_lines.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:38,877   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_fastq_exp.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:38,879   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_lines.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:38,880   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines/count_lines.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_lines
2023-09-25T16:49:38,882   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum
2023-09-25T16:49:38,883   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum/generate_checksum.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum
2023-09-25T16:49:38,885   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum/generate_checksum.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum
2023-09-25T16:49:38,886   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/move.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,889   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:38,889   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/output -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:38,891   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/make_csv.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:38,893   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/test.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:38,895   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/make_csv.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv
2023-09-25T16:49:38,897   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs
2023-09-25T16:49:38,898   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs/test_seqs.fasta -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs
2023-09-25T16:49:38,899   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs/test_seqs.fq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs
2023-09-25T16:49:38,901   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/count_number_lines.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,903   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/return_directory.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils
2023-09-25T16:49:38,905   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:38,906   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals
2023-09-25T16:49:38,908   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads
2023-09-25T16:49:38,909   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads/raw-reads-2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads
2023-09-25T16:49:38,911   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads/raw-reads-1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads
2023-09-25T16:49:38,914   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon
2023-09-25T16:49:38,914   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon/amplicon-2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon
2023-09-25T16:49:38,917   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon/amplicon-1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon
2023-09-25T16:49:38,918   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/out_json_parser.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals
2023-09-25T16:49:38,920   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/README -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals
2023-09-25T16:49:38,922   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly
2023-09-25T16:49:38,923   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly/assembly-2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly
2023-09-25T16:49:38,926   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly/assembly-1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly
2023-09-25T16:49:38,928   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling
2023-09-25T16:49:38,929   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling/run_profiling.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling
2023-09-25T16:49:38,930   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling/profiling_parser.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling
2023-09-25T16:49:38,932   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/raw-reads-wf--v.5-cond.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:38,934   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/amplicon-wf--v.5-cond.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:38,937   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,938   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/cmsearch-condition.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,940   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/chunking-subwf-IPS.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,942   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/classify-otu-visualise.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,944   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/chunking-subwf-hmmsearch.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,945   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/rna_prediction-sub-wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,948   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:38,949   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/ITS-wf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:38,951   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/trim_and_reformat_reads.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:38,953   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/trimming-not-empty-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon
2023-09-25T16:49:38,954   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/final_chunking.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,956   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/other_ncrnas.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,958   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/func_summaries.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,960   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/cmsearch-multimodel-raw-data.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,961   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/seqprep-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows
2023-09-25T16:49:38,964   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:38,965   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/func_ann_and_post_proccessing-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:38,967   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/mOTUs-workflow.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:38,969   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/functional_annotation_raw.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:38,970   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/CGC-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads
2023-09-25T16:49:38,973   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,974   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/kegg_analysis.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,976   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/deal_with_functional_annotation.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,977   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/change_formats_and_names.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,979   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/functional_annotation.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,981   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/func_ann_and_post_processing-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,983   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/kegg_analysis.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,985   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/cmsearch-multimodel-assembly.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,987   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/functional_annotation.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,988   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/CGC-subwf.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly
2023-09-25T16:49:38,991   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:38,992   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/amplicon-wf--v.5-cond.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:38,994   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/assembly-pipeline-v.5.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:38,996   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/raw-reads--v.5-cond.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls
2023-09-25T16:49:38,998   copying build/lib/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/assembly-wf--v.5-cond.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows
2023-09-25T16:49:39,001   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows
2023-09-25T16:49:39,003   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,004   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/sequence_align_and_tag_adapter.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,006   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/qc_exome.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,008   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/sequence_to_bqsr.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,010   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/align_sort_markdup.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,011   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/align.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,013   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/hs_metrics.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows
2023-09-25T16:49:39,016   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,017   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/select_variants.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,018   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/gatk_haplotype_caller.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,020   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/name_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,022   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/bqsr.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,024   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/index_bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,025   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/verify_bam_id.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,027   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/apply_bqsr.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,029   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_alignment_summary_metrics.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,031   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/sequence_align_and_tag.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,033   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/samtools_flagstat.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,035   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/merge_bams_samtools.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,036   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/mark_duplicates_and_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,038   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/align_and_tag.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,040   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_hs_metrics.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,041   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_insert_size_metrics.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,043   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/tools/merge_bams.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/tools
2023-09-25T16:49:39,045   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:39,046   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types/labelled_file.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:39,048   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types/vep_custom_annotation.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:39,050   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types/trimming_options.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:39,051   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/types/sequence_data.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/types
2023-09-25T16:49:39,053   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines
2023-09-25T16:49:39,054   copying build/lib/janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines/alignment_exome.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines
2023-09-25T16:49:39,057   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup
2023-09-25T16:49:39,058   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows
2023-09-25T16:49:39,059   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows/align_sort_markdup.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows
2023-09-25T16:49:39,061   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows/align.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows
2023-09-25T16:49:39,064   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:39,065   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/name_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:39,066   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/index_bam.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:39,068   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/merge_bams_samtools.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:39,070   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/mark_duplicates_and_sort.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:39,072   copying build/lib/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/align_and_tag.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/cwl/workflows/align_sort_markdup/tools
2023-09-25T16:49:39,074   copying build/lib/janis_core/tests/data/test_diff.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,076   copying build/lib/janis_core/tests/data/wildtype.fna -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,082   copying build/lib/janis_core/tests/data/aln.sam -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,157   copying build/lib/janis_core/tests/data/aln.sorted.bam -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,178   copying build/lib/janis_core/tests/data/mutant_R1.fastq -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,246   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis
2023-09-25T16:49:39,247   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:39,249   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl
2023-09-25T16:49:39,250   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/WGSSomaticMultiCallers_1_4_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl
2023-09-25T16:49:39,252   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/WGSSomaticMultiCallers-inp.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl
2023-09-25T16:49:39,255   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,256   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4GetPileupSummaries_4_1_6_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,258   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SplitMultiAllele_v0_5772.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,260   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GenerateGenomeFileForBedtoolsCoverage_v0_1_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,262   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bgzip_1_2_1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,264   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4CollectInsertSizeMetrics_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,266   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GATK4_SomaticVariantCaller_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,268   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/fastqc_v0_11_8.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,270   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/BwaAligner_1_0_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,272   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bcftoolssort_v1_9.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,274   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4BaseRecalibrator_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,276   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/UncompressArchive_v1_0_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,278   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsView_1_9_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,280   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/performanceSummary_0_0_7.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,282   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4GatherVcfs_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,284   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4MergeSamFiles_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,286   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/AddBamStatsSomatic_v0_1_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,288   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/trimIUPAC_0_0_5.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,290   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/vardict_somatic_1_6_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,292   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/vardictSomaticVariantCaller_v0_1_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,294   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/FilterVardictSomaticVcf_v1_9.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,295   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/extractStrelkaSomaticADDP_0_1_1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,297   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4FilterMutectCalls_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,299   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/VcfTools_0_1_16.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,301   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4SortSam_4_1_2_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,303   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4ApplyBQSR_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,305   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsMpileup_1_9_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,307   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/strelkaSomaticVariantCaller_v0_1_1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,309   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/BwaMemSamtoolsView_0_7_17_1_9.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,312   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/samtools_mpileup_subpipeline.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,313   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bcftoolsAnnotate_v1_5.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,315   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4MarkDuplicates_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,318   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/cutadapt_2_1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,320   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/somatic_subpipeline.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,321   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4CalculateContamination_4_1_4_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,323   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/split_bam_subpipeline.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,325   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/combinevariants_0_0_8.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,327   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4SplitReads_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,329   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/tabix_1_2_1.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,331   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/ParseFastqcAdaptors_v0_1_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,333   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4LearnReadOrientationModel_4_1_4_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,335   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4Mutect2_4_1_3_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,338   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsFlagstat_1_9_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,340   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/ConcatStrelkaSomaticVcf_0_1_16.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,342   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/strelka_somatic_2_9_10.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,344   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/PerformanceSummaryGenome_v0_1_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,346   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/mergeAndMarkBams_4_1_3.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,348   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,350   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GenerateVardictHeaderLines_v0_1_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,351   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/gridss_v2_6_2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,353   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/manta_1_5_0.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,355   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bedtoolsgenomeCoverageBed_v2_29_2.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,358   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/addBamStats_0_0_7.cwl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools
2023-09-25T16:49:39,359   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:39,361   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wgssomatic.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:39,363   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wgssomatic_variantsonly.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep
2023-09-25T16:49:39,365   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl
2023-09-25T16:49:39,366   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/WGSSomaticMultiCallers_1_4_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl
2023-09-25T16:49:39,369   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/WGSSomaticMultiCallers-inp.json -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl
2023-09-25T16:49:39,372   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,374   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GenerateGenomeFileForBedtoolsCoverage_v0_1_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,376   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/addBamStats_0_0_7.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,378   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bedtoolsgenomeCoverageBed_v2_29_2.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,381   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bcftoolsAnnotate_v1_5.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,383   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/vardict_somatic_1_6_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,386   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/fastqc_v0_11_8.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,388   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/vardictSomaticVariantCaller_v0_1_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,391   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/trimIUPAC_0_0_5.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,393   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/mergeAndMarkBams_4_1_3.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,395   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bgzip_1_2_1.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,398   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/UncompressArchive_v1_0_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,400   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/AddBamStatsSomatic_v0_1_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,403   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4ApplyBQSR_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,405   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/extractStrelkaSomaticADDP_0_1_1.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,407   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4GatherVcfs_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,410   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/ParseFastqcAdaptors_v0_1_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,413   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GATK4_SomaticVariantCaller_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,415   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4BaseRecalibrator_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,417   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/strelka_somatic_2_9_10.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,420   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/VcfTools_0_1_16.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,422   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/FilterVardictSomaticVcf_v1_9.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,424   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/samtools_mpileup_subpipeline.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,426   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4FilterMutectCalls_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,429   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bcftoolssort_v1_9.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,431   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4SplitReads_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,434   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4MergeSamFiles_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,437   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/ConcatStrelkaSomaticVcf_0_1_16.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,439   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsView_1_9_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,442   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/BwaAligner_1_0_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,444   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4MarkDuplicates_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,447   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsMpileup_1_9_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,449   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/combinevariants_0_0_8.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,452   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/somatic_subpipeline.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,454   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/performanceSummary_0_0_7.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,456   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsFlagstat_1_9_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,458   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/split_bam_subpipeline.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,461   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4Mutect2_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,464   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/tabix_1_2_1.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,466   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SplitMultiAllele_v0_5772.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,469   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4SortSam_4_1_2_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,471   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/gridss_v2_6_2.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,473   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/PerformanceSummaryGenome_v0_1_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,474   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4GetPileupSummaries_4_1_6_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,476   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4CollectInsertSizeMetrics_4_1_3_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,478   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/manta_1_5_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,480   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/BwaMemSamtoolsView_0_7_17_1_9.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,482   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,484   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4CalculateContamination_4_1_4_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,486   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4LearnReadOrientationModel_4_1_4_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,488   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GenerateVardictHeaderLines_v0_1_0.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,490   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/strelkaSomaticVariantCaller_v0_1_1.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,492   copying build/lib/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/cutadapt_2_1.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools
2023-09-25T16:49:39,494   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple
2023-09-25T16:49:39,495   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/scripts
2023-09-25T16:49:39,496   copying build/lib/janis_core/tests/data/janis/simple/scripts/multiqc_multiqc_config -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/scripts
2023-09-25T16:49:39,499   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:39,500   copying build/lib/janis_core/tests/data/janis/simple/tools/prokka.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:39,502   copying build/lib/janis_core/tests/data/janis/simple/tools/quast.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:39,504   copying build/lib/janis_core/tests/data/janis/simple/tools/multiqc.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:39,506   copying build/lib/janis_core/tests/data/janis/simple/tools/unicycler.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:39,508   copying build/lib/janis_core/tests/data/janis/simple/tools/fastqc.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple/tools
2023-09-25T16:49:39,511   copying build/lib/janis_core/tests/data/janis/simple/workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple
2023-09-25T16:49:39,514   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated
2023-09-25T16:49:39,515   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated/scripts
2023-09-25T16:49:39,516   copying build/lib/janis_core/tests/data/janis/simple_truncated/scripts/multiqc_multiqc_config -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated/scripts
2023-09-25T16:49:39,519   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:39,519   copying build/lib/janis_core/tests/data/janis/simple_truncated/tools/prokka.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:39,522   copying build/lib/janis_core/tests/data/janis/simple_truncated/tools/quast.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:39,525   copying build/lib/janis_core/tests/data/janis/simple_truncated/tools/multiqc.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis/simple_truncated/tools
2023-09-25T16:49:39,527   copying build/lib/janis_core/tests/data/janis/test_codetool.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/janis
2023-09-25T16:49:39,529   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/wdl
2023-09-25T16:49:39,530   copying build/lib/janis_core/tests/data/wdl/somatic_wf.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/wdl
2023-09-25T16:49:39,533   copying build/lib/janis_core/tests/data/wdl/Multisample_jointgt_GATK4.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/wdl
2023-09-25T16:49:39,537   copying build/lib/janis_core/tests/data/wdl/bwa.wdl -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/wdl
2023-09-25T16:49:39,540   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,541   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5
2023-09-25T16:49:39,542   copying build/lib/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5/nanoplot.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5
2023-09-25T16:49:39,545   copying build/lib/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5/.hg_archival.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5
2023-09-25T16:49:39,547   copying build/lib/janis_core/tests/data/galaxy/cutadapt_wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,549   copying build/lib/janis_core/tests/data/galaxy/rna_seq_genes_to_pathways.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,552   copying build/lib/janis_core/tests/data/galaxy/nanoplot_wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,554   copying build/lib/janis_core/tests/data/galaxy/hisat2_wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,556   copying build/lib/janis_core/tests/data/galaxy/rna_seq_reads_to_counts.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,561   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,562   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/head.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,564   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/sed.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,566   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/recurring_lines.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,568   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/macros.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,570   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/sort.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,572   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/multijoin.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,574   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/cat.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,576   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/unfold_column.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,577   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/unsorted_uniq.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,579   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/sorted_uniq.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,581   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/unfold_column.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,583   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/readme.rst -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,585   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/ansi2html.sh -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,587   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/easyjoin.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,589   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/grep.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,591   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/.hg_archival.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,593   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/find_and_replace -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,595   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/tail.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,597   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/sort-header -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,599   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/tac.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,600   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/multijoin -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,603   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/replace_text_in_column.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,605   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/sort_rows.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,607   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/easyjoin -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,609   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/cut.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,611   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/replace_text_in_line.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,614   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/find_and_replace.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,616   copying build/lib/janis_core/tests/data/galaxy/text_processing-d698c222f354/awk.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/text_processing-d698c222f354
2023-09-25T16:49:39,618   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee
2023-09-25T16:49:39,619   copying build/lib/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee/.hg_archival.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee
2023-09-25T16:49:39,621   copying build/lib/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee/rgFastQC.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee
2023-09-25T16:49:39,624   copying build/lib/janis_core/tests/data/galaxy/wf_abricate.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,626   copying build/lib/janis_core/tests/data/galaxy/fastqc_wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,628   copying build/lib/janis_core/tests/data/galaxy/limma_voom_wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,631   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:39,632   copying build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/hisat2_macros.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:39,634   copying build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/.hg_archival.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:39,635   copying build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool_data_table_conf.xml.test -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:39,637   copying build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool_data_table_conf.xml.sample -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:39,639   copying build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/hisat2.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d
2023-09-25T16:49:39,642   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data
2023-09-25T16:49:39,643   copying build/lib/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data/hisat2_indexes.loc.sample -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data
2023-09-25T16:49:39,645   copying build/lib/janis_core/tests/data/galaxy/rna_seq_counts_to_genes.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,648   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:39,648   copying build/lib/janis_core/tests/data/galaxy/abricate/macros.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:39,650   copying build/lib/janis_core/tests/data/galaxy/abricate/abricate_list.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:39,653   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,654   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_list.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,655   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/Acetobacter.fna -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,660   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_summary.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,662   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/MRSA0252.fna -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,716   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_mrsa.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,717   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_noheader.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,719   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/test.gbk -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,721   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_db-card.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,723   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_noresults.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,725   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_minid100.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,727   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_mincov100.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,728   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_gbk.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,730   copying build/lib/janis_core/tests/data/galaxy/abricate/test-data/output_db-megares.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate/test-data
2023-09-25T16:49:39,732   copying build/lib/janis_core/tests/data/galaxy/abricate/.shed.yml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:39,734   copying build/lib/janis_core/tests/data/galaxy/abricate/abricate_summary.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:39,735   copying build/lib/janis_core/tests/data/galaxy/abricate/abricate.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/abricate
2023-09-25T16:49:39,738   creating build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/quast-675488238c96
2023-09-25T16:49:39,738   copying build/lib/janis_core/tests/data/galaxy/quast-675488238c96/macros.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/quast-675488238c96
2023-09-25T16:49:39,740   copying build/lib/janis_core/tests/data/galaxy/quast-675488238c96/quast.xml -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy/quast-675488238c96
2023-09-25T16:49:39,743   copying build/lib/janis_core/tests/data/galaxy/unicycler_assembly.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,746   copying build/lib/janis_core/tests/data/galaxy/annotate-my-ids-wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,747   copying build/lib/janis_core/tests/data/galaxy/goseq_wf.ga -> build/bdist.linux-armv7l/wheel/janis_core/tests/data/galaxy
2023-09-25T16:49:39,750   copying build/lib/janis_core/tests/data/test.txt -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,751   copying build/lib/janis_core/tests/data/aln.sorted.bam.bai -> build/bdist.linux-armv7l/wheel/janis_core/tests/data
2023-09-25T16:49:39,754   copying build/lib/janis_core/tests/test_ingestion_cwl.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:39,756   copying build/lib/janis_core/tests/test_validateinputvalue.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:39,758   copying build/lib/janis_core/tests/test_workflow.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:39,761   copying build/lib/janis_core/tests/test_translation_cwl.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:39,764   creating build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,765   copying build/lib/janis_core/tests/testworkflows/ordering.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,768   copying build/lib/janis_core/tests/testworkflows/call.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,770   copying build/lib/janis_core/tests/testworkflows/combos.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,772   copying build/lib/janis_core/tests/testworkflows/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,773   copying build/lib/janis_core/tests/testworkflows/assembly.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,776   copying build/lib/janis_core/tests/testworkflows/components.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,778   copying build/lib/janis_core/tests/testworkflows/trace.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,780   copying build/lib/janis_core/tests/testworkflows/subworkflow.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,782   copying build/lib/janis_core/tests/testworkflows/naming.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,784   copying build/lib/janis_core/tests/testworkflows/files_directories_to_create.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,786   copying build/lib/janis_core/tests/testworkflows/additional_features.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,788   copying build/lib/janis_core/tests/testworkflows/scatter.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,790   copying build/lib/janis_core/tests/testworkflows/preprocessing_prune.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,792   copying build/lib/janis_core/tests/testworkflows/script.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,794   copying build/lib/janis_core/tests/testworkflows/process_inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,795   copying build/lib/janis_core/tests/testworkflows/plumbing_scatter.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,797   copying build/lib/janis_core/tests/testworkflows/unwrap.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,799   copying build/lib/janis_core/tests/testworkflows/plumbing_type_mismatch.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,801   copying build/lib/janis_core/tests/testworkflows/outputs.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,803   copying build/lib/janis_core/tests/testworkflows/data_sources.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,805   copying build/lib/janis_core/tests/testworkflows/file_pairs.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,807   copying build/lib/janis_core/tests/testworkflows/mandatory_types.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,809   copying build/lib/janis_core/tests/testworkflows/codetools.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,811   copying build/lib/janis_core/tests/testworkflows/optional_types.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,813   copying build/lib/janis_core/tests/testworkflows/basics.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,815   copying build/lib/janis_core/tests/testworkflows/all_input_types.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,817   copying build/lib/janis_core/tests/testworkflows/subworkflow2.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,819   copying build/lib/janis_core/tests/testworkflows/string_formatter.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,821   copying build/lib/janis_core/tests/testworkflows/secondaries.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,823   copying build/lib/janis_core/tests/testworkflows/plumbing_edge_cases.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,825   copying build/lib/janis_core/tests/testworkflows/minimal_task_inputs.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,827   copying build/lib/janis_core/tests/testworkflows/duplicate_tasks.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,829   copying build/lib/janis_core/tests/testworkflows/operations.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,830   copying build/lib/janis_core/tests/testworkflows/filenames.py -> build/bdist.linux-armv7l/wheel/janis_core/tests/testworkflows
2023-09-25T16:49:39,833   copying build/lib/janis_core/tests/test_metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/tests
2023-09-25T16:49:39,835   creating build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,836   copying build/lib/janis_core/tool/test_suite_runner.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,839   copying build/lib/janis_core/tool/test_definitions.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,840   copying build/lib/janis_core/tool/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,842   copying build/lib/janis_core/tool/cwl_tool_parser.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,844   copying build/lib/janis_core/tool/tool.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,846   copying build/lib/janis_core/tool/documentation.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,848   copying build/lib/janis_core/tool/commandtool.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,850   copying build/lib/janis_core/tool/batchrun.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,851   copying build/lib/janis_core/tool/test_helpers.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,854   copying build/lib/janis_core/tool/test_classes.py -> build/bdist.linux-armv7l/wheel/janis_core/tool
2023-09-25T16:49:39,856   creating build/bdist.linux-armv7l/wheel/janis_core/types
2023-09-25T16:49:39,857   copying build/lib/janis_core/types/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/types
2023-09-25T16:49:39,859   copying build/lib/janis_core/types/data_types.py -> build/bdist.linux-armv7l/wheel/janis_core/types
2023-09-25T16:49:39,861   copying build/lib/janis_core/types/common_data_types.py -> build/bdist.linux-armv7l/wheel/janis_core/types
2023-09-25T16:49:39,863   copying build/lib/janis_core/__meta__.py -> build/bdist.linux-armv7l/wheel/janis_core
2023-09-25T16:49:39,866   creating build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,866   copying build/lib/janis_core/utils/generators.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,868   copying build/lib/janis_core/utils/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,870   copying build/lib/janis_core/utils/metadata.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,872   copying build/lib/janis_core/utils/docparser_info.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,874   copying build/lib/janis_core/utils/errors.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,875   copying build/lib/janis_core/utils/logger.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,877   copying build/lib/janis_core/utils/bracketmatching.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,879   copying build/lib/janis_core/utils/scatter.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,881   copying build/lib/janis_core/utils/secondary.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,883   copying build/lib/janis_core/utils/validators.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,884   copying build/lib/janis_core/utils/pickvalue.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,886   copying build/lib/janis_core/utils/janisconstants.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,888   copying build/lib/janis_core/utils/generics_util.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,889   copying build/lib/janis_core/utils/yaml_utils.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,891   copying build/lib/janis_core/utils/levenshteindistance.py -> build/bdist.linux-armv7l/wheel/janis_core/utils
2023-09-25T16:49:39,893   creating build/bdist.linux-armv7l/wheel/janis_core/settings
2023-09-25T16:49:39,894   copying build/lib/janis_core/settings/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/settings
2023-09-25T16:49:39,896   copying build/lib/janis_core/settings/graph.py -> build/bdist.linux-armv7l/wheel/janis_core/settings
2023-09-25T16:49:39,898   creating build/bdist.linux-armv7l/wheel/janis_core/settings/ingest
2023-09-25T16:49:39,898   copying build/lib/janis_core/settings/ingest/galaxy.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/ingest
2023-09-25T16:49:39,900   copying build/lib/janis_core/settings/ingest/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/ingest
2023-09-25T16:49:39,902   copying build/lib/janis_core/settings/ingest/cwl.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/ingest
2023-09-25T16:49:39,903   copying build/lib/janis_core/settings/ingest/general.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/ingest
2023-09-25T16:49:39,905   creating build/bdist.linux-armv7l/wheel/janis_core/settings/translate
2023-09-25T16:49:39,906   copying build/lib/janis_core/settings/translate/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/translate
2023-09-25T16:49:39,908   copying build/lib/janis_core/settings/translate/general.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/translate
2023-09-25T16:49:39,909   copying build/lib/janis_core/settings/translate/nextflow.py -> build/bdist.linux-armv7l/wheel/janis_core/settings/translate
2023-09-25T16:49:39,911   copying build/lib/janis_core/settings/validation.py -> build/bdist.linux-armv7l/wheel/janis_core/settings
2023-09-25T16:49:39,913   copying build/lib/janis_core/settings/datatypes.py -> build/bdist.linux-armv7l/wheel/janis_core/settings
2023-09-25T16:49:39,914   copying build/lib/janis_core/settings/testing.py -> build/bdist.linux-armv7l/wheel/janis_core/settings
2023-09-25T16:49:39,916   creating build/bdist.linux-armv7l/wheel/janis_core/messages
2023-09-25T16:49:39,917   copying build/lib/janis_core/messages/__init__.py -> build/bdist.linux-armv7l/wheel/janis_core/messages
2023-09-25T16:49:39,919   copying build/lib/janis_core/messages/config.yaml -> build/bdist.linux-armv7l/wheel/janis_core/messages
2023-09-25T16:49:39,920   copying build/lib/janis_core/messages/main.py -> build/bdist.linux-armv7l/wheel/janis_core/messages
2023-09-25T16:49:39,922   copying build/lib/janis_core/messages/logfile.py -> build/bdist.linux-armv7l/wheel/janis_core/messages
2023-09-25T16:49:39,924   running install_egg_info
2023-09-25T16:49:39,928   Copying janis_pipelines.core.egg-info to build/bdist.linux-armv7l/wheel/janis_pipelines.core-0.13.0-py3.11.egg-info
2023-09-25T16:49:39,941   running install_scripts
2023-09-25T16:49:39,966   creating build/bdist.linux-armv7l/wheel/janis_pipelines.core-0.13.0.dist-info/WHEEL
2023-09-25T16:49:39,968   creating '/tmp/pip-wheel-d5o3bck1/.tmp-z6iw4ryn/janis_pipelines.core-0.13.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2023-09-25T16:49:39,971   adding 'janis_core/__init__.py'
2023-09-25T16:49:39,972   adding 'janis_core/__meta__.py'
2023-09-25T16:49:39,974   adding 'janis_core/code/__init__.py'
2023-09-25T16:49:39,975   adding 'janis_core/code/codetool.py'
2023-09-25T16:49:39,977   adding 'janis_core/code/pythontool.py'
2023-09-25T16:49:39,979   adding 'janis_core/graph/__init__.py'
2023-09-25T16:49:39,980   adding 'janis_core/graph/node.py'
2023-09-25T16:49:39,982   adding 'janis_core/graph/steptaginput.py'
2023-09-25T16:49:39,983   adding 'janis_core/hints/__init__.py'
2023-09-25T16:49:39,985   adding 'janis_core/ingestion/SupportedIngestion.py'
2023-09-25T16:49:39,986   adding 'janis_core/ingestion/__init__.py'
2023-09-25T16:49:39,988   adding 'janis_core/ingestion/main.py'
2023-09-25T16:49:39,989   adding 'janis_core/ingestion/cwl/__init__.py'
2023-09-25T16:49:39,991   adding 'janis_core/ingestion/cwl/expressions.py'
2023-09-25T16:49:39,992   adding 'janis_core/ingestion/cwl/graph.py'
2023-09-25T16:49:39,994   adding 'janis_core/ingestion/cwl/identifiers.py'
2023-09-25T16:49:39,995   adding 'janis_core/ingestion/cwl/loading.py'
2023-09-25T16:49:39,996   adding 'janis_core/ingestion/cwl/main.py'
2023-09-25T16:49:39,998   adding 'janis_core/ingestion/cwl/preprocessing.py'
2023-09-25T16:49:40,000   adding 'janis_core/ingestion/cwl/types.py'
2023-09-25T16:49:40,001   adding 'janis_core/ingestion/cwl/parsing/__init__.py'
2023-09-25T16:49:40,004   adding 'janis_core/ingestion/cwl/parsing/tool.py'
2023-09-25T16:49:40,006   adding 'janis_core/ingestion/cwl/parsing/workflow.py'
2023-09-25T16:49:40,013   adding 'janis_core/ingestion/data/janis_types.yaml'
2023-09-25T16:49:40,015   adding 'janis_core/ingestion/data/logging_config.yaml'
2023-09-25T16:49:40,022   adding 'janis_core/ingestion/data/galaxy/datatypes_conf.xml.sample'
2023-09-25T16:49:40,024   adding 'janis_core/ingestion/data/galaxy/galaxy_config.yaml'
2023-09-25T16:49:40,026   adding 'janis_core/ingestion/galaxy/__init__.py'
2023-09-25T16:49:40,027   adding 'janis_core/ingestion/galaxy/aliases.py'
2023-09-25T16:49:40,029   adding 'janis_core/ingestion/galaxy/ingest.py'
2023-09-25T16:49:40,030   adding 'janis_core/ingestion/galaxy/logging.py'
2023-09-25T16:49:40,032   adding 'janis_core/ingestion/galaxy/containers/Container.py'
2023-09-25T16:49:40,033   adding 'janis_core/ingestion/galaxy/containers/__init__.py'
2023-09-25T16:49:40,034   adding 'janis_core/ingestion/galaxy/containers/cache.py'
2023-09-25T16:49:40,035   adding 'janis_core/ingestion/galaxy/containers/fetch.py'
2023-09-25T16:49:40,036   adding 'janis_core/ingestion/galaxy/containers/main.py'
2023-09-25T16:49:40,038   adding 'janis_core/ingestion/galaxy/containers/mulled.py'
2023-09-25T16:49:40,039   adding 'janis_core/ingestion/galaxy/containers/fetching/ContainerReqFetcher.py'
2023-09-25T16:49:40,041   adding 'janis_core/ingestion/galaxy/containers/fetching/Fetcher.py'
2023-09-25T16:49:40,042   adding 'janis_core/ingestion/galaxy/containers/fetching/GA4GHFetcher.py'
2023-09-25T16:49:40,043   adding 'janis_core/ingestion/galaxy/containers/fetching/QuayIOFetcher.py'
2023-09-25T16:49:40,044   adding 'janis_core/ingestion/galaxy/containers/fetching/__init__.py'
2023-09-25T16:49:40,045   adding 'janis_core/ingestion/galaxy/containers/fetching/presets.py'
2023-09-25T16:49:40,047   adding 'janis_core/ingestion/galaxy/containers/fetching/utils.py'
2023-09-25T16:49:40,048   adding 'janis_core/ingestion/galaxy/containers/selection/VersionMatcher.py'
2023-09-25T16:49:40,049   adding 'janis_core/ingestion/galaxy/containers/selection/__init__.py'
2023-09-25T16:49:40,051   adding 'janis_core/ingestion/galaxy/containers/selection/selection.py'
2023-09-25T16:49:40,052   adding 'janis_core/ingestion/galaxy/datatypes/JanisDatatype.py'
2023-09-25T16:49:40,054   adding 'janis_core/ingestion/galaxy/datatypes/__init__.py'
2023-09-25T16:49:40,055   adding 'janis_core/ingestion/galaxy/datatypes/conversion.py'
2023-09-25T16:49:40,056   adding 'janis_core/ingestion/galaxy/datatypes/core.py'
2023-09-25T16:49:40,063   adding 'janis_core/ingestion/galaxy/datatypes/galaxy.py'
2023-09-25T16:49:40,065   adding 'janis_core/ingestion/galaxy/datatypes/main.py'
2023-09-25T16:49:40,067   adding 'janis_core/ingestion/galaxy/datatypes/register.py'
2023-09-25T16:49:40,068   adding 'janis_core/ingestion/galaxy/datatypes/strategies.py'
2023-09-25T16:49:40,070   adding 'janis_core/ingestion/galaxy/expressions/__init__.py'
2023-09-25T16:49:40,071   adding 'janis_core/ingestion/galaxy/expressions/checks.py'
2023-09-25T16:49:40,072   adding 'janis_core/ingestion/galaxy/expressions/matches.py'
2023-09-25T16:49:40,074   adding 'janis_core/ingestion/galaxy/expressions/patterns.py'
2023-09-25T16:49:40,075   adding 'janis_core/ingestion/galaxy/fileio/__init__.py'
2023-09-25T16:49:40,076   adding 'janis_core/ingestion/galaxy/fileio/initialisation.py'
2023-09-25T16:49:40,078   adding 'janis_core/ingestion/galaxy/fileio/write.py'
2023-09-25T16:49:40,079   adding 'janis_core/ingestion/galaxy/fileio/formats/DefaultFormat.py'
2023-09-25T16:49:40,081   adding 'janis_core/ingestion/galaxy/fileio/formats/Format.py'
2023-09-25T16:49:40,082   adding 'janis_core/ingestion/galaxy/fileio/formats/SubworkflowFormat.py'
2023-09-25T16:49:40,083   adding 'janis_core/ingestion/galaxy/fileio/formats/__init__.py'
2023-09-25T16:49:40,084   adding 'janis_core/ingestion/galaxy/fileio/text/TextRender.py'
2023-09-25T16:49:40,085   adding 'janis_core/ingestion/galaxy/fileio/text/__init__.py'
2023-09-25T16:49:40,086   adding 'janis_core/ingestion/galaxy/fileio/text/formatting.py'
2023-09-25T16:49:40,088   adding 'janis_core/ingestion/galaxy/fileio/text/ordering.py'
2023-09-25T16:49:40,089   adding 'janis_core/ingestion/galaxy/fileio/text/tool/ConfigfileText.py'
2023-09-25T16:49:40,090   adding 'janis_core/ingestion/galaxy/fileio/text/tool/ToolInputSectionText.py'
2023-09-25T16:49:40,092   adding 'janis_core/ingestion/galaxy/fileio/text/tool/ToolInputText.py'
2023-09-25T16:49:40,093   adding 'janis_core/ingestion/galaxy/fileio/text/tool/ToolOutputSectionText.py'
2023-09-25T16:49:40,094   adding 'janis_core/ingestion/galaxy/fileio/text/tool/ToolOutputText.py'
2023-09-25T16:49:40,095   adding 'janis_core/ingestion/galaxy/fileio/text/tool/ToolText.py'
2023-09-25T16:49:40,097   adding 'janis_core/ingestion/galaxy/fileio/text/tool/UnstranslatedText.py'
2023-09-25T16:49:40,098   adding 'janis_core/ingestion/galaxy/fileio/text/tool/__init__.py'
2023-09-25T16:49:40,099   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/ConfigText.py'
2023-09-25T16:49:40,101   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/InputsText.py'
2023-09-25T16:49:40,102   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/StepText.py'
2023-09-25T16:49:40,103   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowInputText.py'
2023-09-25T16:49:40,104   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowOutputText.py'
2023-09-25T16:49:40,106   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/WorkflowText.py'
2023-09-25T16:49:40,107   adding 'janis_core/ingestion/galaxy/fileio/text/workflow/__init__.py'
2023-09-25T16:49:40,109   adding 'janis_core/ingestion/galaxy/gxtool/TestRegister.py'
2023-09-25T16:49:40,110   adding 'janis_core/ingestion/galaxy/gxtool/__init__.py'
2023-09-25T16:49:40,112   adding 'janis_core/ingestion/galaxy/gxtool/mock.py'
2023-09-25T16:49:40,114   adding 'janis_core/ingestion/galaxy/gxtool/command/Command.py'
2023-09-25T16:49:40,115   adding 'janis_core/ingestion/galaxy/gxtool/command/__init__.py'
2023-09-25T16:49:40,118   adding 'janis_core/ingestion/galaxy/gxtool/command/annotation.py'
2023-09-25T16:49:40,119   adding 'janis_core/ingestion/galaxy/gxtool/command/epaths.py'
2023-09-25T16:49:40,120   adding 'janis_core/ingestion/galaxy/gxtool/command/loading.py'
2023-09-25T16:49:40,121   adding 'janis_core/ingestion/galaxy/gxtool/command/main.py'
2023-09-25T16:49:40,122   adding 'janis_core/ingestion/galaxy/gxtool/command/tokenise.py'
2023-09-25T16:49:40,124   adding 'janis_core/ingestion/galaxy/gxtool/command/update.py'
2023-09-25T16:49:40,126   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/CommandString.py'
2023-09-25T16:49:40,127   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/DynamicCommandStatement.py'
2023-09-25T16:49:40,129   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/MainStatementInferrer.py'
2023-09-25T16:49:40,130   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/RealisedTokenValues.py'
2023-09-25T16:49:40,131   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/__init__.py'
2023-09-25T16:49:40,133   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/analysis.py'
2023-09-25T16:49:40,134   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/constructs.py'
2023-09-25T16:49:40,136   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/generate.py'
2023-09-25T16:49:40,137   adding 'janis_core/ingestion/galaxy/gxtool/command/cmdstr/utils.py'
2023-09-25T16:49:40,139   adding 'janis_core/ingestion/galaxy/gxtool/command/components/CommandComponent.py'
2023-09-25T16:49:40,140   adding 'janis_core/ingestion/galaxy/gxtool/command/components/ValueRecord.py'
2023-09-25T16:49:40,141   adding 'janis_core/ingestion/galaxy/gxtool/command/components/__init__.py'
2023-09-25T16:49:40,142   adding 'janis_core/ingestion/galaxy/gxtool/command/components/factory.py'
2023-09-25T16:49:40,144   adding 'janis_core/ingestion/galaxy/gxtool/command/components/inputs/Flag.py'
2023-09-25T16:49:40,145   adding 'janis_core/ingestion/galaxy/gxtool/command/components/inputs/InputComponent.py'
2023-09-25T16:49:40,146   adding 'janis_core/ingestion/galaxy/gxtool/command/components/inputs/Option.py'
2023-09-25T16:49:40,147   adding 'janis_core/ingestion/galaxy/gxtool/command/components/inputs/Positional.py'
2023-09-25T16:49:40,148   adding 'janis_core/ingestion/galaxy/gxtool/command/components/inputs/__init__.py'
2023-09-25T16:49:40,149   adding 'janis_core/ingestion/galaxy/gxtool/command/components/inputs/utils.py'
2023-09-25T16:49:40,151   adding 'janis_core/ingestion/galaxy/gxtool/command/components/linux/Tee.py'
2023-09-25T16:49:40,152   adding 'janis_core/ingestion/galaxy/gxtool/command/components/linux/__init__.py'
2023-09-25T16:49:40,153   adding 'janis_core/ingestion/galaxy/gxtool/command/components/linux/streams.py'
2023-09-25T16:49:40,155   adding 'janis_core/ingestion/galaxy/gxtool/command/components/outputs/InputOutput.py'
2023-09-25T16:49:40,156   adding 'janis_core/ingestion/galaxy/gxtool/command/components/outputs/OutputComponent.py'
2023-09-25T16:49:40,157   adding 'janis_core/ingestion/galaxy/gxtool/command/components/outputs/RedirectOutput.py'
2023-09-25T16:49:40,158   adding 'janis_core/ingestion/galaxy/gxtool/command/components/outputs/WildcardOutput.py'
2023-09-25T16:49:40,159   adding 'janis_core/ingestion/galaxy/gxtool/command/components/outputs/__init__.py'
2023-09-25T16:49:40,161   adding 'janis_core/ingestion/galaxy/gxtool/command/epath/Annotator.py'
2023-09-25T16:49:40,163   adding 'janis_core/ingestion/galaxy/gxtool/command/epath/ComponentOrderingStrategy.py'
2023-09-25T16:49:40,164   adding 'janis_core/ingestion/galaxy/gxtool/command/epath/ExecutionPath.py'
2023-09-25T16:49:40,165   adding 'janis_core/ingestion/galaxy/gxtool/command/epath/ExecutionPathAnnotator.py'
2023-09-25T16:49:40,166   adding 'janis_core/ingestion/galaxy/gxtool/command/epath/__init__.py'
2023-09-25T16:49:40,168   adding 'janis_core/ingestion/galaxy/gxtool/command/epath/analysis.py'
2023-09-25T16:49:40,170   adding 'janis_core/ingestion/galaxy/gxtool/command/tokens/__init__.py'
2023-09-25T16:49:40,171   adding 'janis_core/ingestion/galaxy/gxtool/command/tokens/factory.py'
2023-09-25T16:49:40,172   adding 'janis_core/ingestion/galaxy/gxtool/command/tokens/prioritisation.py'
2023-09-25T16:49:40,174   adding 'janis_core/ingestion/galaxy/gxtool/command/tokens/token.py'
2023-09-25T16:49:40,175   adding 'janis_core/ingestion/galaxy/gxtool/command/tokens/utils.py'
2023-09-25T16:49:40,177   adding 'janis_core/ingestion/galaxy/gxtool/model/__init__.py'
2023-09-25T16:49:40,179   adding 'janis_core/ingestion/galaxy/gxtool/model/citations.py'
2023-09-25T16:49:40,180   adding 'janis_core/ingestion/galaxy/gxtool/model/configfile.py'
2023-09-25T16:49:40,182   adding 'janis_core/ingestion/galaxy/gxtool/model/metadata.py'
2023-09-25T16:49:40,183   adding 'janis_core/ingestion/galaxy/gxtool/model/requirement.py'
2023-09-25T16:49:40,185   adding 'janis_core/ingestion/galaxy/gxtool/model/script.py'
2023-09-25T16:49:40,186   adding 'janis_core/ingestion/galaxy/gxtool/model/tests.py'
2023-09-25T16:49:40,187   adding 'janis_core/ingestion/galaxy/gxtool/model/tool.py'
2023-09-25T16:49:40,190   adding 'janis_core/ingestion/galaxy/gxtool/model/params/__init__.py'
2023-09-25T16:49:40,191   adding 'janis_core/ingestion/galaxy/gxtool/model/params/input_param.py'
2023-09-25T16:49:40,193   adding 'janis_core/ingestion/galaxy/gxtool/model/params/output_param.py'
2023-09-25T16:49:40,195   adding 'janis_core/ingestion/galaxy/gxtool/model/params/param.py'
2023-09-25T16:49:40,196   adding 'janis_core/ingestion/galaxy/gxtool/model/params/param_register.py'
2023-09-25T16:49:40,198   adding 'janis_core/ingestion/galaxy/gxtool/parsing/__init__.py'
2023-09-25T16:49:40,200   adding 'janis_core/ingestion/galaxy/gxtool/parsing/inputs.py'
2023-09-25T16:49:40,203   adding 'janis_core/ingestion/galaxy/gxtool/parsing/main.py'
2023-09-25T16:49:40,205   adding 'janis_core/ingestion/galaxy/gxtool/parsing/outputs.py'
2023-09-25T16:49:40,206   adding 'janis_core/ingestion/galaxy/gxtool/parsing/param_flattener.py'
2023-09-25T16:49:40,209   adding 'janis_core/ingestion/galaxy/gxtool/parsing/tests/TestFactoryOld.py'
2023-09-25T16:49:40,210   adding 'janis_core/ingestion/galaxy/gxtool/parsing/tests/__init__.py'
2023-09-25T16:49:40,212   adding 'janis_core/ingestion/galaxy/gxtool/parsing/tests/checks.py'
2023-09-25T16:49:40,213   adding 'janis_core/ingestion/galaxy/gxtool/parsing/tests/custom_ops.py'
2023-09-25T16:49:40,214   adding 'janis_core/ingestion/galaxy/gxtool/parsing/tests/custom_preprocessors.py'
2023-09-25T16:49:40,216   adding 'janis_core/ingestion/galaxy/gxtool/parsing/tests/mapper.py'
2023-09-25T16:49:40,218   adding 'janis_core/ingestion/galaxy/gxtool/text/__init__.py'
2023-09-25T16:49:40,219   adding 'janis_core/ingestion/galaxy/gxtool/text/utils.py'
2023-09-25T16:49:40,221   adding 'janis_core/ingestion/galaxy/gxtool/text/cheetah/__init__.py'
2023-09-25T16:49:40,224   adding 'janis_core/ingestion/galaxy/gxtool/text/cheetah/blocks.py'
2023-09-25T16:49:40,226   adding 'janis_core/ingestion/galaxy/gxtool/text/cheetah/evaluation.py'
2023-09-25T16:49:40,227   adding 'janis_core/ingestion/galaxy/gxtool/text/simplification/__init__.py'
2023-09-25T16:49:40,229   adding 'janis_core/ingestion/galaxy/gxtool/text/simplification/aliases.py'
2023-09-25T16:49:40,231   adding 'janis_core/ingestion/galaxy/gxtool/text/simplification/filters.py'
2023-09-25T16:49:40,232   adding 'janis_core/ingestion/galaxy/gxtool/text/simplification/simplify.py'
2023-09-25T16:49:40,235   adding 'janis_core/ingestion/galaxy/gxworkflow/__init__.py'
2023-09-25T16:49:40,236   adding 'janis_core/ingestion/galaxy/gxworkflow/connections/__init__.py'
2023-09-25T16:49:40,238   adding 'janis_core/ingestion/galaxy/gxworkflow/connections/scatter.py'
2023-09-25T16:49:40,240   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/__init__.py'
2023-09-25T16:49:40,241   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/inputs.py'
2023-09-25T16:49:40,243   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/metadata.py'
2023-09-25T16:49:40,245   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/step.py'
2023-09-25T16:49:40,246   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/__init__.py'
2023-09-25T16:49:40,248   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/metadata.py'
2023-09-25T16:49:40,250   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/outputs.py'
2023-09-25T16:49:40,251   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/prepost.py'
2023-09-25T16:49:40,253   adding 'janis_core/ingestion/galaxy/gxworkflow/parsing/tool_step/tool.py'
2023-09-25T16:49:40,255   adding 'janis_core/ingestion/galaxy/gxworkflow/tool_state/__init__.py'
2023-09-25T16:49:40,256   adding 'janis_core/ingestion/galaxy/gxworkflow/tool_state/filters.py'
2023-09-25T16:49:40,258   adding 'janis_core/ingestion/galaxy/gxworkflow/tool_state/load.py'
2023-09-25T16:49:40,260   adding 'janis_core/ingestion/galaxy/gxworkflow/updates/__init__.py'
2023-09-25T16:49:40,262   adding 'janis_core/ingestion/galaxy/gxworkflow/updates/arrays.py'
2023-09-25T16:49:40,263   adding 'janis_core/ingestion/galaxy/gxworkflow/updates/datatypes.py'
2023-09-25T16:49:40,265   adding 'janis_core/ingestion/galaxy/gxworkflow/updates/main.py'
2023-09-25T16:49:40,266   adding 'janis_core/ingestion/galaxy/gxworkflow/updates/optionality.py'
2023-09-25T16:49:40,268   adding 'janis_core/ingestion/galaxy/gxworkflow/values/__init__.py'
2023-09-25T16:49:40,270   adding 'janis_core/ingestion/galaxy/gxworkflow/values/connection.py'
2023-09-25T16:49:40,271   adding 'janis_core/ingestion/galaxy/gxworkflow/values/default.py'
2023-09-25T16:49:40,273   adding 'janis_core/ingestion/galaxy/gxworkflow/values/factory.py'
2023-09-25T16:49:40,275   adding 'janis_core/ingestion/galaxy/gxworkflow/values/runtime.py'
2023-09-25T16:49:40,276   adding 'janis_core/ingestion/galaxy/gxworkflow/values/scripts.py'
2023-09-25T16:49:40,278   adding 'janis_core/ingestion/galaxy/gxworkflow/values/static.py'
2023-09-25T16:49:40,279   adding 'janis_core/ingestion/galaxy/gxwrappers/__init__.py'
2023-09-25T16:49:40,281   adding 'janis_core/ingestion/galaxy/gxwrappers/downloads/__init__.py'
2023-09-25T16:49:40,283   adding 'janis_core/ingestion/galaxy/gxwrappers/downloads/cache.py'
2023-09-25T16:49:40,284   adding 'janis_core/ingestion/galaxy/gxwrappers/downloads/wrappers.py'
2023-09-25T16:49:40,286   adding 'janis_core/ingestion/galaxy/gxwrappers/requests/__init__.py'
2023-09-25T16:49:40,287   adding 'janis_core/ingestion/galaxy/gxwrappers/requests/versions.py'
2023-09-25T16:49:40,289   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/__init__.py'
2023-09-25T16:49:40,290   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/repositories.py'
2023-09-25T16:49:40,291   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/revisions.py'
2023-09-25T16:49:40,292   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/scraping.py'
2023-09-25T16:49:40,294   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/single.py'
2023-09-25T16:49:40,295   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/utils.py'
2023-09-25T16:49:40,296   adding 'janis_core/ingestion/galaxy/gxwrappers/scraping/wrappers.py'
2023-09-25T16:49:40,298   adding 'janis_core/ingestion/galaxy/gxwrappers/wrappers/Wrapper.py'
2023-09-25T16:49:40,299   adding 'janis_core/ingestion/galaxy/gxwrappers/wrappers/WrapperCache.py'
2023-09-25T16:49:40,300   adding 'janis_core/ingestion/galaxy/gxwrappers/wrappers/__init__.py'
2023-09-25T16:49:40,302   adding 'janis_core/ingestion/galaxy/internal_mapping/__init__.py'
2023-09-25T16:49:40,303   adding 'janis_core/ingestion/galaxy/internal_mapping/main.py'
2023-09-25T16:49:40,305   adding 'janis_core/ingestion/galaxy/internal_model/__init__.py'
2023-09-25T16:49:40,306   adding 'janis_core/ingestion/galaxy/internal_model/protocols.py'
2023-09-25T16:49:40,307   adding 'janis_core/ingestion/galaxy/internal_model/tool/__init__.py'
2023-09-25T16:49:40,310   adding 'janis_core/ingestion/galaxy/internal_model/tool/generate.py'
2023-09-25T16:49:40,312   adding 'janis_core/ingestion/galaxy/internal_model/tool/outputs.py'
2023-09-25T16:49:40,313   adding 'janis_core/ingestion/galaxy/internal_model/tool/tool.py'
2023-09-25T16:49:40,315   adding 'janis_core/ingestion/galaxy/internal_model/workflow/__init__.py'
2023-09-25T16:49:40,316   adding 'janis_core/ingestion/galaxy/internal_model/workflow/input.py'
2023-09-25T16:49:40,317   adding 'janis_core/ingestion/galaxy/internal_model/workflow/metadata.py'
2023-09-25T16:49:40,318   adding 'janis_core/ingestion/galaxy/internal_model/workflow/workflow.py'
2023-09-25T16:49:40,320   adding 'janis_core/ingestion/galaxy/internal_model/workflow/registers/StepInputRegister.py'
2023-09-25T16:49:40,321   adding 'janis_core/ingestion/galaxy/internal_model/workflow/registers/StepOutputRegister.py'
2023-09-25T16:49:40,322   adding 'janis_core/ingestion/galaxy/internal_model/workflow/registers/__init__.py'
2023-09-25T16:49:40,324   adding 'janis_core/ingestion/galaxy/internal_model/workflow/step/__init__.py'
2023-09-25T16:49:40,325   adding 'janis_core/ingestion/galaxy/internal_model/workflow/step/inputs.py'
2023-09-25T16:49:40,327   adding 'janis_core/ingestion/galaxy/internal_model/workflow/step/metadata.py'
2023-09-25T16:49:40,328   adding 'janis_core/ingestion/galaxy/internal_model/workflow/step/outputs.py'
2023-09-25T16:49:40,329   adding 'janis_core/ingestion/galaxy/internal_model/workflow/step/post_step.txt'
2023-09-25T16:49:40,330   adding 'janis_core/ingestion/galaxy/internal_model/workflow/step/step.py'
2023-09-25T16:49:40,332   adding 'janis_core/ingestion/galaxy/janis_mapping/__init__.py'
2023-09-25T16:49:40,334   adding 'janis_core/ingestion/galaxy/janis_mapping/general.py'
2023-09-25T16:49:40,335   adding 'janis_core/ingestion/galaxy/janis_mapping/tool.py'
2023-09-25T16:49:40,337   adding 'janis_core/ingestion/galaxy/janis_mapping/workflow.py'
2023-09-25T16:49:40,339   adding 'janis_core/ingestion/galaxy/messages/__init__.py'
2023-09-25T16:49:40,340   adding 'janis_core/ingestion/galaxy/messages/logs.py'
2023-09-25T16:49:40,341   adding 'janis_core/ingestion/galaxy/messages/messages.py'
2023-09-25T16:49:40,342   adding 'janis_core/ingestion/galaxy/regex_to_glob/__init__.py'
2023-09-25T16:49:40,343   adding 'janis_core/ingestion/galaxy/regex_to_glob/common.py'
2023-09-25T16:49:40,344   adding 'janis_core/ingestion/galaxy/regex_to_glob/convert.py'
2023-09-25T16:49:40,346   adding 'janis_core/ingestion/galaxy/regex_to_glob/patterns.py'
2023-09-25T16:49:40,347   adding 'janis_core/ingestion/galaxy/runtime/__init__.py'
2023-09-25T16:49:40,348   adding 'janis_core/ingestion/galaxy/runtime/dates.py'
2023-09-25T16:49:40,349   adding 'janis_core/ingestion/galaxy/runtime/exceptions.py'
2023-09-25T16:49:40,350   adding 'janis_core/ingestion/galaxy/runtime/general.py'
2023-09-25T16:49:40,352   adding 'janis_core/ingestion/galaxy/runtime/tool.py'
2023-09-25T16:49:40,353   adding 'janis_core/ingestion/galaxy/runtime/startup/__init__.py'
2023-09-25T16:49:40,355   adding 'janis_core/ingestion/galaxy/runtime/startup/tool.py'
2023-09-25T16:49:40,356   adding 'janis_core/ingestion/galaxy/runtime/startup/workflow.py'
2023-09-25T16:49:40,358   adding 'janis_core/ingestion/galaxy/tags/__init__.py'
2023-09-25T16:49:40,359   adding 'janis_core/ingestion/galaxy/tags/groups.py'
2023-09-25T16:49:40,360   adding 'janis_core/ingestion/galaxy/tags/manager.py'
2023-09-25T16:49:40,361   adding 'janis_core/ingestion/galaxy/tags/rules.py'
2023-09-25T16:49:40,363   adding 'janis_core/ingestion/galaxy/tags/strategies.py'
2023-09-25T16:49:40,364   adding 'janis_core/ingestion/galaxy/utils/__init__.py'
2023-09-25T16:49:40,366   adding 'janis_core/ingestion/galaxy/utils/galaxy.py'
2023-09-25T16:49:40,367   adding 'janis_core/ingestion/galaxy/utils/general.py'
2023-09-25T16:49:40,368   adding 'janis_core/ingestion/wdl/__init__.py'
2023-09-25T16:49:40,371   adding 'janis_core/ingestion/wdl/main.py'
2023-09-25T16:49:40,372   adding 'janis_core/messages/__init__.py'
2023-09-25T16:49:40,374   adding 'janis_core/messages/config.yaml'
2023-09-25T16:49:40,375   adding 'janis_core/messages/logfile.py'
2023-09-25T16:49:40,376   adding 'janis_core/messages/main.py'
2023-09-25T16:49:40,378   adding 'janis_core/operators/__init__.py'
2023-09-25T16:49:40,380   adding 'janis_core/operators/logical.py'
2023-09-25T16:49:40,381   adding 'janis_core/operators/operator.py'
2023-09-25T16:49:40,384   adding 'janis_core/operators/selectors.py'
2023-09-25T16:49:40,386   adding 'janis_core/operators/standard.py'
2023-09-25T16:49:40,388   adding 'janis_core/operators/stringformatter.py'
2023-09-25T16:49:40,390   adding 'janis_core/redefinitions/__init__.py'
2023-09-25T16:49:40,392   adding 'janis_core/redefinitions/types.py'
2023-09-25T16:49:40,394   adding 'janis_core/redefinitions/utils.py'
2023-09-25T16:49:40,396   adding 'janis_core/redefinitions/tools/__init__.py'
2023-09-25T16:49:40,397   adding 'janis_core/redefinitions/tools/addbamstats.py'
2023-09-25T16:49:40,400   adding 'janis_core/redefinitions/tools/bcftools.py'
2023-09-25T16:49:40,402   adding 'janis_core/redefinitions/tools/bedtoolsgenomecoverage.py'
2023-09-25T16:49:40,403   adding 'janis_core/redefinitions/tools/bgzip.py'
2023-09-25T16:49:40,405   adding 'janis_core/redefinitions/tools/bioinformaticstool.py'
2023-09-25T16:49:40,407   adding 'janis_core/redefinitions/tools/bwamem_samtoolsview.py'
2023-09-25T16:49:40,409   adding 'janis_core/redefinitions/tools/cat.py'
2023-09-25T16:49:40,410   adding 'janis_core/redefinitions/tools/combinevariants.py'
2023-09-25T16:49:40,412   adding 'janis_core/redefinitions/tools/cutadapt.py'
2023-09-25T16:49:40,414   adding 'janis_core/redefinitions/tools/echo.py'
2023-09-25T16:49:40,416   adding 'janis_core/redefinitions/tools/fastqc.py'
2023-09-25T16:49:40,425   adding 'janis_core/redefinitions/tools/gatk4.py'
2023-09-25T16:49:40,428   adding 'janis_core/redefinitions/tools/generate.py'
2023-09-25T16:49:40,430   adding 'janis_core/redefinitions/tools/gridss.py'
2023-09-25T16:49:40,432   adding 'janis_core/redefinitions/tools/manta.py'
2023-09-25T16:49:40,434   adding 'janis_core/redefinitions/tools/parse.py'
2023-09-25T16:49:40,435   adding 'janis_core/redefinitions/tools/performancesummary.py'
2023-09-25T16:49:40,436   adding 'janis_core/redefinitions/tools/petermacutils.py'
2023-09-25T16:49:40,439   adding 'janis_core/redefinitions/tools/samtools.py'
2023-09-25T16:49:40,441   adding 'janis_core/redefinitions/tools/splitmultiallele.py'
2023-09-25T16:49:40,443   adding 'janis_core/redefinitions/tools/strelka.py'
2023-09-25T16:49:40,445   adding 'janis_core/redefinitions/tools/tabix.py'
2023-09-25T16:49:40,446   adding 'janis_core/redefinitions/tools/trimiupac.py'
2023-09-25T16:49:40,447   adding 'janis_core/redefinitions/tools/uncompressarchive.py'
2023-09-25T16:49:40,450   adding 'janis_core/redefinitions/tools/vardict.py'
2023-09-25T16:49:40,451   adding 'janis_core/redefinitions/tools/vcftools.py'
2023-09-25T16:49:40,453   adding 'janis_core/redefinitions/workflows/__init__.py'
2023-09-25T16:49:40,454   adding 'janis_core/redefinitions/workflows/addbamstats.py'
2023-09-25T16:49:40,456   adding 'janis_core/redefinitions/workflows/bioinformaticsworkflow.py'
2023-09-25T16:49:40,457   adding 'janis_core/redefinitions/workflows/bwaaligner.py'
2023-09-25T16:49:40,458   adding 'janis_core/redefinitions/workflows/gatkbaserecalbqsr.py'
2023-09-25T16:49:40,460   adding 'janis_core/redefinitions/workflows/gatkgermlinevariantcaller.py'
2023-09-25T16:49:40,461   adding 'janis_core/redefinitions/workflows/illuminagermlinevariantcaller.py'
2023-09-25T16:49:40,462   adding 'janis_core/redefinitions/workflows/mergeandmark.py'
2023-09-25T16:49:40,464   adding 'janis_core/redefinitions/workflows/performancesummarygenome.py'
2023-09-25T16:49:40,465   adding 'janis_core/redefinitions/workflows/vardictgermlinevariantcaller.py'
2023-09-25T16:49:40,479   adding 'janis_core/redefinitions/workflows/wgsgermline.py'
2023-09-25T16:49:40,480   adding 'janis_core/settings/__init__.py'
2023-09-25T16:49:40,481   adding 'janis_core/settings/datatypes.py'
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2023-09-25T16:49:40,484   adding 'janis_core/settings/testing.py'
2023-09-25T16:49:40,485   adding 'janis_core/settings/validation.py'
2023-09-25T16:49:40,487   adding 'janis_core/settings/ingest/__init__.py'
2023-09-25T16:49:40,488   adding 'janis_core/settings/ingest/cwl.py'
2023-09-25T16:49:40,489   adding 'janis_core/settings/ingest/galaxy.py'
2023-09-25T16:49:40,490   adding 'janis_core/settings/ingest/general.py'
2023-09-25T16:49:40,492   adding 'janis_core/settings/translate/__init__.py'
2023-09-25T16:49:40,493   adding 'janis_core/settings/translate/general.py'
2023-09-25T16:49:40,494   adding 'janis_core/settings/translate/nextflow.py'
2023-09-25T16:49:40,496   adding 'janis_core/tests/__init__.py'
2023-09-25T16:49:40,498   adding 'janis_core/tests/test_commandtool.py'
2023-09-25T16:49:40,499   adding 'janis_core/tests/test_conditionals.py'
2023-09-25T16:49:40,500   adding 'janis_core/tests/test_generics_util.py'
2023-09-25T16:49:40,503   adding 'janis_core/tests/test_ingestion_cwl.py'
2023-09-25T16:49:40,507   adding 'janis_core/tests/test_ingestion_galaxy.py'
2023-09-25T16:49:40,508   adding 'janis_core/tests/test_ingestion_wdl.py'
2023-09-25T16:49:40,511   adding 'janis_core/tests/test_janis_translate.py'
2023-09-25T16:49:40,513   adding 'janis_core/tests/test_logger.py'
2023-09-25T16:49:40,514   adding 'janis_core/tests/test_metadata.py'
2023-09-25T16:49:40,515   adding 'janis_core/tests/test_operators.py'
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2023-09-25T16:49:40,518   adding 'janis_core/tests/test_receivefrom.py'
2023-09-25T16:49:40,520   adding 'janis_core/tests/test_running.py'
2023-09-25T16:49:40,521   adding 'janis_core/tests/test_secondary.py'
2023-09-25T16:49:40,522   adding 'janis_core/tests/test_step.py'
2023-09-25T16:49:40,524   adding 'janis_core/tests/test_stringbuilder.py'
2023-09-25T16:49:40,526   adding 'janis_core/tests/test_test_runner.py'
2023-09-25T16:49:40,527   adding 'janis_core/tests/test_tools.py'
2023-09-25T16:49:40,531   adding 'janis_core/tests/test_translation_cwl.py'
2023-09-25T16:49:40,532   adding 'janis_core/tests/test_translation_modules.py'
2023-09-25T16:49:40,543   adding 'janis_core/tests/test_translation_nextflow.py'
2023-09-25T16:49:40,549   adding 'janis_core/tests/test_translation_wdl.py'
2023-09-25T16:49:40,551   adding 'janis_core/tests/test_types.py'
2023-09-25T16:49:40,552   adding 'janis_core/tests/test_validateinputvalue.py'
2023-09-25T16:49:40,553   adding 'janis_core/tests/test_validators.py'
2023-09-25T16:49:40,555   adding 'janis_core/tests/test_workflow.py'
2023-09-25T16:49:40,556   adding 'janis_core/tests/tests_util.py'
2023-09-25T16:49:42,205   adding 'janis_core/tests/data/aln.sam'
2023-09-25T16:49:42,384   adding 'janis_core/tests/data/aln.sorted.bam'
2023-09-25T16:49:42,396   adding 'janis_core/tests/data/aln.sorted.bam.bai'
2023-09-25T16:49:44,076   adding 'janis_core/tests/data/mutant_R1.fastq'
2023-09-25T16:49:44,110   adding 'janis_core/tests/data/test.txt'
2023-09-25T16:49:44,111   adding 'janis_core/tests/data/test_diff.txt'
2023-09-25T16:49:44,219   adding 'janis_core/tests/data/wildtype.fna'
2023-09-25T16:49:44,223   adding 'janis_core/tests/data/cwl/tools/BasicTestTool.cwl'
2023-09-25T16:49:44,225   adding 'janis_core/tests/data/cwl/tools/bwamem.cwl'
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2023-09-25T16:49:44,227   adding 'janis_core/tests/data/cwl/tools/fastqc.cwl'
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2023-09-25T16:49:44,239   adding 'janis_core/tests/data/cwl/tools/samtools_flagstat.cwl'
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2023-09-25T16:49:44,267   adding 'janis_core/tests/data/cwl/tools/requirements/prepare_fasta_db.cwl'
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2023-09-25T16:49:44,273   adding 'janis_core/tests/data/cwl/workflows/expressions.cwl'
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2023-09-25T16:49:44,277   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/CONTRIBUTING.md'
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2023-09-25T16:49:44,281   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/LICENSE'
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2023-09-25T16:49:44,285   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/ro-crate-metadata.json'
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2023-09-25T16:49:44,299   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/workflow-390-9f3832867eab6c7a6363f8ca594a4bcf2ff7e96f-diagram.svg'
2023-09-25T16:49:44,302   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/add_crossmapped2resmapped.cwl'
2023-09-25T16:49:44,304   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/add_domain_num.cwl'
2023-09-25T16:49:44,305   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/align_compute_avg.cwl'
2023-09-25T16:49:44,306   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/check_threshold.cwl'
2023-09-25T16:49:44,308   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/chop_struct2domains.cwl'
2023-09-25T16:49:44,309   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/compare_cath_pfam.cwl'
2023-09-25T16:49:44,311   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/core_avg_subwf.cwl'
2023-09-25T16:49:44,312   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/create_param.cwl'
2023-09-25T16:49:44,313   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/crossmapped_per_unp_dom.cwl'
2023-09-25T16:49:44,315   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/download_data.cwl'
2023-09-25T16:49:44,316   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/filter_align_scores.cwl'
2023-09-25T16:49:44,318   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/gather_lost_resmap.cwl'
2023-09-25T16:49:44,319   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/get_family_ids.cwl'
2023-09-25T16:49:44,320   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/list_true_domains.cwl'
2023-09-25T16:49:44,322   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/map_unique_struct_cath2pfam.cwl'
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2023-09-25T16:49:44,325   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/merge_df2json.cwl'
2023-09-25T16:49:44,326   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/move_files.cwl'
2023-09-25T16:49:44,328   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/other_avg_subwf.cwl'
2023-09-25T16:49:44,329   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/pairwise_aligner.cwl'
2023-09-25T16:49:44,331   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_cath2up.cwl'
2023-09-25T16:49:44,332   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_cath_instances_subwf.cwl'
2023-09-25T16:49:44,334   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/resmapping_pfam2pdb.cwl'
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2023-09-25T16:49:44,337   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/separate_cath.cwl'
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2023-09-25T16:49:44,340   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/unmapped_unp_avg_align.cwl'
2023-09-25T16:49:44,342   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/add_crossmapped2resmapped.py'
2023-09-25T16:49:44,344   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/add_domain_num.py'
2023-09-25T16:49:44,346   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/align_compute_avg.py'
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2023-09-25T16:49:44,349   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/chop_struct2domains.py'
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2023-09-25T16:49:44,352   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/create_param.py'
2023-09-25T16:49:44,353   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/crossmapped_per_unp_dom.py'
2023-09-25T16:49:44,355   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/filter_align_scores.py'
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2023-09-25T16:49:44,362   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/pairwise_aligner.py'
2023-09-25T16:49:44,364   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/residue_mapping.py'
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2023-09-25T16:49:44,366   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/resmapping_pfam2pdb.py'
2023-09-25T16:49:44,368   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/separate_cath.py'
2023-09-25T16:49:44,369   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/Tools/Python/separate_pfam.py'
2023-09-25T16:49:44,371   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/translated/main.nf'
2023-09-25T16:49:44,373   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/yml/CroMaSt_input.yml'
2023-09-25T16:49:44,374   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/yml/download_data.yml'
2023-09-25T16:49:44,376   adding 'janis_core/tests/data/cwl/workflows/CroMaSt/yml/environment.yml'
2023-09-25T16:49:44,378   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows/align.cwl'
2023-09-25T16:49:44,379   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/subworkflows/align_sort_markdup.cwl'
2023-09-25T16:49:44,381   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/align_and_tag.cwl'
2023-09-25T16:49:44,382   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/index_bam.cwl'
2023-09-25T16:49:44,383   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/mark_duplicates_and_sort.cwl'
2023-09-25T16:49:44,384   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/merge_bams_samtools.cwl'
2023-09-25T16:49:44,385   adding 'janis_core/tests/data/cwl/workflows/align_sort_markdup/tools/name_sort.cwl'
2023-09-25T16:49:44,388   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/pipelines/alignment_exome.cwl'
2023-09-25T16:49:44,389   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/align.cwl'
2023-09-25T16:49:44,391   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/align_sort_markdup.cwl'
2023-09-25T16:49:44,392   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/hs_metrics.cwl'
2023-09-25T16:49:44,393   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/qc_exome.cwl'
2023-09-25T16:49:44,395   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/sequence_align_and_tag_adapter.cwl'
2023-09-25T16:49:44,396   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/subworkflows/sequence_to_bqsr.cwl'
2023-09-25T16:49:44,398   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/align_and_tag.cwl'
2023-09-25T16:49:44,399   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/apply_bqsr.cwl'
2023-09-25T16:49:44,400   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/bqsr.cwl'
2023-09-25T16:49:44,401   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_alignment_summary_metrics.cwl'
2023-09-25T16:49:44,402   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_hs_metrics.cwl'
2023-09-25T16:49:44,404   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/collect_insert_size_metrics.cwl'
2023-09-25T16:49:44,405   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/gatk_haplotype_caller.cwl'
2023-09-25T16:49:44,406   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/index_bam.cwl'
2023-09-25T16:49:44,407   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/mark_duplicates_and_sort.cwl'
2023-09-25T16:49:44,408   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/merge_bams.cwl'
2023-09-25T16:49:44,409   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/merge_bams_samtools.cwl'
2023-09-25T16:49:44,411   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/name_sort.cwl'
2023-09-25T16:49:44,412   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/samtools_flagstat.cwl'
2023-09-25T16:49:44,413   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/select_variants.cwl'
2023-09-25T16:49:44,414   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/sequence_align_and_tag.cwl'
2023-09-25T16:49:44,415   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/tools/verify_bam_id.cwl'
2023-09-25T16:49:44,417   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/types/labelled_file.yml'
2023-09-25T16:49:44,418   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/types/sequence_data.yml'
2023-09-25T16:49:44,419   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/types/trimming_options.yml'
2023-09-25T16:49:44,420   adding 'janis_core/tests/data/cwl/workflows/analysis-workflows/types/vep_custom_annotation.yml'
2023-09-25T16:49:44,423   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-output_formats.yaml'
2023-09-25T16:49:44,425   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-strand_values.yaml'
2023-09-25T16:49:44,426   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21.cwl'
2023-09-25T16:49:44,427   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21.test.job.yaml'
2023-09-25T16:49:44,429   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastp-v0.9.21_docker.cwl'
2023-09-25T16:49:44,430   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastx-v0.9.21.cwl'
2023-09-25T16:49:44,431   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.blastx-v0.9.21.test.job.yaml'
2023-09-25T16:49:44,433   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.makedb-v0.9.21.cwl'
2023-09-25T16:49:44,434   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond.makedb-v0.9.21.test.job.yaml'
2023-09-25T16:49:44,435   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond_blastp_test.yml'
2023-09-25T16:49:44,436   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond_blastx_test.yml'
2023-09-25T16:49:44,438   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/diamond-subwf.cwl'
2023-09-25T16:49:44,439   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/diamond-subwf.yml'
2023-09-25T16:49:44,441   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Dockerfile'
2023-09-25T16:49:44,442   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.cwl'
2023-09-25T16:49:44,443   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.job.yaml'
2023-09-25T16:49:44,444   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_join.test.yaml'
2023-09-25T16:49:44,445   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_post_run_join.sh'
2023-09-25T16:49:44,446   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.cwl'
2023-09-25T16:49:44,447   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.job.yaml'
2023-09-25T16:49:44,448   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/diamond_sorting.test.yaml'
2023-09-25T16:49:44,449   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.cwl'
2023-09-25T16:49:44,450   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.job.yml'
2023-09-25T16:49:44,451   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/postprocessing_subwf.test.yml'
2023-09-25T16:49:44,453   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_10'
2023-09-25T16:49:44,454   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_10_sorted'
2023-09-25T16:49:44,456   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/example_diamond_db'
2023-09-25T16:49:44,457   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Diamond/Diamond-Post-Processing/Files/output_example/example_diamond_10_sorted_join'
2023-09-25T16:49:44,459   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggnog-subwf.cwl'
2023-09-25T16:49:44,460   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggnog-subwf.yml'
2023-09-25T16:49:44,462   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/Dockerfile'
2023-09-25T16:49:44,463   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnog.cwl'
2023-09-25T16:49:44,465   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnog.yml'
2023-09-25T16:49:44,470   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/emapper.py'
2023-09-25T16:49:44,472   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/__init__.py'
2023-09-25T16:49:44,474   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/annota.py'
2023-09-25T16:49:44,475   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/annota_mongo.py'
2023-09-25T16:49:44,477   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/common.py'
2023-09-25T16:49:44,479   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/orthology.py'
2023-09-25T16:49:44,481   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/search.py'
2023-09-25T16:49:44,483   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/seqio.py'
2023-09-25T16:49:44,484   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/server.py'
2023-09-25T16:49:44,486   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/utils.py'
2023-09-25T16:49:44,495   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/vars.py'
2023-09-25T16:49:44,497   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/EggNOG/eggNOG/eggnogmapper/version.py'
2023-09-25T16:49:44,499   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/build_assembly_gff.py'
2023-09-25T16:49:44,500   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/gff_generation.cwl'
2023-09-25T16:49:44,501   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/GFF/gff_generation.yml'
2023-09-25T16:49:44,503   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/Dockerfile'
2023-09-25T16:49:44,504   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/genome_properties.cwl'
2023-09-25T16:49:44,505   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/genome_properties.yml'
2023-09-25T16:49:44,506   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/gp_docker.cwl'
2023-09-25T16:49:44,580   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/JSON_test_single_protein.fasta'
2023-09-25T16:49:44,653   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/LONGFORM_REPORT_test_single_protein.fasta'
2023-09-25T16:49:44,661   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/MATCHES_test_single_protein.fasta'
2023-09-25T16:49:44,667   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/SUMMARY_FILE_test_single_protein.fasta'
2023-09-25T16:49:44,706   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/expected-output/TABLE_test_single_protein.fasta'
2023-09-25T16:49:44,712   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Genome_properties/test-input/InterProScan.tsv'
2023-09-25T16:49:44,714   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/make_graphs.py'
2023-09-25T16:49:44,716   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/Dockerfile'
2023-09-25T16:49:44,717   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/help_commands.txt'
2023-09-25T16:49:44,718   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Docker/run_pathways.sh'
2023-09-25T16:49:44,721   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/give_pathways.py'
2023-09-25T16:49:44,722   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/kegg_pathways.cwl'
2023-09-25T16:49:44,723   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/KEGG_pathways/kegg_pathways.yml'
2023-09-25T16:49:44,725   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification/modification_table.cwl'
2023-09-25T16:49:44,726   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Modification/modification_table.yml'
2023-09-25T16:49:44,728   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.cwl'
2023-09-25T16:49:44,729   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.py'
2023-09-25T16:49:44,730   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/Parsing_hmmscan/parsing_hmmscan.yml'
2023-09-25T16:49:44,732   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output/assembly-SRR1620013_small_FASTA_FASTA.summary.kegg_contigs.tsv'
2023-09-25T16:49:44,733   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/KEGG_analysis/expected-output/assembly-SRR1620013_small_FASTA_FASTA.summary.kegg_pathways'
2023-09-25T16:49:44,735   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/Viral/Dockerfile'
2023-09-25T16:49:44,737   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash_chunking_subwf.cwl'
2023-09-25T16:49:44,738   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash_subwf.cwl'
2023-09-25T16:49:44,740   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/filtering_fasta_for_antismash.cwl'
2023-09-25T16:49:44,741   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/no_antismash_subwf.cwl'
2023-09-25T16:49:44,742   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/wf_antismash.cwl'
2023-09-25T16:49:44,744   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/antismash_v4.cwl'
2023-09-25T16:49:44,745   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/antismash_v4.yml'
2023-09-25T16:49:44,746   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/antismash/run_antismash_short.sh'
2023-09-25T16:49:44,748   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value/check_value.cwl'
2023-09-25T16:49:44,749   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/check_value/check_value.yml'
2023-09-25T16:49:44,751   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_antismash_output.py'
2023-09-25T16:49:44,752   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_output.cwl'
2023-09-25T16:49:44,753   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_embl_gbk/change_output.yml'
2023-09-25T16:49:44,755   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt/change_geneclusters_ctg.py'
2023-09-25T16:49:44,756   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/fix_geneclusters_txt/change_geneclusters_txt.cwl'
2023-09-25T16:49:44,758   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.cwl'
2023-09-25T16:49:44,760   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.py'
2023-09-25T16:49:44,762   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/gff_antismash/antismash_to_gff.yml'
2023-09-25T16:49:44,763   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash/reformat_antismash.cwl'
2023-09-25T16:49:44,765   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/post-processing/reformat_antismash/reformat_antismash.py'
2023-09-25T16:49:44,766   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/antismash_rename_contigs.py'
2023-09-25T16:49:44,767   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/rename_contigs.cwl'
2023-09-25T16:49:44,768   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/rename_contigs/rename_contigs.yml'
2023-09-25T16:49:44,770   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/empty.fasta'
2023-09-25T16:49:45,200   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test-1-contig.embl'
2023-09-25T16:49:45,210   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test-1-contig.table'
2023-09-25T16:49:45,211   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.2.fasta'
2023-09-25T16:49:45,214   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.fasta'
2023-09-25T16:49:45,215   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-input/test.fasta.1'
2023-09-25T16:49:45,646   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output/output-contig-1.embl'
2023-09-25T16:49:46,092   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/test-output/output-contig-1.gbk'
2023-09-25T16:49:46,102   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/config'
2023-09-25T16:49:46,104   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/main.nf'
2023-09-25T16:49:46,109   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/FGS.nf'
2023-09-25T16:49:46,110   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/QC_FLAG.nf'
2023-09-25T16:49:46,111   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_crossmapped_to_resmapped.nf'
2023-09-25T16:49:46,112   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_domain_positions.nf'
2023-09-25T16:49:46,113   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/add_island_names.nf'
2023-09-25T16:49:46,115   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/align_avg_structs_pairwise.nf'
2023-09-25T16:49:46,116   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/assign_genes.nf'
2023-09-25T16:49:46,117   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_averaged_structures.nf'
2023-09-25T16:49:46,118   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_averaged_unp_domains.nf'
2023-09-25T16:49:46,119   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_chopped_structs_unp_domains.nf'
2023-09-25T16:49:46,120   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/avg_chopped_structures_unp_domains.nf'
2023-09-25T16:49:46,121   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bam_index.nf'
2023-09-25T16:49:46,122   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bed_to_bigbed.nf'
2023-09-25T16:49:46,124   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bed_to_macs.nf'
2023-09-25T16:49:46,125   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bundle_secondaries.nf'
2023-09-25T16:49:46,126   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/bwa_index.nf'
2023-09-25T16:49:46,127   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/carveme.nf'
2023-09-25T16:49:46,128   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/carveme_files_to_folder.nf'
2023-09-25T16:49:46,129   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cat.nf'
2023-09-25T16:49:46,131   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cat_models.nf'
2023-09-25T16:49:46,132   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/check_alignment_scores.nf'
2023-09-25T16:49:46,133   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/check_threshold_step.nf'
2023-09-25T16:49:46,134   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_SC_fasta_nucleotide.nf'
2023-09-25T16:49:46,135   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_fasta_nucleotide.nf'
2023-09-25T16:49:46,137   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chinking_fasta_proteins.nf'
2023-09-25T16:49:46,138   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chop_structs.nf'
2023-09-25T16:49:46,139   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/chunking_tsv.nf'
2023-09-25T16:49:46,140   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/classifications_to_otu_counts.nf'
2023-09-25T16:49:46,141   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/clean_classification.nf'
2023-09-25T16:49:46,143   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/clean_fasta_headers.nf'
2023-09-25T16:49:46,144   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/cmsearch.nf'
2023-09-25T16:49:46,145   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/collect_lost_instances.nf'
2023-09-25T16:49:46,146   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine.nf'
2023-09-25T16:49:46,147   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine_ips.nf'
2023-09-25T16:49:46,148   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/combine_trimmed.nf'
2023-09-25T16:49:46,149   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compare_instances_CATH_Pfam.nf'
2023-09-25T16:49:46,150   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress.nf'
2023-09-25T16:49:46,152   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_carveme.nf'
2023-09-25T16:49:46,153   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_mapseq.nf'
2023-09-25T16:49:46,154   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compress_prodigal.nf'
2023-09-25T16:49:46,155   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/compression.nf'
2023-09-25T16:49:46,156   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/conversion.nf'
2023-09-25T16:49:46,157   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/convert_trimmed_reads_to_fasta.nf'
2023-09-25T16:49:46,159   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/copy_avg_dom.nf'
2023-09-25T16:49:46,160   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_ITS_seqs.nf'
2023-09-25T16:49:46,161   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_cds.nf'
2023-09-25T16:49:46,162   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_lines_mapseq.nf'
2023-09-25T16:49:46,163   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_lsu_fasta.nf'
2023-09-25T16:49:46,165   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_masked_fasta.nf'
2023-09-25T16:49:46,166   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_overlapped_reads.nf'
2023-09-25T16:49:46,167   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_processed_reads.nf'
2023-09-25T16:49:46,168   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_ssu_fasta.nf'
2023-09-25T16:49:46,169   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_submitted_reads.nf'
2023-09-25T16:49:46,170   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/count_submitted_reads_single.nf'
2023-09-25T16:49:46,171   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/counts_to_hdf5.nf'
2023-09-25T16:49:46,173   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/counts_to_json.nf'
2023-09-25T16:49:46,174   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/create_new_parameters.nf'
2023-09-25T16:49:46,175   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/crossmapping_CATH2Pfam.nf'
2023-09-25T16:49:46,176   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/crossmapping_Pfam2CATH.nf'
2023-09-25T16:49:46,177   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/expressiontool_bam_index.nf'
2023-09-25T16:49:46,178   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_coords.nf'
2023-09-25T16:49:46,180   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_sequences.nf'
2023-09-25T16:49:46,181   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_subunits.nf'
2023-09-25T16:49:46,182   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/extract_subunits_coords.nf'
2023-09-25T16:49:46,183   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/fastqc.nf'
2023-09-25T16:49:46,184   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/fastqc_files_to_folder.nf'
2023-09-25T16:49:46,186   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_cath_structures.nf'
2023-09-25T16:49:46,187   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_paired.nf'
2023-09-25T16:49:46,188   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/filter_pfam_structures.nf'
2023-09-25T16:49:46,189   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/folder_compression.nf'
2023-09-25T16:49:46,190   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/format_core_list.nf'
2023-09-25T16:49:46,192   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/functional_stats.nf'
2023-09-25T16:49:46,193   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gather_domain_like.nf'
2023-09-25T16:49:46,194   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gather_failed_domains.nf'
2023-09-25T16:49:46,195   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gatk_selectvariants_manta.nf'
2023-09-25T16:49:46,196   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gemstats.nf'
2023-09-25T16:49:46,197   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_coords.nf'
2023-09-25T16:49:46,198   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_family_ids.nf'
2023-09-25T16:49:46,200   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/get_ncrnas.nf'
2023-09-25T16:49:46,201   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/go_summary.nf'
2023-09-25T16:49:46,202   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip.nf'
2023-09-25T16:49:46,203   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_LSU.nf'
2023-09-25T16:49:46,204   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_SSU.nf'
2023-09-25T16:49:46,205   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_files.nf'
2023-09-25T16:49:46,206   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/gzip_masked_ITS.nf'
2023-09-25T16:49:46,208   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hashsum_paired.nf'
2023-09-25T16:49:46,209   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hashsum_single.nf'
2023-09-25T16:49:46,210   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/header_addition.nf'
2023-09-25T16:49:46,211   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/hmmsearch.nf'
2023-09-25T16:49:46,212   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/index_reads.nf'
2023-09-25T16:49:46,214   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/index_strelka_bed.nf'
2023-09-25T16:49:46,215   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/interproscan.nf'
2023-09-25T16:49:46,216   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/kofamscan.nf'
2023-09-25T16:49:46,217   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/length_filter.nf'
2023-09-25T16:49:46,218   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/make_gff.nf'
2023-09-25T16:49:46,220   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/make_tab_sep.nf'
2023-09-25T16:49:46,221   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/manta.nf'
2023-09-25T16:49:46,222   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/mapseq.nf'
2023-09-25T16:49:46,223   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/mask_for_ITS.nf'
2023-09-25T16:49:46,224   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_files_to_folder.nf'
2023-09-25T16:49:46,225   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_report_snapshot.nf'
2023-09-25T16:49:46,227   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/memote_run.nf'
2023-09-25T16:49:46,228   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/motus_classification.nf'
2023-09-25T16:49:46,229   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/move_to_functional_annotation_folder.nf'
2023-09-25T16:49:46,230   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/move_to_seq_cat_folder.nf'
2023-09-25T16:49:46,232   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax.nf'
2023-09-25T16:49:46,233   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax_files_to_folder.nf'
2023-09-25T16:49:46,234   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/ngtax_to_tsv_fasta.nf'
2023-09-25T16:49:46,235   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/no_tax_file_flag.nf'
2023-09-25T16:49:46,236   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/overlap_reads.nf'
2023-09-25T16:49:46,238   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pairwise_align_avg_structs.nf'
2023-09-25T16:49:46,239   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/per_dom_instance.nf'
2023-09-25T16:49:46,240   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/per_unp_dom_instance.nf'
2023-09-25T16:49:46,241   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pfam.nf'
2023-09-25T16:49:46,242   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/phyloseq_files_to_folder.nf'
2023-09-25T16:49:46,244   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picard_create_sequence_dictionary.nf'
2023-09-25T16:49:46,245   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picrust2.nf'
2023-09-25T16:49:46,246   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/picrust_files_to_folder.nf'
2023-09-25T16:49:46,247   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/pilon.nf'
2023-09-25T16:49:46,248   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/post_processing.nf'
2023-09-25T16:49:46,249   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/prodigal.nf'
2023-09-25T16:49:46,250   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/prodigal_files_to_folder.nf'
2023-09-25T16:49:46,252   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/qc_stats.nf'
2023-09-25T16:49:46,253   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/readmapping_pilon.nf'
2023-09-25T16:49:46,254   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reads_to_folder.nf'
2023-09-25T16:49:46,255   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reduce_bed.nf'
2023-09-25T16:49:46,256   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/reformat_coords.nf'
2023-09-25T16:49:46,257   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/remove_overlaps.nf'
2023-09-25T16:49:46,259   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_manta_samples.nf'
2023-09-25T16:49:46,260   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_ncrnas.nf'
2023-09-25T16:49:46,261   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/rename_png.nf'
2023-09-25T16:49:46,262   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/resmapping_for_CATH_PDB2UP.nf'
2023-09-25T16:49:46,263   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/resmapping_for_Pfam_UP2PDB.nf'
2023-09-25T16:49:46,264   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_its_dir.nf'
2023-09-25T16:49:46,266   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_output_dir.nf'
2023-09-25T16:49:46,267   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_seq_dir.nf'
2023-09-25T16:49:46,268   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/return_tax_dir.nf'
2023-09-25T16:49:46,269   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_concatenate_deoverlapped_matches.nf'
2023-09-25T16:49:46,270   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_concatenate_matches.nf'
2023-09-25T16:49:46,271   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_quality_control_filtering.nf'
2023-09-25T16:49:46,273   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/run_rose.nf'
2023-09-25T16:49:46,274   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/sam_to_sorted_bam.nf'
2023-09-25T16:49:46,275   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/samtools_faidx.nf'
2023-09-25T16:49:46,276   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/smetana.nf'
2023-09-25T16:49:46,277   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/sort_bed.nf'
2023-09-25T16:49:46,279   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/split_fasta.nf'
2023-09-25T16:49:46,280   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/split_seqs.nf'
2023-09-25T16:49:46,281   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/suppress_tax.nf'
2023-09-25T16:49:46,282   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/tohdt.nf'
2023-09-25T16:49:46,283   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_empty_fasta.nf'
2023-09-25T16:49:46,285   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_file_flag.nf'
2023-09-25T16:49:46,286   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/touch_no_cds_flag.nf'
2023-09-25T16:49:46,287   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/trim_quality_control.nf'
2023-09-25T16:49:46,288   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/unzip_merged_reads.nf'
2023-09-25T16:49:46,289   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/unzip_single_reads.nf'
2023-09-25T16:49:46,291   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/vcf_compress.nf'
2023-09-25T16:49:46,292   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/visualize_otu_counts.nf'
2023-09-25T16:49:46,293   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/modules/write_summaries.nf'
2023-09-25T16:49:46,296   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/ITS.nf'
2023-09-25T16:49:46,297   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/after_qc.nf'
2023-09-25T16:49:46,299   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/avg_unp_domains.nf'
2023-09-25T16:49:46,300   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/before_qc.nf'
2023-09-25T16:49:46,301   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cath_domain_instances.nf'
2023-09-25T16:49:46,302   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cgc.nf'
2023-09-25T16:49:46,303   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_CATH2Pfam.nf'
2023-09-25T16:49:46,305   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_Pfam2CATH.nf'
2023-09-25T16:49:46,306   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_for_core.nf'
2023-09-25T16:49:46,307   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chop_and_avg_from_list.nf'
2023-09-25T16:49:46,308   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/chunking_final.nf'
2023-09-25T16:49:46,310   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/classify_LSUs.nf'
2023-09-25T16:49:46,311   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/classify_SSUs.nf'
2023-09-25T16:49:46,312   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cmsearch_assembly.nf'
2023-09-25T16:49:46,313   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/cmsearch_raw_data.nf'
2023-09-25T16:49:46,315   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/combined_gene_caller.nf'
2023-09-25T16:49:46,316   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/find_ribosomal_ncRNAs.nf'
2023-09-25T16:49:46,317   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/functional_annotation.nf'
2023-09-25T16:49:46,318   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/functional_annotation_and_post_processing.nf'
2023-09-25T16:49:46,320   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/motus_taxonomy.nf'
2023-09-25T16:49:46,321   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/other_ncrnas.nf'
2023-09-25T16:49:46,322   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/overlap_reads.nf'
2023-09-25T16:49:46,323   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/pfam_domain_instances.nf'
2023-09-25T16:49:46,324   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/prepare_reference.nf'
2023-09-25T16:49:46,325   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/resmapping_cath_structs.nf'
2023-09-25T16:49:46,326   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/resmapping_pfam_structs.nf'
2023-09-25T16:49:46,328   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/rna_prediction.nf'
2023-09-25T16:49:46,329   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_IPS.nf'
2023-09-25T16:49:46,330   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_hmmer.nf'
2023-09-25T16:49:46,331   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_itsonedb.nf'
2023-09-25T16:49:46,333   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_manta.nf'
2023-09-25T16:49:46,334   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/run_unite.nf'
2023-09-25T16:49:46,335   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/trimming.nf'
2023-09-25T16:49:46,336   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/unmapped_from_cath.nf'
2023-09-25T16:49:46,337   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/unmapped_from_pfam.nf'
2023-09-25T16:49:46,339   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/translated/subworkflows/write_summaries.nf'
2023-09-25T16:49:46,340   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/antismash_chunking_subwf.yml'
2023-09-25T16:49:46,342   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/antismash_subwf.yml'
2023-09-25T16:49:46,343   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/no_antismash_subwf.yml'
2023-09-25T16:49:46,344   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/chunking_antismash_with_conditionals/ymls/wf_antismash.yml'
2023-09-25T16:49:46,346   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.cwl'
2023-09-25T16:49:46,347   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/antismash/move_antismash_summary/move_antismash_summary.py'
2023-09-25T16:49:46,349   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/fasta_index.cwl'
2023-09-25T16:49:46,350   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/fasta_index.yml'
2023-09-25T16:49:46,351   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/run_samtools.sh'
2023-09-25T16:49:46,353   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Assembly/index_fasta/test-input/test.fasta'
2023-09-25T16:49:46,355   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/FGS.cwl'
2023-09-25T16:49:46,356   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/FGS.yml'
2023-09-25T16:49:46,358   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/faselector'
2023-09-25T16:49:46,360   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/post-processing.cwl'
2023-09-25T16:49:46,361   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_assemblies.cwl'
2023-09-25T16:49:46,362   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_assemblies.yml'
2023-09-25T16:49:46,363   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/predict_proteins_reads.cwl'
2023-09-25T16:49:46,364   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/prodigal.cwl'
2023-09-25T16:49:46,365   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/run_FGS.sh'
2023-09-25T16:49:46,368   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/unite_protein_predictions.py'
2023-09-25T16:49:46,369   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/Dockerfile'
2023-09-25T16:49:46,371   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.cwl'
2023-09-25T16:49:46,373   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.py'
2023-09-25T16:49:46,375   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller.yml'
2023-09-25T16:49:46,376   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller_conf.json'
2023-09-25T16:49:46,378   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/CGC/combined_gene_caller_docker.py'
2023-09-25T16:49:55,621   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta'
2023-09-25T16:49:56,743   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.fgs.faa'
2023-09-25T16:50:04,966   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.fgs.ffn'
2023-09-25T16:50:05,117   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal'
2023-09-25T16:50:05,176   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal.faa'
2023-09-25T16:50:05,614   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/100000_130095.fasta.prodigal.ffn'
2023-09-25T16:50:05,735   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Combined_gene_caller/files/ERR3414571_FASTA.cmsearch.all.tblout.deoverlapped'
2023-09-25T16:50:05,745   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/Dockerfile'
2023-09-25T16:50:07,991   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go-basic-metagenomics_release_20160705.obo'
2023-09-25T16:50:10,501   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go-basic-metagenomics_release_20160705.txt'
2023-09-25T16:50:10,805   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary-config.json'
2023-09-25T16:50:10,810   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary.cwl'
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2023-09-25T16:50:11,025   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/go_summary_pipeline-1.0.py'
2023-09-25T16:50:11,028   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/metagenomics_go_slim_banding.txt'
2023-09-25T16:50:11,030   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/metagenomics_go_slim_ids.txt'
2023-09-25T16:50:11,032   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output/test'
2023-09-25T16:50:11,033   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/expected-output/test_slim'
2023-09-25T16:50:11,035   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools'
2023-09-25T16:50:14,746   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools-runner-all.jar'
2023-09-25T16:50:15,018   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/owltools/owltools.vmoptions'
2023-09-25T16:50:15,022   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/GO-slim/test-input/ips_out.tsv'
2023-09-25T16:50:15,024   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-apps.yaml'
2023-09-25T16:50:15,025   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-protein_formats.yaml'
2023-09-25T16:50:15,027   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5-none_docker.cwl'
2023-09-25T16:50:15,028   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5.cwl'
2023-09-25T16:50:15,030   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/InterProScan/InterProScan-v5.test.job.yaml'
2023-09-25T16:50:15,031   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/pfam_annotations.cwl'
2023-09-25T16:50:15,032   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/pfam_annotations.yml'
2023-09-25T16:50:15,034   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/expected_output/testfile.annotations.pfam'
2023-09-25T16:50:15,036   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Pfam-Parse/test-input/testfile.tsv'
2023-09-25T16:50:15,039   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/Dockerfile'
2023-09-25T16:50:15,040   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert-table.yaml'
2023-09-25T16:50:15,041   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert-test.job-input.yml'
2023-09-25T16:50:15,042   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert.cwl'
2023-09-25T16:50:15,044   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert.sh'
2023-09-25T16:50:15,046   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/biom-convert_test.yml'
2023-09-25T16:50:15,047   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.cwl'
2023-09-25T16:50:15,049   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.sh'
2023-09-25T16:50:15,050   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/empty_tax.yml'
2023-09-25T16:50:15,053   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.hdf5'
2023-09-25T16:50:15,055   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.json'
2023-09-25T16:50:15,057   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/biom-convert/test-mapseq.tsv'
2023-09-25T16:50:15,081   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.html'
2023-09-25T16:50:15,084   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.mseq.tsv'
2023-09-25T16:50:15,085   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty.txt'
2023-09-25T16:50:15,086   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/expected_output/empty_tax/empty_json.biom'
2023-09-25T16:50:15,087   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.fasta'
2023-09-25T16:50:15,110   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.html'
2023-09-25T16:50:15,113   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.mseq.tsv'
2023-09-25T16:50:15,114   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU.txt'
2023-09-25T16:50:15,115   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/LSU_json.biom'
2023-09-25T16:50:15,117   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/biom-convert/input/test-mapseq.tsv'
2023-09-25T16:50:15,119   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/infernal-cmsearch-v1.1.2.cwl'
2023-09-25T16:50:15,120   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/infernal-cmsearch.test.job.yaml'
2023-09-25T16:50:15,122   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/expected_output/mrum-genome.fa.cmsearch_matches.tbl'
2023-09-25T16:50:16,664   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/mrum-genome.fa'
2023-09-25T16:50:16,696   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/mt-tmRNA.cm'
2023-09-25T16:50:16,702   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch/test-input/tRNA5.c.cm'
2023-09-25T16:50:16,704   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap-v0.02.cwl'
2023-09-25T16:50:16,706   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap-v0.02.test.job.yaml'
2023-09-25T16:50:16,708   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/cmsearch-deoverlap.pl'
2023-09-25T16:50:16,715   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/expected_output/1.cmsearch.tblout.deoverlapped'
2023-09-25T16:50:16,733   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input/1.cmsearch.tblout'
2023-09-25T16:50:16,735   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/cmsearch-deoverlap/test-input/ribo.claninfo'
2023-09-25T16:50:16,737   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-index.sh'
2023-09-25T16:50:16,738   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-index-test.yml'
2023-09-25T16:50:16,739   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-index.cwl'
2023-09-25T16:50:16,740   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-manyseqs-test.yml'
2023-09-25T16:50:16,742   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/esl-sfetch-manyseqs.cwl'
2023-09-25T16:50:16,744   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test-cmsearch_matched_seqs_with_coords.fasta'
2023-09-25T16:50:16,746   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test.fasta'
2023-09-25T16:50:16,747   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/expected-output/test.fasta.ssi'
2023-09-25T16:50:16,748   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/matched_seqs_with_coords'
2023-09-25T16:50:16,749   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/test-cmsearch.fasta'
2023-09-25T16:50:16,751   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/easel/test-input/test.fasta'
2023-09-25T16:50:16,753   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/awk_tool'
2023-09-25T16:50:16,754   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/extract-coords_awk.cwl'
2023-09-25T16:50:16,755   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/extract-coords_awk.yml'
2023-09-25T16:50:16,757   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/expected-output/matched_seqs_with_coords'
2023-09-25T16:50:16,758   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/extract-coords/test-input/test-cmsearch.txt'
2023-09-25T16:50:16,760   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.cwl'
2023-09-25T16:50:16,762   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.py'
2023-09-25T16:50:16,763   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/get_subunits_coords.yml'
2023-09-25T16:50:16,764   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/5s'
2023-09-25T16:50:16,766   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/LSUs'
2023-09-25T16:50:16,767   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/expected-output/SSUs'
2023-09-25T16:50:16,768   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_coords/test-input/matched_seqs_with_coords'
2023-09-25T16:50:16,770   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.cwl'
2023-09-25T16:50:16,771   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.py'
2023-09-25T16:50:16,773   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/get_subunits.yml'
2023-09-25T16:50:16,775   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-input/test.get_subunits'
2023-09-25T16:50:16,776   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/5S.fasta'
2023-09-25T16:50:16,777   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/LSU.fasta'
2023-09-25T16:50:16,779   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/SSU.fasta'
2023-09-25T16:50:16,780   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/prefix_LSU_rRNA_bacteria.RF02541.fa'
2023-09-25T16:50:16,781   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/get_subunits_fasta/expected-output/prefix_SSU_rRNA_bacteria.RF00177.fa'
2023-09-25T16:50:16,783   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/Dockerfile'
2023-09-25T16:50:16,785   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/krona-test.yml'
2023-09-25T16:50:16,786   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/krona.cwl'
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2023-09-25T16:50:16,814   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/krona/test-input/test.tsv'
2023-09-25T16:50:16,816   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq/Dockerfile'
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2023-09-25T16:50:16,820   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/Dockerfile'
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2023-09-25T16:50:16,822   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom.cwl'
2023-09-25T16:50:16,824   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/mapseq2biom.pl'
2023-09-25T16:50:16,825   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output/test-mapseq.tsv'
2023-09-25T16:50:16,827   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/mapseq2biom/expected-output/test.txt'
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2023-09-25T16:50:16,850   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/RNA_prediction/pull_ncrnas/expected-output/cyano_tmRNA'
2023-09-25T16:50:16,853   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/clean_motus_output.cwl'
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2023-09-25T16:50:16,978   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/expected-output/classifications.motus.biom'
2023-09-25T16:50:23,660   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Raw_reads/mOTUs/test-input/unpaired.fq'
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2023-09-25T16:50:23,864   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic.sh'
2023-09-25T16:50:23,866   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/trimmomatic_help.txt'
2023-09-25T16:50:24,672   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_left_ok.fq.trimmed.fastq'
2023-09-25T16:50:24,698   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_left_ok.fq.trimmed.unpaired.fastq'
2023-09-25T16:50:25,493   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_right_ok.fq.trimmed.fastq'
2023-09-25T16:50:25,518   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/Trimmomatic/expected_output/A1_right_ok.fq.trimmed.unpaired.fastq'
2023-09-25T16:50:25,520   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/protein_chunker.cwl'
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2023-09-25T16:50:25,526   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/Dockerfile'
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2023-09-25T16:50:25,531   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/dna_chunker/fasta_chunker.cwl'
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2023-09-25T16:50:25,583   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/chunks/test-input/empty.fasta'
2023-09-25T16:50:25,584   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/Dockerfile'
2023-09-25T16:50:25,586   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmsearch.cwl'
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2023-09-25T16:50:25,664   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/hmmscan_tab_modification.cwl'
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2023-09-25T16:50:25,667   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/hmmer/hmmscan_tab_modification/expected-output/hmmscan_result.tsv'
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2023-09-25T16:50:25,709   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/GC-distribution.out.full_pcbin'
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2023-09-25T16:50:25,712   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full'
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2023-09-25T16:50:25,714   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/expected-output/qc-statistics/seq-length.out.full_pcbin'
2023-09-25T16:50:25,716   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/tools/qc-stats/test-inputs/test.fasta'
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2023-09-25T16:50:25,727   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/clean_fasta_headers.cwl'
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2023-09-25T16:50:25,733   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastp.cwl'
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2023-09-25T16:50:25,738   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/qc-flag.cwl'
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2023-09-25T16:50:25,753   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/empty-fasta/empty_fasta.cwl'
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2023-09-25T16:50:25,756   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker/test_01_b_test_01_b.fasta'
2023-09-25T16:50:25,757   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/expected_outputs/fasta_chunker/test_02_test_02.fasta'
2023-09-25T16:50:25,758   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fasta_chunker/fasta_chunker.cwl'
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2023-09-25T16:50:25,763   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.cwl'
2023-09-25T16:50:25,764   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.cwltest.yml'
2023-09-25T16:50:25,765   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.py'
2023-09-25T16:50:25,766   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/fastq_to_fasta/fastq_to_fasta.test.job-input.yaml'
2023-09-25T16:50:25,768   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum/generate_checksum.cwl'
2023-09-25T16:50:25,769   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/generate_checksum/generate_checksum.py'
2023-09-25T16:50:25,771   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab.py'
2023-09-25T16:50:25,772   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab_modification.cwl'
2023-09-25T16:50:25,773   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/hmmscan_tab_modification.yml'
2023-09-25T16:50:25,775   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/expected-output/hmmscan_result.tsv'
2023-09-25T16:50:25,778   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/hmmscan_tab_modification/test-input/hmmscan_result.tbl'
2023-09-25T16:50:25,780   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/make_csv.cwl'
2023-09-25T16:50:25,781   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/make_csv.py'
2023-09-25T16:50:25,782   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/output'
2023-09-25T16:50:25,784   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/make_csv/test.txt'
2023-09-25T16:50:25,785   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/pigz/gzip.cwl'
2023-09-25T16:50:25,787   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/__init__.py'
2023-09-25T16:50:25,789   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/chunkFastaResultFileUtil.py'
2023-09-25T16:50:25,790   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/chunkTSVFileUtil.py'
2023-09-25T16:50:25,792   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/cleaningUtils.py'
2023-09-25T16:50:25,794   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/result_chunker.cwl'
2023-09-25T16:50:25,795   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/result-file-chunker/run_result_file_chunker.py'
2023-09-25T16:50:25,797   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs/test_seqs.fasta'
2023-09-25T16:50:25,798   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/utils/test-inputs/test_seqs.fq'
2023-09-25T16:50:25,801   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/amplicon-wf--v.5-cond.cwl'
2023-09-25T16:50:25,803   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/assembly-wf--v.5-cond.cwl'
2023-09-25T16:50:25,804   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/raw-reads-wf--v.5-cond.cwl'
2023-09-25T16:50:25,806   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/README'
2023-09-25T16:50:25,808   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/out_json_parser.py'
2023-09-25T16:50:25,810   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon/amplicon-1.cwl'
2023-09-25T16:50:25,811   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/amplicon/amplicon-2.cwl'
2023-09-25T16:50:25,813   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly/assembly-1.cwl'
2023-09-25T16:50:25,815   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/assembly/assembly-2.cwl'
2023-09-25T16:50:25,817   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads/raw-reads-1.cwl'
2023-09-25T16:50:25,818   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/conditionals/raw-reads/raw-reads-2.cwl'
2023-09-25T16:50:25,820   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling/profiling_parser.py'
2023-09-25T16:50:25,821   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/profiling/run_profiling.sh'
2023-09-25T16:50:25,823   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/chunking-subwf-IPS.cwl'
2023-09-25T16:50:25,824   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/chunking-subwf-hmmsearch.cwl'
2023-09-25T16:50:25,826   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/classify-otu-visualise.cwl'
2023-09-25T16:50:25,827   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/cmsearch-condition.cwl'
2023-09-25T16:50:25,828   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/cmsearch-multimodel-raw-data.cwl'
2023-09-25T16:50:25,830   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/final_chunking.cwl'
2023-09-25T16:50:25,831   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/func_summaries.cwl'
2023-09-25T16:50:25,832   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/other_ncrnas.cwl'
2023-09-25T16:50:25,834   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/rna_prediction-sub-wf.cwl'
2023-09-25T16:50:25,835   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/seqprep-subwf.cwl'
2023-09-25T16:50:25,837   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/ITS-wf.cwl'
2023-09-25T16:50:25,838   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/trim_and_reformat_reads.cwl'
2023-09-25T16:50:25,840   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/amplicon/trimming-not-empty-subwf.cwl'
2023-09-25T16:50:25,842   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/CGC-subwf.cwl'
2023-09-25T16:50:25,843   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/change_formats_and_names.cwl'
2023-09-25T16:50:25,844   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/cmsearch-multimodel-assembly.cwl'
2023-09-25T16:50:25,846   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/deal_with_functional_annotation.cwl'
2023-09-25T16:50:25,847   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/func_ann_and_post_processing-subwf.cwl'
2023-09-25T16:50:25,849   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/functional_annotation.cwl'
2023-09-25T16:50:25,850   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/functional_annotation.yml'
2023-09-25T16:50:25,851   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/kegg_analysis.cwl'
2023-09-25T16:50:25,852   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/assembly/kegg_analysis.yml'
2023-09-25T16:50:25,854   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/CGC-subwf.cwl'
2023-09-25T16:50:25,856   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/func_ann_and_post_proccessing-subwf.cwl'
2023-09-25T16:50:25,857   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/functional_annotation_raw.cwl'
2023-09-25T16:50:25,858   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/subworkflows/raw_reads/mOTUs-workflow.cwl'
2023-09-25T16:50:25,860   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/amplicon-wf--v.5-cond.yml'
2023-09-25T16:50:25,862   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/assembly-pipeline-v.5.yml'
2023-09-25T16:50:25,863   adding 'janis_core/tests/data/cwl/workflows/ebi-metagenomics/workflows/ymls/raw-reads--v.5-cond.yml'
2023-09-25T16:50:25,868   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/README.md'
2023-09-25T16:50:25,873   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/kfdrc_production_somatic_variant_cnv_wf.cwl'
2023-09-25T16:50:25,874   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/samtools_cram2bam_plus_calmd.cwl'
2023-09-25T16:50:25,876   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec.cwl'
2023-09-25T16:50:25,877   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec_R.cwl'
2023-09-25T16:50:25,879   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/control_freec_visualize.cwl'
2023-09-25T16:50:25,880   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec11.5_built-in_config/gen_controlfreec_configfile.cwl'
2023-09-25T16:50:25,882   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec.cwl'
2023-09-25T16:50:25,883   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec_R.cwl'
2023-09-25T16:50:25,884   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/depcrecated/controlFreec8.7/control_freec_visualize.cwl'
2023-09-25T16:50:25,886   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/build_strelka2_mnp.py'
2023-09-25T16:50:25,888   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/cnv_using_subwf_test.cwl'
2023-09-25T16:50:25,889   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/custom_split.py'
2023-09-25T16:50:25,891   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/delme_pbta_temp_vcftomaf.cwl'
2023-09-25T16:50:25,892   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/delme_tcga_temp_vcftomaf.cwl'
2023-09-25T16:50:25,893   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gatk_intervallisttool.cwl'
2023-09-25T16:50:25,894   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gatk_sortvcf.cwl'
2023-09-25T16:50:25,896   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/gen_germline_controlfreec_config.cwl'
2023-09-25T16:50:25,897   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/lancet.cwl'
2023-09-25T16:50:25,898   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/output_vcf_pick.py'
2023-09-25T16:50:25,899   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/quick_split_bed.cwl'
2023-09-25T16:50:25,900   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/samtools_index.cwl'
2023-09-25T16:50:25,902   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/temp_rerun_vcf2maf.cwl'
2023-09-25T16:50:25,903   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/dev/vardictjava.cwl'
2023-09-25T16:50:25,905   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/add_strelka2_fields.py'
2023-09-25T16:50:25,908   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/consensus_merge.py'
2023-09-25T16:50:25,911   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/hotspot.py'
2023-09-25T16:50:25,920   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/kf_mskcc_vcf2maf_1.6.21.pl'
2023-09-25T16:50:25,926   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_cveto_util.py'
2023-09-25T16:50:25,929   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv.py'
2023-09-25T16:50:25,931   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv_methods.py'
2023-09-25T16:50:25,933   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/scripts/sbg_multicnv_visualisations.py'
2023-09-25T16:50:25,935   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_cnvkit_sub_wf.cwl'
2023-09-25T16:50:25,937   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_controlfreec_sub_wf.cwl'
2023-09-25T16:50:25,940   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_gatk_cnv_somatic_pair_wf.cwl'
2023-09-25T16:50:25,942   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_lancet_sub_wf.cwl'
2023-09-25T16:50:25,943   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_manta_sub_wf.cwl'
2023-09-25T16:50:25,945   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_mutect2_filter_support_subwf.cwl'
2023-09-25T16:50:25,946   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_mutect2_sub_wf.cwl'
2023-09-25T16:50:25,948   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_run_theta2_sub_wf.cwl'
2023-09-25T16:50:25,950   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_strelka2_sub_wf.cwl'
2023-09-25T16:50:25,951   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/kfdrc_vardict_sub_wf.cwl'
2023-09-25T16:50:25,953   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/sub_workflows/prepare_reference.cwl'
2023-09-25T16:50:25,956   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/aa_classifier.cwl'
2023-09-25T16:50:25,958   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/add_basename.cwl'
2023-09-25T16:50:25,959   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/add_strelka2_fields.cwl'
2023-09-25T16:50:25,960   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/amplicon_architect.cwl'
2023-09-25T16:50:25,962   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/annotsv.cwl'
2023-09-25T16:50:25,963   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/awk_min_seg_length.cwl'
2023-09-25T16:50:25,964   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_filter_vardict_somatic.cwl'
2023-09-25T16:50:25,965   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_normalize_vcf.cwl'
2023-09-25T16:50:25,967   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcbio_variant_recall_ensemble.cwl'
2023-09-25T16:50:25,968   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_annotate.cwl'
2023-09-25T16:50:25,969   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_filter_vcf.cwl'
2023-09-25T16:50:25,970   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_reheader_vcf.cwl'
2023-09-25T16:50:25,971   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bcftools_strip_ann.cwl'
2023-09-25T16:50:25,973   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bedtools_intersect.cwl'
2023-09-25T16:50:25,974   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bundle_secondaryfiles.cwl'
2023-09-25T16:50:25,975   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/bwa_index.cwl'
2023-09-25T16:50:25,976   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/canvas_paired_wes.cwl'
2023-09-25T16:50:25,977   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cns_to_aa_bed.cwl'
2023-09-25T16:50:25,979   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_batch.cwl'
2023-09-25T16:50:25,980   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_batch_only.cwl'
2023-09-25T16:50:25,982   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_call.cwl'
2023-09-25T16:50:25,983   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_export_theta2.cwl'
2023-09-25T16:50:25,984   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvkit_import_theta2.cwl'
2023-09-25T16:50:25,985   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/cnvnator.cwl'
2023-09-25T16:50:25,987   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/consensus_merge.cwl'
2023-09-25T16:50:25,991   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/control-freec-11-6-sbg.cwl'
2023-09-25T16:50:25,993   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/control_freec_mini_pileup.cwl'
2023-09-25T16:50:25,994   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_flatten_file_list.cwl'
2023-09-25T16:50:25,995   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_flatten_list.cwl'
2023-09-25T16:50:25,996   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_pickvalue_workaround.cwl'
2023-09-25T16:50:25,998   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/expression_run_aa_if_wgs.cwl'
2023-09-25T16:50:25,999   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_Mutect2.cwl'
2023-09-25T16:50:26,000   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_annotateintervals.cwl'
2023-09-25T16:50:26,001   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_calculatecontamination.cwl'
2023-09-25T16:50:26,003   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_callcopyratiosegments.cwl'
2023-09-25T16:50:26,004   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_collectalleliccounts.cwl'
2023-09-25T16:50:26,006   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_collectreadcounts.cwl'
2023-09-25T16:50:26,007   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_createreadcountpanelofnormals.cwl'
2023-09-25T16:50:26,009   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_denoisereadcounts.cwl'
2023-09-25T16:50:26,010   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_filter_germline_variant.cwl'
2023-09-25T16:50:26,011   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_filtermutectcalls.cwl'
2023-09-25T16:50:26,013   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_funcotatesegments.cwl'
2023-09-25T16:50:26,014   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_gatherpileupsummaries.cwl'
2023-09-25T16:50:26,015   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_getpileupsummaries.cwl'
2023-09-25T16:50:26,016   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_indexfeaturefile.cwl'
2023-09-25T16:50:26,018   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_intervallisttool.cwl'
2023-09-25T16:50:26,019   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_learnorientationbias.cwl'
2023-09-25T16:50:26,020   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_mergemutectstats.cwl'
2023-09-25T16:50:26,021   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_mergevcfs.cwl'
2023-09-25T16:50:26,023   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_modelsegments.cwl'
2023-09-25T16:50:26,024   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_plotdenoisedcopyratios.cwl'
2023-09-25T16:50:26,025   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_plotmodeledsegments.cwl'
2023-09-25T16:50:26,027   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_preprocessintervals.cwl'
2023-09-25T16:50:26,028   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_selectvariants.cwl'
2023-09-25T16:50:26,029   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_sortvcf.cwl'
2023-09-25T16:50:26,030   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/gatk_variant_filter.cwl'
2023-09-25T16:50:26,032   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/generic_rename_outputs.cwl'
2023-09-25T16:50:26,033   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/hotspots_annotation.cwl'
2023-09-25T16:50:26,034   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/kf_mskcc_vcf2maf.cwl'
2023-09-25T16:50:26,036   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lancet.cwl'
2023-09-25T16:50:26,037   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lumpy-sv_germline.cwl'
2023-09-25T16:50:26,038   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/lumpy-sv_somatic.cwl'
2023-09-25T16:50:26,040   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/manta.cwl'
2023-09-25T16:50:26,041   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_defaults.cwl'
2023-09-25T16:50:26,042   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_list_selector.cwl'
2023-09-25T16:50:26,043   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/mode_selector.cwl'
2023-09-25T16:50:26,045   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/normalize_vcf.cwl'
2023-09-25T16:50:26,046   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/picard_createsequencedictionary.cwl'
2023-09-25T16:50:26,048   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/prep_mnp_variants.cwl'
2023-09-25T16:50:26,050   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/prepare_aa.cwl'
2023-09-25T16:50:26,051   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/preprocess_lancet_intervals.cwl'
2023-09-25T16:50:26,053   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/python_vardict_interval_split.cwl'
2023-09-25T16:50:26,054   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_calmd.cwl'
2023-09-25T16:50:26,055   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_cram2bam.cwl'
2023-09-25T16:50:26,057   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_faidx.cwl'
2023-09-25T16:50:26,058   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/samtools_reheader_bam.cwl'
2023-09-25T16:50:26,059   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_1_0_0.cwl'
2023-09-25T16:50:26,061   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_prepare_files_for_scatter.cwl'
2023-09-25T16:50:26,063   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/sb_multicnv_rename_files.cwl'
2023-09-25T16:50:26,064   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/seurat.cwl'
2023-09-25T16:50:26,066   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/smoove_lumpy.cwl'
2023-09-25T16:50:26,067   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/snpEff_annotate.cwl'
2023-09-25T16:50:26,068   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/speedseq_sv_annotate.cwl'
2023-09-25T16:50:26,069   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/strelka2.cwl'
2023-09-25T16:50:26,071   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/tabix_index.cwl'
2023-09-25T16:50:26,072   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/tar.cwl'
2023-09-25T16:50:26,073   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/theta2_purity.cwl'
2023-09-25T16:50:26,074   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/ubuntu_ratio2seg.cwl'
2023-09-25T16:50:26,076   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/ubuntu_rename_outputs.cwl'
2023-09-25T16:50:26,077   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/untar_gzip.cwl'
2023-09-25T16:50:26,078   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/vardictjava.cwl'
2023-09-25T16:50:26,080   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/tools/variant_effect_predictor_105.cwl'
2023-09-25T16:50:26,089   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc-somatic-variant-workflow.cwl'
2023-09-25T16:50:26,091   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_annot_vcf_wf.cwl'
2023-09-25T16:50:26,094   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_consensus_calling.cwl'
2023-09-25T16:50:26,096   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_gatk_create_cnv_pon_wf.cwl'
2023-09-25T16:50:26,098   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_amplicon_architect.cwl'
2023-09-25T16:50:26,100   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_cnvkit_theta2_wf.cwl'
2023-09-25T16:50:26,101   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_cnvkit_wf.cwl'
2023-09-25T16:50:26,103   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_controlfreec_wf.cwl'
2023-09-25T16:50:26,105   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_lancet_wf.cwl'
2023-09-25T16:50:26,107   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_manta_wf.cwl'
2023-09-25T16:50:26,109   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_mutect2_wf.cwl'
2023-09-25T16:50:26,111   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_strelka2_wf.cwl'
2023-09-25T16:50:26,113   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_theta2_wf.cwl'
2023-09-25T16:50:26,115   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/kfdrc_production_vardict_wf.cwl'
2023-09-25T16:50:26,117   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/sb_multicnv_wf.cwl'
2023-09-25T16:50:26,118   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/config'
2023-09-25T16:50:26,120   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/main.nf'
2023-09-25T16:50:26,125   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/FGS.nf'
2023-09-25T16:50:26,126   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/QC_FLAG.nf'
2023-09-25T16:50:26,128   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/add_crossmapped_to_resmapped.nf'
2023-09-25T16:50:26,129   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/add_domain_positions.nf'
2023-09-25T16:50:26,130   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/align_avg_structs_pairwise.nf'
2023-09-25T16:50:26,131   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/antismash_gff.nf'
2023-09-25T16:50:26,132   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/antismash_summary.nf'
2023-09-25T16:50:26,134   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_averaged_structures.nf'
2023-09-25T16:50:26,135   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_averaged_unp_domains.nf'
2023-09-25T16:50:26,136   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_chopped_structs_unp_domains.nf'
2023-09-25T16:50:26,137   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/avg_chopped_structures_unp_domains.nf'
2023-09-25T16:50:26,138   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/bam_index.nf'
2023-09-25T16:50:26,140   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/calc_chunking_number.nf'
2023-09-25T16:50:26,141   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/carveme.nf'
2023-09-25T16:50:26,142   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/carveme_files_to_folder.nf'
2023-09-25T16:50:26,143   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cat.nf'
2023-09-25T16:50:26,145   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cat_models.nf'
2023-09-25T16:50:26,146   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_alignment_scores.nf'
2023-09-25T16:50:26,147   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_threshold_step.nf'
2023-09-25T16:50:26,149   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/check_value.nf'
2023-09-25T16:50:26,150   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_SC_fasta_nucleotide.nf'
2023-09-25T16:50:26,152   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_fasta_nucleotide.nf'
2023-09-25T16:50:26,153   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chinking_fasta_proteins.nf'
2023-09-25T16:50:26,154   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chop_structs.nf'
2023-09-25T16:50:26,156   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chunking_fasta.nf'
2023-09-25T16:50:26,157   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/chunking_tsv.nf'
2023-09-25T16:50:26,158   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/classifications_to_otu_counts.nf'
2023-09-25T16:50:26,160   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_classification.nf'
2023-09-25T16:50:26,161   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_fasta_headers.nf'
2023-09-25T16:50:26,162   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/clean_headers.nf'
2023-09-25T16:50:26,163   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/cmsearch.nf'
2023-09-25T16:50:26,165   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/collect_lost_instances.nf'
2023-09-25T16:50:26,166   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine.nf'
2023-09-25T16:50:26,167   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine_ips.nf'
2023-09-25T16:50:26,168   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/combine_trimmed.nf'
2023-09-25T16:50:26,169   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compare_instances_CATH_Pfam.nf'
2023-09-25T16:50:26,171   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress.nf'
2023-09-25T16:50:26,172   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_carveme.nf'
2023-09-25T16:50:26,173   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_mapseq.nf'
2023-09-25T16:50:26,174   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compress_prodigal.nf'
2023-09-25T16:50:26,175   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compression.nf'
2023-09-25T16:50:26,176   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/compression_func_ann.nf'
2023-09-25T16:50:26,178   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/conversion.nf'
2023-09-25T16:50:26,179   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/convert_trimmed_reads_to_fasta.nf'
2023-09-25T16:50:26,180   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/copy_avg_dom.nf'
2023-09-25T16:50:26,181   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_ITS_seqs.nf'
2023-09-25T16:50:26,183   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_cds.nf'
2023-09-25T16:50:26,184   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_lines_mapseq.nf'
2023-09-25T16:50:26,185   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_lsu_fasta.nf'
2023-09-25T16:50:26,187   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_masked_fasta.nf'
2023-09-25T16:50:26,188   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_overlapped_reads.nf'
2023-09-25T16:50:26,190   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_processed_reads.nf'
2023-09-25T16:50:26,191   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_reads.nf'
2023-09-25T16:50:26,192   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_reads_after_filtering.nf'
2023-09-25T16:50:26,194   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_ssu_fasta.nf'
2023-09-25T16:50:26,195   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_submitted_reads.nf'
2023-09-25T16:50:26,197   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/count_submitted_reads_single.nf'
2023-09-25T16:50:26,198   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/counts_to_hdf5.nf'
2023-09-25T16:50:26,199   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/counts_to_json.nf'
2023-09-25T16:50:26,201   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_csv_gp.nf'
2023-09-25T16:50:26,202   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_csv_kp.nf'
2023-09-25T16:50:26,204   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/create_new_parameters.nf'
2023-09-25T16:50:26,205   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/crossmapping_CATH2Pfam.nf'
2023-09-25T16:50:26,206   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/crossmapping_Pfam2CATH.nf'
2023-09-25T16:50:26,207   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/diamond_run.nf'
2023-09-25T16:50:26,209   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/eggnog_annotation.nf'
2023-09-25T16:50:26,210   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/eggnog_homology_searches.nf'
2023-09-25T16:50:26,211   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/expressiontool_bam_index.nf'
2023-09-25T16:50:26,212   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_coords.nf'
2023-09-25T16:50:26,213   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_sequences.nf'
2023-09-25T16:50:26,215   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_subunits.nf'
2023-09-25T16:50:26,216   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/extract_subunits_coords.nf'
2023-09-25T16:50:26,217   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fasta_index.nf'
2023-09-25T16:50:26,218   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fastqc.nf'
2023-09-25T16:50:26,219   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fastqc_files_to_folder.nf'
2023-09-25T16:50:26,221   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_cath_structures.nf'
2023-09-25T16:50:26,222   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_contigs_antismash.nf'
2023-09-25T16:50:26,223   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_paired.nf'
2023-09-25T16:50:26,224   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/filter_pfam_structures.nf'
2023-09-25T16:50:26,226   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fix_embl_and_gbk.nf'
2023-09-25T16:50:26,227   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/fix_geneclusters_txt.nf'
2023-09-25T16:50:26,229   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/folder_compression.nf'
2023-09-25T16:50:26,230   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/format_core_list.nf'
2023-09-25T16:50:26,231   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/functional_stats.nf'
2023-09-25T16:50:26,233   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gather_domain_like.nf'
2023-09-25T16:50:26,234   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gather_failed_domains.nf'
2023-09-25T16:50:26,235   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gemstats.nf'
2023-09-25T16:50:26,237   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/genome_properties.nf'
2023-09-25T16:50:26,238   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_coords.nf'
2023-09-25T16:50:26,239   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_family_ids.nf'
2023-09-25T16:50:26,240   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/get_ncrnas.nf'
2023-09-25T16:50:26,242   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gff.nf'
2023-09-25T16:50:26,243   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/go_summary.nf'
2023-09-25T16:50:26,244   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip.nf'
2023-09-25T16:50:26,246   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_LSU.nf'
2023-09-25T16:50:26,247   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_SSU.nf'
2023-09-25T16:50:26,248   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_files.nf'
2023-09-25T16:50:26,249   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzip_masked_ITS.nf'
2023-09-25T16:50:26,250   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzipped_embl.nf'
2023-09-25T16:50:26,251   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/gzipped_gbk.nf'
2023-09-25T16:50:26,253   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum.nf'
2023-09-25T16:50:26,254   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum_paired.nf'
2023-09-25T16:50:26,255   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hashsum_single.nf'
2023-09-25T16:50:26,256   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/header_addition.nf'
2023-09-25T16:50:26,257   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/hmmsearch.nf'
2023-09-25T16:50:26,259   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/index_reads.nf'
2023-09-25T16:50:26,260   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/interproscan.nf'
2023-09-25T16:50:26,261   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/join.nf'
2023-09-25T16:50:26,263   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/kegg_pathways.nf'
2023-09-25T16:50:26,264   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/kofamscan.nf'
2023-09-25T16:50:26,265   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/length_filter.nf'
2023-09-25T16:50:26,267   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/make_tab_sep.nf'
2023-09-25T16:50:26,268   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/mapseq.nf'
2023-09-25T16:50:26,270   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/mask_for_ITS.nf'
2023-09-25T16:50:26,271   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_files_to_folder.nf'
2023-09-25T16:50:26,272   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_report_snapshot.nf'
2023-09-25T16:50:26,274   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/memote_run.nf'
2023-09-25T16:50:26,275   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/motus_classification.nf'
2023-09-25T16:50:26,276   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_antismash_summary_to_pathways_systems_folder.nf'
2023-09-25T16:50:26,277   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_functional_annotation_folder.nf'
2023-09-25T16:50:26,279   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_pathways_systems_folder.nf'
2023-09-25T16:50:26,280   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/move_to_seq_cat_folder.nf'
2023-09-25T16:50:26,281   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax.nf'
2023-09-25T16:50:26,283   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax_files_to_folder.nf'
2023-09-25T16:50:26,284   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/ngtax_to_tsv_fasta.nf'
2023-09-25T16:50:26,286   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/no_tax_file_flag.nf'
2023-09-25T16:50:26,287   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/overlap_reads.nf'
2023-09-25T16:50:26,288   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pairwise_align_avg_structs.nf'
2023-09-25T16:50:26,290   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/parsing_hmmscan.nf'
2023-09-25T16:50:26,291   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/per_dom_instance.nf'
2023-09-25T16:50:26,292   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/per_unp_dom_instance.nf'
2023-09-25T16:50:26,293   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pfam.nf'
2023-09-25T16:50:26,294   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/phyloseq_files_to_folder.nf'
2023-09-25T16:50:26,296   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/picrust2.nf'
2023-09-25T16:50:26,297   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/picrust_files_to_folder.nf'
2023-09-25T16:50:26,298   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/pilon.nf'
2023-09-25T16:50:26,299   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/post_processing.nf'
2023-09-25T16:50:26,301   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/prodigal.nf'
2023-09-25T16:50:26,302   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/prodigal_files_to_folder.nf'
2023-09-25T16:50:26,303   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/qc_stats.nf'
2023-09-25T16:50:26,304   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/readmapping_pilon.nf'
2023-09-25T16:50:26,305   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/reads_to_folder.nf'
2023-09-25T16:50:26,307   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/reformat_coords.nf'
2023-09-25T16:50:26,308   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/remove_overlaps.nf'
2023-09-25T16:50:26,309   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_contigs.nf'
2023-09-25T16:50:26,310   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_geneclusters.nf'
2023-09-25T16:50:26,311   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/rename_ncrnas.nf'
2023-09-25T16:50:26,312   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/resmapping_for_CATH_PDB2UP.nf'
2023-09-25T16:50:26,314   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/resmapping_for_Pfam_UP2PDB.nf'
2023-09-25T16:50:26,315   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_antismash_in_folder.nf'
2023-09-25T16:50:26,316   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_its_dir.nf'
2023-09-25T16:50:26,317   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_output_dir.nf'
2023-09-25T16:50:26,318   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_seq_dir.nf'
2023-09-25T16:50:26,319   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/return_tax_dir.nf'
2023-09-25T16:50:26,320   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_antismash.nf'
2023-09-25T16:50:26,321   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_concatenate_deoverlapped_matches.nf'
2023-09-25T16:50:26,323   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_concatenate_matches.nf'
2023-09-25T16:50:26,324   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/run_quality_control_filtering.nf'
2023-09-25T16:50:26,325   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/sam_to_sorted_bam.nf'
2023-09-25T16:50:26,326   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/smetana.nf'
2023-09-25T16:50:26,327   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/sorting.nf'
2023-09-25T16:50:26,329   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/split_fasta.nf'
2023-09-25T16:50:26,330   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/split_seqs.nf'
2023-09-25T16:50:26,331   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/suppress_tax.nf'
2023-09-25T16:50:26,332   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/tab_modification.nf'
2023-09-25T16:50:26,333   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/tohdt.nf'
2023-09-25T16:50:26,335   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_empty_fasta.nf'
2023-09-25T16:50:26,336   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_file_flag.nf'
2023-09-25T16:50:26,337   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_no_antismash_flag.nf'
2023-09-25T16:50:26,338   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/touch_no_cds_flag.nf'
2023-09-25T16:50:26,339   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/trim_quality_control.nf'
2023-09-25T16:50:26,341   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_embl.nf'
2023-09-25T16:50:26,342   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_gbk.nf'
2023-09-25T16:50:26,343   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_geneclusters_txt.nf'
2023-09-25T16:50:26,344   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unite_seed_orthologs.nf'
2023-09-25T16:50:26,345   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip.nf'
2023-09-25T16:50:26,346   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip_merged_reads.nf'
2023-09-25T16:50:26,347   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/unzip_single_reads.nf'
2023-09-25T16:50:26,348   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/vcf_compress.nf'
2023-09-25T16:50:26,349   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/visualize_otu_counts.nf'
2023-09-25T16:50:26,351   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/modules/write_summaries.nf'
2023-09-25T16:50:26,353   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/ITS.nf'
2023-09-25T16:50:26,355   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/after_qc.nf'
2023-09-25T16:50:26,356   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/antismash.nf'
2023-09-25T16:50:26,357   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/avg_unp_domains.nf'
2023-09-25T16:50:26,359   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/before_qc.nf'
2023-09-25T16:50:26,360   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cath_domain_instances.nf'
2023-09-25T16:50:26,361   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cgc.nf'
2023-09-25T16:50:26,363   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/change_formats_and_names.nf'
2023-09-25T16:50:26,364   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_CATH2Pfam.nf'
2023-09-25T16:50:26,365   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_Pfam2CATH.nf'
2023-09-25T16:50:26,366   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_for_core.nf'
2023-09-25T16:50:26,367   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chop_and_avg_from_list.nf'
2023-09-25T16:50:26,369   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chunking.nf'
2023-09-25T16:50:26,370   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/chunking_final.nf'
2023-09-25T16:50:26,372   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/classify_LSUs.nf'
2023-09-25T16:50:26,373   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/classify_SSUs.nf'
2023-09-25T16:50:26,375   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cmsearch_assembly.nf'
2023-09-25T16:50:26,376   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/cmsearch_raw_data.nf'
2023-09-25T16:50:26,377   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/combined_gene_caller.nf'
2023-09-25T16:50:26,379   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/diamond.nf'
2023-09-25T16:50:26,380   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/eggnog.nf'
2023-09-25T16:50:26,382   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/filtering.nf'
2023-09-25T16:50:26,383   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/find_ribosomal_ncRNAs.nf'
2023-09-25T16:50:26,384   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/folder_functional_annotation.nf'
2023-09-25T16:50:26,385   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/functional_annotation.nf'
2023-09-25T16:50:26,386   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/functional_annotation_and_post_processing.nf'
2023-09-25T16:50:26,388   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/motus_taxonomy.nf'
2023-09-25T16:50:26,389   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/no_antismash_subwf.nf'
2023-09-25T16:50:26,390   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/other_ncrnas.nf'
2023-09-25T16:50:26,391   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/overlap_reads.nf'
2023-09-25T16:50:26,393   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/pathways.nf'
2023-09-25T16:50:26,394   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/pfam_domain_instances.nf'
2023-09-25T16:50:26,395   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/post_processing_uniref90.nf'
2023-09-25T16:50:26,396   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/resmapping_cath_structs.nf'
2023-09-25T16:50:26,397   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/resmapping_pfam_structs.nf'
2023-09-25T16:50:26,399   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/rna_prediction.nf'
2023-09-25T16:50:26,400   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_IPS.nf'
2023-09-25T16:50:26,402   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_antismash.nf'
2023-09-25T16:50:26,403   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_hmmer.nf'
2023-09-25T16:50:26,404   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_itsonedb.nf'
2023-09-25T16:50:26,406   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/run_unite.nf'
2023-09-25T16:50:26,407   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/trimming.nf'
2023-09-25T16:50:26,408   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/unmapped_from_cath.nf'
2023-09-25T16:50:26,410   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/unmapped_from_pfam.nf'
2023-09-25T16:50:26,411   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflow/translated/subworkflows/write_summaries.nf'
2023-09-25T16:50:26,413   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/cnvkit_single_sample_wf.cwl'
2023-09-25T16:50:26,414   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/control-freec-germline.cwl'
2023-09-25T16:50:26,416   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnv_caller_wes_wf.cwl'
2023-09-25T16:50:26,417   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnvkit_batch_wf.cwl'
2023-09-25T16:50:26,419   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_cnvkit_plus_theta2.cwl'
2023-09-25T16:50:26,421   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_combined_somatic_wgs_cnv_wf.cwl'
2023-09-25T16:50:26,422   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_controlfreec_cnv.cwl'
2023-09-25T16:50:26,423   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_lancet_wf.cwl'
2023-09-25T16:50:26,425   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_mutect2_wf.cwl'
2023-09-25T16:50:26,427   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_production_WES_somatic_variant_cnv_wf.cwl'
2023-09-25T16:50:26,429   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_production_WGS_somatic_variant_cnv.cwl'
2023-09-25T16:50:26,431   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_somatic_WES_wf.cwl'
2023-09-25T16:50:26,433   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_somatic_caller_workflow.cwl'
2023-09-25T16:50:26,434   adding 'janis_core/tests/data/cwl/workflows/kf-somatic-workflow/workflows-deprecated/kfdrc_vardict_wf.cwl'
2023-09-25T16:50:26,437   adding 'janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/.gitkeep'
2023-09-25T16:50:26,439   adding 'janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/featurecounts.cwl'
2023-09-25T16:50:26,440   adding 'janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto/kallisto_index.cwl'
2023-09-25T16:50:26,442   adding 'janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/kallisto/kallisto_quant.cwl'
2023-09-25T16:50:26,444   adding 'janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star/star_align.cwl'
2023-09-25T16:50:26,445   adding 'janis_core/tests/data/cwl/workflows/m-unlock/RNAseq/star/star_index.cwl'
2023-09-25T16:50:26,447   adding 'janis_core/tests/data/cwl/workflows/m-unlock/aragorn/aragorn.cwl'
2023-09-25T16:50:26,449   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/compress.cwl'
2023-09-25T16:50:26,450   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/compress_directory.cwl'
2023-09-25T16:50:26,451   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/concatenate.cwl'
2023-09-25T16:50:26,453   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/decompress.cwl'
2023-09-25T16:50:26,454   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/grep_count.cwl'
2023-09-25T16:50:26,455   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/pigz.cwl'
2023-09-25T16:50:26,456   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bash/rename.cwl'
2023-09-25T16:50:26,458   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbduk_filter.cwl'
2023-09-25T16:50:26,459   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbduk_rrna-filter.cwl'
2023-09-25T16:50:26,461   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbmap.cwl'
2023-09-25T16:50:26,462   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bbmap/bbmap_filter-reads.cwl'
2023-09-25T16:50:26,464   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bbmap/prepare_fasta_db.cwl'
2023-09-25T16:50:26,467   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_align.cwl'
2023-09-25T16:50:26,468   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_align_simple.cwl'
2023-09-25T16:50:26,470   adding 'janis_core/tests/data/cwl/workflows/m-unlock/bowtie2/bowtie2_index.cwl'
2023-09-25T16:50:26,472   adding 'janis_core/tests/data/cwl/workflows/m-unlock/busco/busco.cwl'
2023-09-25T16:50:26,474   adding 'janis_core/tests/data/cwl/workflows/m-unlock/carveme/GEMstats.cwl'
2023-09-25T16:50:26,475   adding 'janis_core/tests/data/cwl/workflows/m-unlock/carveme/carveme.cwl'
2023-09-25T16:50:26,477   adding 'janis_core/tests/data/cwl/workflows/m-unlock/checkm/checkm_lineagewf.cwl'
2023-09-25T16:50:26,478   adding 'janis_core/tests/data/cwl/workflows/m-unlock/clustalo/clustalo.cwl'
2023-09-25T16:50:26,480   adding 'janis_core/tests/data/cwl/workflows/m-unlock/das_tool/das_tool.cwl'
2023-09-25T16:50:26,481   adding 'janis_core/tests/data/cwl/workflows/m-unlock/das_tool/fasta_to_contig2bin.cwl'
2023-09-25T16:50:26,483   adding 'janis_core/tests/data/cwl/workflows/m-unlock/diamond/diamond.cwl'
2023-09-25T16:50:26,484   adding 'janis_core/tests/data/cwl/workflows/m-unlock/diamond/view.cwl'
2023-09-25T16:50:26,486   adding 'janis_core/tests/data/cwl/workflows/m-unlock/ena/ena_wget.cwl'
2023-09-25T16:50:26,487   adding 'janis_core/tests/data/cwl/workflows/m-unlock/eukrep/eukrep.cwl'
2023-09-25T16:50:26,489   adding 'janis_core/tests/data/cwl/workflows/m-unlock/expressions/array_to_file.cwl'
2023-09-25T16:50:26,490   adding 'janis_core/tests/data/cwl/workflows/m-unlock/expressions/files_to_folder.cwl'
2023-09-25T16:50:26,492   adding 'janis_core/tests/data/cwl/workflows/m-unlock/expressions/folder_file_regex.cwl'
2023-09-25T16:50:26,493   adding 'janis_core/tests/data/cwl/workflows/m-unlock/expressions/folder_to_files.cwl'
2023-09-25T16:50:26,494   adding 'janis_core/tests/data/cwl/workflows/m-unlock/expressions/merge_dir_arrays.cwl'
2023-09-25T16:50:26,495   adding 'janis_core/tests/data/cwl/workflows/m-unlock/expressions/merge_file_arrays.cwl'
2023-09-25T16:50:26,497   adding 'janis_core/tests/data/cwl/workflows/m-unlock/fastp/fastp.cwl'
2023-09-25T16:50:26,498   adding 'janis_core/tests/data/cwl/workflows/m-unlock/fastq/fastq_to_fasta.cwl'
2023-09-25T16:50:26,500   adding 'janis_core/tests/data/cwl/workflows/m-unlock/fastqc/fastqc.cwl'
2023-09-25T16:50:26,502   adding 'janis_core/tests/data/cwl/workflows/m-unlock/filtlong/filtlong.cwl'
2023-09-25T16:50:26,504   adding 'janis_core/tests/data/cwl/workflows/m-unlock/flye/flye.cwl'
2023-09-25T16:50:26,506   adding 'janis_core/tests/data/cwl/workflows/m-unlock/gtdbtk/gtdbtk_classify_wf.cwl'
2023-09-25T16:50:26,508   adding 'janis_core/tests/data/cwl/workflows/m-unlock/gunc/gunc.cwl'
2023-09-25T16:50:26,510   adding 'janis_core/tests/data/cwl/workflows/m-unlock/guppy/guppy.cwl'
2023-09-25T16:50:26,511   adding 'janis_core/tests/data/cwl/workflows/m-unlock/humann/humann.cwl'
2023-09-25T16:50:26,514   adding 'janis_core/tests/data/cwl/workflows/m-unlock/irods/irods_hdt.cwl'
2023-09-25T16:50:26,515   adding 'janis_core/tests/data/cwl/workflows/m-unlock/irods/irods_manager.cwl'
2023-09-25T16:50:26,517   adding 'janis_core/tests/data/cwl/workflows/m-unlock/kraken2/kraken2-build.cwl'
2023-09-25T16:50:26,518   adding 'janis_core/tests/data/cwl/workflows/m-unlock/kraken2/kraken2.cwl'
2023-09-25T16:50:26,520   adding 'janis_core/tests/data/cwl/workflows/m-unlock/krona/krona.cwl'
2023-09-25T16:50:26,521   adding 'janis_core/tests/data/cwl/workflows/m-unlock/longqc/longqc.cwl'
2023-09-25T16:50:26,523   adding 'janis_core/tests/data/cwl/workflows/m-unlock/maxbin2/maxbin2.cwl'
2023-09-25T16:50:26,525   adding 'janis_core/tests/data/cwl/workflows/m-unlock/medaka/medaka.cwl'
2023-09-25T16:50:26,527   adding 'janis_core/tests/data/cwl/workflows/m-unlock/medaka/medaka_py.cwl'
2023-09-25T16:50:26,529   adding 'janis_core/tests/data/cwl/workflows/m-unlock/memote/memote.cwl'
2023-09-25T16:50:26,530   adding 'janis_core/tests/data/cwl/workflows/m-unlock/merge/merge.cwl'
2023-09-25T16:50:26,532   adding 'janis_core/tests/data/cwl/workflows/m-unlock/metabat2/aggregateBinDepths.cwl'
2023-09-25T16:50:26,533   adding 'janis_core/tests/data/cwl/workflows/m-unlock/metabat2/metabat2.cwl'
2023-09-25T16:50:26,535   adding 'janis_core/tests/data/cwl/workflows/m-unlock/metabat2/metabatContigDepths.cwl'
2023-09-25T16:50:26,536   adding 'janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/assembly_bins_readstats.cwl'
2023-09-25T16:50:26,538   adding 'janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/bins_summary.cwl'
2023-09-25T16:50:26,539   adding 'janis_core/tests/data/cwl/workflows/m-unlock/metagenomics/get_unbinned_contigs.cwl'
2023-09-25T16:50:26,541   adding 'janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2.cwl'
2023-09-25T16:50:26,542   adding 'janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2_to_fastq.cwl'
2023-09-25T16:50:26,544   adding 'janis_core/tests/data/cwl/workflows/m-unlock/minimap2/minimap2_to_sorted-bam.cwl'
2023-09-25T16:50:26,545   adding 'janis_core/tests/data/cwl/workflows/m-unlock/minionqc/minionqc.cwl'
2023-09-25T16:50:26,547   adding 'janis_core/tests/data/cwl/workflows/m-unlock/multiqc/multiqc.cwl'
2023-09-25T16:50:26,548   adding 'janis_core/tests/data/cwl/workflows/m-unlock/nanoqc/nanoqc.cwl'
2023-09-25T16:50:26,550   adding 'janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax.cwl'
2023-09-25T16:50:26,551   adding 'janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_demultiplexing.cwl'
2023-09-25T16:50:26,553   adding 'janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_to_biom.cwl'
2023-09-25T16:50:26,556   adding 'janis_core/tests/data/cwl/workflows/m-unlock/ngtax/ngtax_to_tsv-fasta.cwl'
2023-09-25T16:50:26,565   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_NonSpliced_packed.cwl'
2023-09-25T16:50:26,574   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_Spliced_packed.cwl'
2023-09-25T16:50:26,581   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_RNAseq_kallisto_packed.cwl'
2023-09-25T16:50:26,583   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_demultiplexing_packed.cwl'
2023-09-25T16:50:26,584   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ena_annotation_packed.cwl'
2023-09-25T16:50:26,586   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_genomesync_packed.cwl'
2023-09-25T16:50:26,595   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_illumina_assembly_packed.cwl'
2023-09-25T16:50:26,601   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_illumina_quality_packed.cwl'
2023-09-25T16:50:26,604   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_indexbuilder_packed.cwl'
2023-09-25T16:50:26,609   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_longread_quality_packed.cwl'
2023-09-25T16:50:26,613   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_GEM_packed.cwl'
2023-09-25T16:50:26,637   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_assembly_packed.cwl'
2023-09-25T16:50:26,649   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_binning_packed.cwl'
2023-09-25T16:50:26,651   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_packed.cwl'
2023-09-25T16:50:26,659   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_metagenomics_read_annotation_packed.cwl'
2023-09-25T16:50:26,662   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_microbial_packed.cwl'
2023-09-25T16:50:26,665   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_mock_ngtax_packed.cwl'
2023-09-25T16:50:26,666   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_nanopore_packed.cwl'
2023-09-25T16:50:26,668   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ngtax_packed.cwl'
2023-09-25T16:50:26,672   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_ngtax_picrust2_packed.cwl'
2023-09-25T16:50:26,675   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_pilon_mapping_packed.cwl'
2023-09-25T16:50:26,677   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_prepare_fasta_db_packed.cwl'
2023-09-25T16:50:26,679   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_samsa2_packed.cwl'
2023-09-25T16:50:26,681   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_sapp_microbes_packed.cwl'
2023-09-25T16:50:26,684   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_sapp_others_packed.cwl'
2023-09-25T16:50:26,685   adding 'janis_core/tests/data/cwl/workflows/m-unlock/packed/workflow_toHDT_compression_packed.cwl'
2023-09-25T16:50:26,687   adding 'janis_core/tests/data/cwl/workflows/m-unlock/picrust2/picrust2_pipeline.cwl'
2023-09-25T16:50:26,688   adding 'janis_core/tests/data/cwl/workflows/m-unlock/picrust2/picrust_to_biom.cwl'
2023-09-25T16:50:26,690   adding 'janis_core/tests/data/cwl/workflows/m-unlock/pilon/pilon.cwl'
2023-09-25T16:50:26,692   adding 'janis_core/tests/data/cwl/workflows/m-unlock/prodigal/prodigal.cwl'
2023-09-25T16:50:26,694   adding 'janis_core/tests/data/cwl/workflows/m-unlock/pycoqc/pycoqc.cwl'
2023-09-25T16:50:26,696   adding 'janis_core/tests/data/cwl/workflows/m-unlock/quast/metaquast.cwl'
2023-09-25T16:50:26,697   adding 'janis_core/tests/data/cwl/workflows/m-unlock/quast/quast.cwl'
2023-09-25T16:50:26,699   adding 'janis_core/tests/data/cwl/workflows/m-unlock/resfinder/resfinder.cwl'
2023-09-25T16:50:26,700   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samsa2/convert.cwl'
2023-09-25T16:50:26,702   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/expression_bam_index.cwl'
2023-09-25T16:50:26,703   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/merge-sorted-bam.cwl'
2023-09-25T16:50:26,705   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_fastq_PE.cwl'
2023-09-25T16:50:26,706   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_fastq_SE.cwl'
2023-09-25T16:50:26,707   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_sorted-bam.cwl'
2023-09-25T16:50:26,708   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/sam_to_unmapped_fastq_SE.cwl'
2023-09-25T16:50:26,709   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_flagstat.cwl'
2023-09-25T16:50:26,711   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_idxstats.cwl'
2023-09-25T16:50:26,712   adding 'janis_core/tests/data/cwl/workflows/m-unlock/samtools/samtools_index.cwl'
2023-09-25T16:50:26,714   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion.cwl'
2023-09-25T16:50:26,715   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion_rdf2fasta.cwl'
2023-09-25T16:50:26,716   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/conversion_rdf2gtf.cwl'
2023-09-25T16:50:26,718   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/crt.cwl'
2023-09-25T16:50:26,719   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/infernal.cwl'
2023-09-25T16:50:26,720   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/interproscan.cwl'
2023-09-25T16:50:26,722   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/kofamscan.cwl'
2023-09-25T16:50:26,723   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/prodigal.cwl'
2023-09-25T16:50:26,724   adding 'janis_core/tests/data/cwl/workflows/m-unlock/sapp/toHDT.cwl'
2023-09-25T16:50:26,726   adding 'janis_core/tests/data/cwl/workflows/m-unlock/semibin/semibin_rename_bins.cwl'
2023-09-25T16:50:26,727   adding 'janis_core/tests/data/cwl/workflows/m-unlock/semibin/semibin_single_easy_bin.cwl'
2023-09-25T16:50:26,729   adding 'janis_core/tests/data/cwl/workflows/m-unlock/smetana/smetana.cwl'
2023-09-25T16:50:26,731   adding 'janis_core/tests/data/cwl/workflows/m-unlock/spades/spades.cwl'
2023-09-25T16:50:26,733   adding 'janis_core/tests/data/cwl/workflows/m-unlock/stats/raw_n50.cwl'
2023-09-25T16:50:26,734   adding 'janis_core/tests/data/cwl/workflows/m-unlock/stats/seqinfo.cwl'
2023-09-25T16:50:26,736   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/demultiplexing.cwl'
2023-09-25T16:50:26,738   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/metagenomics_GEM.cwl'
2023-09-25T16:50:26,739   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/mock_ngtax.cwl'
2023-09-25T16:50:26,741   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/ngtax.cwl'
2023-09-25T16:50:26,743   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/ngtax_picrust2.cwl'
2023-09-25T16:50:26,744   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/pilon_mapping.cwl'
2023-09-25T16:50:26,745   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/sapp_microbes.cwl'
2023-09-25T16:50:26,747   adding 'janis_core/tests/data/cwl/workflows/m-unlock/workflows/toHDT_compression.cwl'
2023-09-25T16:50:26,749   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/workflow.cwl'
2023-09-25T16:50:26,750   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/workflow.yaml'
2023-09-25T16:50:26,751   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/workflow_idxs.yaml'
2023-09-25T16:50:26,753   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/batch_parser.cwl'
2023-09-25T16:50:26,754   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bedops_union.cwl'
2023-09-25T16:50:26,756   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bgzip.cwl'
2023-09-25T16:50:26,757   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bundle_secondaryfiles.cwl'
2023-09-25T16:50:26,758   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_index.cwl'
2023-09-25T16:50:26,759   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_mem_paired.cwl'
2023-09-25T16:50:26,760   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/bwa_mem_unpaired.cwl'
2023-09-25T16:50:26,762   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/codex.cwl'
2023-09-25T16:50:26,763   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/codex_filter.cwl'
2023-09-25T16:50:26,764   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/collapse.cwl'
2023-09-25T16:50:26,765   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/exome_depth.cwl'
2023-09-25T16:50:26,766   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/exome_depth_filter.cwl'
2023-09-25T16:50:26,767   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/fastp.cwl'
2023-09-25T16:50:26,768   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/fastqc.cwl'
2023-09-25T16:50:26,770   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gridss.cwl'
2023-09-25T16:50:26,771   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gridss_filter.cwl'
2023-09-25T16:50:26,772   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/gunzip.cwl'
2023-09-25T16:50:26,773   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/manta.cwl'
2023-09-25T16:50:26,774   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/manta_filter.cwl'
2023-09-25T16:50:26,775   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/merge_all.cwl'
2023-09-25T16:50:26,776   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/picard_markduplicates.cwl'
2023-09-25T16:50:26,778   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_faidx.cwl'
2023-09-25T16:50:26,779   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_index.cwl'
2023-09-25T16:50:26,780   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_merge.cwl'
2023-09-25T16:50:26,781   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_sort.cwl'
2023-09-25T16:50:26,782   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_view.cwl'
2023-09-25T16:50:26,783   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/samtools_view_sam2bam.cwl'
2023-09-25T16:50:26,785   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/structural_variants.cwl'
2023-09-25T16:50:26,786   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/svtools.cwl'
2023-09-25T16:50:26,787   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/tabix.cwl'
2023-09-25T16:50:26,789   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bam_filtering.cwl'
2023-09-25T16:50:26,790   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bwa_index.cwl'
2023-09-25T16:50:26,791   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/bwa_mem.cwl'
2023-09-25T16:50:26,792   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_codex.cwl'
2023-09-25T16:50:26,793   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_exome_depth.cwl'
2023-09-25T16:50:26,794   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_gridss.cwl'
2023-09-25T16:50:26,796   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/cnv_manta.cwl'
2023-09-25T16:50:26,797   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/final_filtering.cwl'
2023-09-25T16:50:26,798   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/indexing_bed.cwl'
2023-09-25T16:50:26,799   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/picard_markduplicates.cwl'
2023-09-25T16:50:26,800   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/samtools_sort.cwl'
2023-09-25T16:50:26,801   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/samtools_view_sam2bam.cwl'
2023-09-25T16:50:26,803   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_operations/subworkflows/trimmed_fastq.cwl'
2023-09-25T16:50:26,805   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/abstract_workflow/abstract_workflow.cwl'
2023-09-25T16:50:26,807   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bam_filtering.cwl'
2023-09-25T16:50:26,808   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bwa_index.cwl'
2023-09-25T16:50:26,809   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/bwa_mem.cwl'
2023-09-25T16:50:26,810   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_codex.cwl'
2023-09-25T16:50:26,811   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_exome_depth.cwl'
2023-09-25T16:50:26,813   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_gridss.cwl'
2023-09-25T16:50:26,814   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/cnv_manta.cwl'
2023-09-25T16:50:26,815   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/final_filtering.cwl'
2023-09-25T16:50:26,816   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/indexing_bed.cwl'
2023-09-25T16:50:26,817   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/indexing_bed.yaml'
2023-09-25T16:50:26,819   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/picard_markduplicates.cwl'
2023-09-25T16:50:26,820   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/samtools_sort.cwl'
2023-09-25T16:50:26,821   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/samtools_view_sam2bam.cwl'
2023-09-25T16:50:26,822   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/subworkflows/trimmed_fastq.cwl'
2023-09-25T16:50:26,825   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/batch_parser.cwl'
2023-09-25T16:50:26,826   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bedops_union.cwl'
2023-09-25T16:50:26,827   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bgzip.cwl'
2023-09-25T16:50:26,828   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bundle_secondaryfiles.cwl'
2023-09-25T16:50:26,829   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_index.cwl'
2023-09-25T16:50:26,830   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_index_grace.cwl'
2023-09-25T16:50:26,831   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_paired.cwl'
2023-09-25T16:50:26,832   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_paired_grace.cwl'
2023-09-25T16:50:26,834   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_unpaired.cwl'
2023-09-25T16:50:26,835   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/bwa_mem_unpaired_grace.cwl'
2023-09-25T16:50:26,836   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/codex.cwl'
2023-09-25T16:50:26,838   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/codex_filter.cwl'
2023-09-25T16:50:26,839   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/collapse.cwl'
2023-09-25T16:50:26,840   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/exome_depth.cwl'
2023-09-25T16:50:26,842   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/exome_depth_filter.cwl'
2023-09-25T16:50:26,843   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/fastp.cwl'
2023-09-25T16:50:26,844   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/fastqc.cwl'
2023-09-25T16:50:26,845   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/gridss.cwl'
2023-09-25T16:50:26,847   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/gridss_filter.cwl'
2023-09-25T16:50:26,848   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/gunzip.cwl'
2023-09-25T16:50:26,849   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/manta.cwl'
2023-09-25T16:50:26,850   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/manta_filter.cwl'
2023-09-25T16:50:26,851   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/merge_all.cwl'
2023-09-25T16:50:26,853   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/picard_markduplicates.cwl'
2023-09-25T16:50:26,854   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_faidx.cwl'
2023-09-25T16:50:26,855   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_index.cwl'
2023-09-25T16:50:26,856   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_merge.cwl'
2023-09-25T16:50:26,857   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_sort.cwl'
2023-09-25T16:50:26,859   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_view.cwl'
2023-09-25T16:50:26,860   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/samtools_view_sam2bam.cwl'
2023-09-25T16:50:26,861   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/structural_variants.cwl'
2023-09-25T16:50:26,862   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/svtools.cwl'
2023-09-25T16:50:26,863   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/tabix.cwl'
2023-09-25T16:50:26,865   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/tools_list.txt'
2023-09-25T16:50:26,867   adding 'janis_core/tests/data/cwl/workflows/structuralvariants/tools/unicycler.cwl'
2023-09-25T16:50:26,868   adding 'janis_core/tests/data/cwl/workflows/subworkflow_test/basic.cwl'
2023-09-25T16:50:26,870   adding 'janis_core/tests/data/cwl/workflows/subworkflow_test/main.cwl'
2023-09-25T16:50:26,871   adding 'janis_core/tests/data/cwl/workflows/subworkflow_test/mandatory_input_types.cwl'
2023-09-25T16:50:26,872   adding 'janis_core/tests/data/cwl/workflows/subworkflow_test/optional_input_types.cwl'
2023-09-25T16:50:26,873   adding 'janis_core/tests/data/cwl/workflows/subworkflow_test/subworkflow.cwl'
2023-09-25T16:50:26,875   adding 'janis_core/tests/data/galaxy/annotate-my-ids-wf.ga'
2023-09-25T16:50:26,876   adding 'janis_core/tests/data/galaxy/cutadapt_wf.ga'
2023-09-25T16:50:26,878   adding 'janis_core/tests/data/galaxy/fastqc_wf.ga'
2023-09-25T16:50:26,879   adding 'janis_core/tests/data/galaxy/goseq_wf.ga'
2023-09-25T16:50:26,880   adding 'janis_core/tests/data/galaxy/hisat2_wf.ga'
2023-09-25T16:50:26,882   adding 'janis_core/tests/data/galaxy/limma_voom_wf.ga'
2023-09-25T16:50:26,883   adding 'janis_core/tests/data/galaxy/nanoplot_wf.ga'
2023-09-25T16:50:26,885   adding 'janis_core/tests/data/galaxy/rna_seq_counts_to_genes.ga'
2023-09-25T16:50:26,887   adding 'janis_core/tests/data/galaxy/rna_seq_genes_to_pathways.ga'
2023-09-25T16:50:26,889   adding 'janis_core/tests/data/galaxy/rna_seq_reads_to_counts.ga'
2023-09-25T16:50:26,892   adding 'janis_core/tests/data/galaxy/unicycler_assembly.ga'
2023-09-25T16:50:26,893   adding 'janis_core/tests/data/galaxy/wf_abricate.ga'
2023-09-25T16:50:26,895   adding 'janis_core/tests/data/galaxy/abricate/.shed.yml'
2023-09-25T16:50:26,896   adding 'janis_core/tests/data/galaxy/abricate/abricate.xml'
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2023-09-25T16:50:27,008   adding 'janis_core/tests/data/galaxy/abricate/test-data/Acetobacter.fna'
2023-09-25T16:50:28,587   adding 'janis_core/tests/data/galaxy/abricate/test-data/MRSA0252.fna'
2023-09-25T16:50:28,613   adding 'janis_core/tests/data/galaxy/abricate/test-data/output_db-card.txt'
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2023-09-25T16:50:28,625   adding 'janis_core/tests/data/galaxy/abricate/test-data/test.gbk'
2023-09-25T16:50:28,627   adding 'janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee/.hg_archival.txt'
2023-09-25T16:50:28,629   adding 'janis_core/tests/data/galaxy/fastqc-5ec9f6bceaee/rgFastQC.xml'
2023-09-25T16:50:28,631   adding 'janis_core/tests/data/galaxy/hisat2-6c19daec423d/.hg_archival.txt'
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2023-09-25T16:50:28,643   adding 'janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool_data_table_conf.xml.sample'
2023-09-25T16:50:28,644   adding 'janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool_data_table_conf.xml.test'
2023-09-25T16:50:28,646   adding 'janis_core/tests/data/galaxy/hisat2-6c19daec423d/tool-data/hisat2_indexes.loc.sample'
2023-09-25T16:50:28,648   adding 'janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5/.hg_archival.txt'
2023-09-25T16:50:28,650   adding 'janis_core/tests/data/galaxy/nanoplot-edbb6c5028f5/nanoplot.xml'
2023-09-25T16:50:28,652   adding 'janis_core/tests/data/galaxy/quast-675488238c96/macros.xml'
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2023-09-25T16:50:28,659   adding 'janis_core/tests/data/galaxy/text_processing-d698c222f354/.hg_archival.txt'
2023-09-25T16:50:28,661   adding 'janis_core/tests/data/galaxy/text_processing-d698c222f354/ansi2html.sh'
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2023-09-25T16:50:28,682   adding 'janis_core/tests/data/galaxy/text_processing-d698c222f354/readme.rst'
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2023-09-25T16:50:28,703   adding 'janis_core/tests/data/galaxy/text_processing-d698c222f354/unsorted_uniq.xml'
2023-09-25T16:50:28,706   adding 'janis_core/tests/data/janis/test_codetool.py'
2023-09-25T16:50:28,708   adding 'janis_core/tests/data/janis/simple/workflow.py'
2023-09-25T16:50:28,709   adding 'janis_core/tests/data/janis/simple/scripts/multiqc_multiqc_config'
2023-09-25T16:50:28,712   adding 'janis_core/tests/data/janis/simple/tools/fastqc.py'
2023-09-25T16:50:28,713   adding 'janis_core/tests/data/janis/simple/tools/multiqc.py'
2023-09-25T16:50:28,715   adding 'janis_core/tests/data/janis/simple/tools/prokka.py'
2023-09-25T16:50:28,717   adding 'janis_core/tests/data/janis/simple/tools/quast.py'
2023-09-25T16:50:28,719   adding 'janis_core/tests/data/janis/simple/tools/unicycler.py'
2023-09-25T16:50:28,721   adding 'janis_core/tests/data/janis/simple_truncated/scripts/multiqc_multiqc_config'
2023-09-25T16:50:28,723   adding 'janis_core/tests/data/janis/simple_truncated/tools/multiqc.py'
2023-09-25T16:50:28,725   adding 'janis_core/tests/data/janis/simple_truncated/tools/prokka.py'
2023-09-25T16:50:28,727   adding 'janis_core/tests/data/janis/simple_truncated/tools/quast.py'
2023-09-25T16:50:28,728   adding 'janis_core/tests/data/janis/wgs_somatic_dep/__init__.py'
2023-09-25T16:50:28,731   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wgssomatic.py'
2023-09-25T16:50:28,733   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wgssomatic_variantsonly.py'
2023-09-25T16:50:28,734   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/WGSSomaticMultiCallers-inp.yml'
2023-09-25T16:50:28,736   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/WGSSomaticMultiCallers_1_4_0.cwl'
2023-09-25T16:50:28,739   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/AddBamStatsSomatic_v0_1_0.cwl'
2023-09-25T16:50:28,740   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/BwaAligner_1_0_0.cwl'
2023-09-25T16:50:28,742   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/BwaMemSamtoolsView_0_7_17_1_9.cwl'
2023-09-25T16:50:28,743   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/ConcatStrelkaSomaticVcf_0_1_16.cwl'
2023-09-25T16:50:28,744   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/FilterVardictSomaticVcf_v1_9.cwl'
2023-09-25T16:50:28,746   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GATK4_SomaticVariantCaller_4_1_3_0.cwl'
2023-09-25T16:50:28,747   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.cwl'
2023-09-25T16:50:28,748   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4ApplyBQSR_4_1_3_0.cwl'
2023-09-25T16:50:28,750   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4BaseRecalibrator_4_1_3_0.cwl'
2023-09-25T16:50:28,751   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4CalculateContamination_4_1_4_0.cwl'
2023-09-25T16:50:28,753   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4CollectInsertSizeMetrics_4_1_3_0.cwl'
2023-09-25T16:50:28,754   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4FilterMutectCalls_4_1_3_0.cwl'
2023-09-25T16:50:28,756   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4GatherVcfs_4_1_3_0.cwl'
2023-09-25T16:50:28,758   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4GetPileupSummaries_4_1_6_0.cwl'
2023-09-25T16:50:28,759   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4LearnReadOrientationModel_4_1_4_0.cwl'
2023-09-25T16:50:28,761   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4MarkDuplicates_4_1_3_0.cwl'
2023-09-25T16:50:28,762   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4MergeSamFiles_4_1_3_0.cwl'
2023-09-25T16:50:28,767   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4Mutect2_4_1_3_0.cwl'
2023-09-25T16:50:28,768   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4SortSam_4_1_2_0.cwl'
2023-09-25T16:50:28,771   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/Gatk4SplitReads_4_1_3_0.cwl'
2023-09-25T16:50:28,773   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GenerateGenomeFileForBedtoolsCoverage_v0_1_0.cwl'
2023-09-25T16:50:28,774   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/GenerateVardictHeaderLines_v0_1_0.cwl'
2023-09-25T16:50:28,776   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/ParseFastqcAdaptors_v0_1_0.cwl'
2023-09-25T16:50:28,777   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/PerformanceSummaryGenome_v0_1_0.cwl'
2023-09-25T16:50:28,779   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsFlagstat_1_9_0.cwl'
2023-09-25T16:50:28,780   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsMpileup_1_9_0.cwl'
2023-09-25T16:50:28,782   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SamToolsView_1_9_0.cwl'
2023-09-25T16:50:28,783   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/SplitMultiAllele_v0_5772.cwl'
2023-09-25T16:50:28,785   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/UncompressArchive_v1_0_0.cwl'
2023-09-25T16:50:28,786   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/VcfTools_0_1_16.cwl'
2023-09-25T16:50:28,787   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/addBamStats_0_0_7.cwl'
2023-09-25T16:50:28,789   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bcftoolsAnnotate_v1_5.cwl'
2023-09-25T16:50:28,790   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bcftoolssort_v1_9.cwl'
2023-09-25T16:50:28,791   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bedtoolsgenomeCoverageBed_v2_29_2.cwl'
2023-09-25T16:50:28,793   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/bgzip_1_2_1.cwl'
2023-09-25T16:50:28,794   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/combinevariants_0_0_8.cwl'
2023-09-25T16:50:28,796   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/cutadapt_2_1.cwl'
2023-09-25T16:50:28,798   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/extractStrelkaSomaticADDP_0_1_1.cwl'
2023-09-25T16:50:28,799   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/fastqc_v0_11_8.cwl'
2023-09-25T16:50:28,800   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/gridss_v2_6_2.cwl'
2023-09-25T16:50:28,802   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/manta_1_5_0.cwl'
2023-09-25T16:50:28,803   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/mergeAndMarkBams_4_1_3.cwl'
2023-09-25T16:50:28,805   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/performanceSummary_0_0_7.cwl'
2023-09-25T16:50:28,806   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/samtools_mpileup_subpipeline.cwl'
2023-09-25T16:50:28,807   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/somatic_subpipeline.cwl'
2023-09-25T16:50:28,808   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/split_bam_subpipeline.cwl'
2023-09-25T16:50:28,809   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/strelkaSomaticVariantCaller_v0_1_1.cwl'
2023-09-25T16:50:28,811   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/strelka_somatic_2_9_10.cwl'
2023-09-25T16:50:28,813   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/tabix_1_2_1.cwl'
2023-09-25T16:50:28,814   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/trimIUPAC_0_0_5.cwl'
2023-09-25T16:50:28,815   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/vardictSomaticVariantCaller_v0_1_0.cwl'
2023-09-25T16:50:28,817   adding 'janis_core/tests/data/janis/wgs_somatic_dep/cwl/tools/vardict_somatic_1_6_0.cwl'
2023-09-25T16:50:28,819   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/WGSSomaticMultiCallers-inp.json'
2023-09-25T16:50:28,821   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/WGSSomaticMultiCallers_1_4_0.wdl'
2023-09-25T16:50:28,823   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/AddBamStatsSomatic_v0_1_0.wdl'
2023-09-25T16:50:28,825   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/BwaAligner_1_0_0.wdl'
2023-09-25T16:50:28,826   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/BwaMemSamtoolsView_0_7_17_1_9.wdl'
2023-09-25T16:50:28,827   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/ConcatStrelkaSomaticVcf_0_1_16.wdl'
2023-09-25T16:50:28,828   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/FilterVardictSomaticVcf_v1_9.wdl'
2023-09-25T16:50:28,830   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GATK4_SomaticVariantCaller_4_1_3_0.wdl'
2023-09-25T16:50:28,831   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GATKBaseRecalBQSRWorkflow_4_1_3.wdl'
2023-09-25T16:50:28,832   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4ApplyBQSR_4_1_3_0.wdl'
2023-09-25T16:50:28,834   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4BaseRecalibrator_4_1_3_0.wdl'
2023-09-25T16:50:28,835   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4CalculateContamination_4_1_4_0.wdl'
2023-09-25T16:50:28,836   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4CollectInsertSizeMetrics_4_1_3_0.wdl'
2023-09-25T16:50:28,837   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4FilterMutectCalls_4_1_3_0.wdl'
2023-09-25T16:50:28,839   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4GatherVcfs_4_1_3_0.wdl'
2023-09-25T16:50:28,840   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4GetPileupSummaries_4_1_6_0.wdl'
2023-09-25T16:50:28,841   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4LearnReadOrientationModel_4_1_4_0.wdl'
2023-09-25T16:50:28,842   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4MarkDuplicates_4_1_3_0.wdl'
2023-09-25T16:50:28,843   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4MergeSamFiles_4_1_3_0.wdl'
2023-09-25T16:50:28,846   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4Mutect2_4_1_3_0.wdl'
2023-09-25T16:50:28,847   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4SortSam_4_1_2_0.wdl'
2023-09-25T16:50:28,849   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/Gatk4SplitReads_4_1_3_0.wdl'
2023-09-25T16:50:28,850   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GenerateGenomeFileForBedtoolsCoverage_v0_1_0.wdl'
2023-09-25T16:50:28,851   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/GenerateVardictHeaderLines_v0_1_0.wdl'
2023-09-25T16:50:28,853   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/ParseFastqcAdaptors_v0_1_0.wdl'
2023-09-25T16:50:28,854   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/PerformanceSummaryGenome_v0_1_0.wdl'
2023-09-25T16:50:28,855   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsFlagstat_1_9_0.wdl'
2023-09-25T16:50:28,856   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsMpileup_1_9_0.wdl'
2023-09-25T16:50:28,858   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SamToolsView_1_9_0.wdl'
2023-09-25T16:50:28,859   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/SplitMultiAllele_v0_5772.wdl'
2023-09-25T16:50:28,860   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/UncompressArchive_v1_0_0.wdl'
2023-09-25T16:50:28,861   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/VcfTools_0_1_16.wdl'
2023-09-25T16:50:28,863   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/addBamStats_0_0_7.wdl'
2023-09-25T16:50:28,864   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bcftoolsAnnotate_v1_5.wdl'
2023-09-25T16:50:28,865   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bcftoolssort_v1_9.wdl'
2023-09-25T16:50:28,867   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bedtoolsgenomeCoverageBed_v2_29_2.wdl'
2023-09-25T16:50:28,868   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/bgzip_1_2_1.wdl'
2023-09-25T16:50:28,869   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/combinevariants_0_0_8.wdl'
2023-09-25T16:50:28,871   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/cutadapt_2_1.wdl'
2023-09-25T16:50:28,872   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/extractStrelkaSomaticADDP_0_1_1.wdl'
2023-09-25T16:50:28,873   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/fastqc_v0_11_8.wdl'
2023-09-25T16:50:28,874   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/gridss_v2_6_2.wdl'
2023-09-25T16:50:28,876   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/manta_1_5_0.wdl'
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2023-09-25T16:50:28,879   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/samtools_mpileup_subpipeline.wdl'
2023-09-25T16:50:28,881   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/somatic_subpipeline.wdl'
2023-09-25T16:50:28,882   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/split_bam_subpipeline.wdl'
2023-09-25T16:50:28,883   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/strelkaSomaticVariantCaller_v0_1_1.wdl'
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2023-09-25T16:50:28,886   adding 'janis_core/tests/data/janis/wgs_somatic_dep/wdl/tools/trimIUPAC_0_0_5.wdl'
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2023-09-25T16:50:28,893   adding 'janis_core/tests/data/wdl/Multisample_jointgt_GATK4.wdl'
2023-09-25T16:50:28,894   adding 'janis_core/tests/data/wdl/bwa.wdl'
2023-09-25T16:50:28,897   adding 'janis_core/tests/data/wdl/somatic_wf.wdl'
2023-09-25T16:50:28,899   adding 'janis_core/tests/integration/README.md'
2023-09-25T16:50:28,900   adding 'janis_core/tests/integration/__init__.py'
2023-09-25T16:50:28,901   adding 'janis_core/tests/integration/test_directorygenerator.py'
2023-09-25T16:50:28,903   adding 'janis_core/tests/mock/__init__.py'
2023-09-25T16:50:28,904   adding 'janis_core/tests/mock/mock_components.py'
2023-09-25T16:50:28,905   adding 'janis_core/tests/mock/mock_entities.py'
2023-09-25T16:50:28,906   adding 'janis_core/tests/mock/mock_metadata.py'
2023-09-25T16:50:28,907   adding 'janis_core/tests/mock/mock_params.py'
2023-09-25T16:50:28,909   adding 'janis_core/tests/mock/mock_tool.py'
2023-09-25T16:50:28,910   adding 'janis_core/tests/mock/mock_workflow.py'
2023-09-25T16:50:28,911   adding 'janis_core/tests/mock/mock_xmltool.py'
2023-09-25T16:50:28,912   adding 'janis_core/tests/mock/cwl/__init__.py'
2023-09-25T16:50:28,914   adding 'janis_core/tests/mock/cwl/tools.py'
2023-09-25T16:50:28,915   adding 'janis_core/tests/mock/cwl/workflows.py'
2023-09-25T16:50:28,917   adding 'janis_core/tests/testtools/__init__.py'
2023-09-25T16:50:28,918   adding 'janis_core/tests/testtools/arrays.py'
2023-09-25T16:50:28,919   adding 'janis_core/tests/testtools/basics.py'
2023-09-25T16:50:28,921   adding 'janis_core/tests/testtools/bwamem.py'
2023-09-25T16:50:28,922   adding 'janis_core/tests/testtools/components.py'
2023-09-25T16:50:28,924   adding 'janis_core/tests/testtools/fastqc.py'
2023-09-25T16:50:28,926   adding 'janis_core/tests/testtools/gridss.py'
2023-09-25T16:50:28,927   adding 'janis_core/tests/testtools/misc_codetools.py'
2023-09-25T16:50:28,928   adding 'janis_core/tests/testtools/misc_commandtools.py'
2023-09-25T16:50:28,930   adding 'janis_core/tests/testtools/types.py'
2023-09-25T16:50:28,932   adding 'janis_core/tests/testtools/unicycler.py'
2023-09-25T16:50:28,934   adding 'janis_core/tests/testworkflows/__init__.py'
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2023-09-25T16:50:28,937   adding 'janis_core/tests/testworkflows/all_input_types.py'
2023-09-25T16:50:28,939   adding 'janis_core/tests/testworkflows/assembly.py'
2023-09-25T16:50:28,940   adding 'janis_core/tests/testworkflows/basics.py'
2023-09-25T16:50:28,942   adding 'janis_core/tests/testworkflows/call.py'
2023-09-25T16:50:28,943   adding 'janis_core/tests/testworkflows/codetools.py'
2023-09-25T16:50:28,944   adding 'janis_core/tests/testworkflows/combos.py'
2023-09-25T16:50:28,946   adding 'janis_core/tests/testworkflows/components.py'
2023-09-25T16:50:28,947   adding 'janis_core/tests/testworkflows/data_sources.py'
2023-09-25T16:50:28,948   adding 'janis_core/tests/testworkflows/duplicate_tasks.py'
2023-09-25T16:50:28,950   adding 'janis_core/tests/testworkflows/file_pairs.py'
2023-09-25T16:50:28,951   adding 'janis_core/tests/testworkflows/filenames.py'
2023-09-25T16:50:28,953   adding 'janis_core/tests/testworkflows/files_directories_to_create.py'
2023-09-25T16:50:28,954   adding 'janis_core/tests/testworkflows/mandatory_types.py'
2023-09-25T16:50:28,955   adding 'janis_core/tests/testworkflows/minimal_task_inputs.py'
2023-09-25T16:50:28,957   adding 'janis_core/tests/testworkflows/naming.py'
2023-09-25T16:50:28,958   adding 'janis_core/tests/testworkflows/operations.py'
2023-09-25T16:50:28,959   adding 'janis_core/tests/testworkflows/optional_types.py'
2023-09-25T16:50:28,960   adding 'janis_core/tests/testworkflows/ordering.py'
2023-09-25T16:50:28,961   adding 'janis_core/tests/testworkflows/outputs.py'
2023-09-25T16:50:28,963   adding 'janis_core/tests/testworkflows/plumbing_edge_cases.py'
2023-09-25T16:50:28,964   adding 'janis_core/tests/testworkflows/plumbing_scatter.py'
2023-09-25T16:50:28,965   adding 'janis_core/tests/testworkflows/plumbing_type_mismatch.py'
2023-09-25T16:50:28,966   adding 'janis_core/tests/testworkflows/preprocessing_prune.py'
2023-09-25T16:50:28,968   adding 'janis_core/tests/testworkflows/process_inputs.py'
2023-09-25T16:50:28,969   adding 'janis_core/tests/testworkflows/scatter.py'
2023-09-25T16:50:28,970   adding 'janis_core/tests/testworkflows/script.py'
2023-09-25T16:50:28,972   adding 'janis_core/tests/testworkflows/secondaries.py'
2023-09-25T16:50:28,973   adding 'janis_core/tests/testworkflows/string_formatter.py'
2023-09-25T16:50:28,974   adding 'janis_core/tests/testworkflows/subworkflow.py'
2023-09-25T16:50:28,976   adding 'janis_core/tests/testworkflows/subworkflow2.py'
2023-09-25T16:50:28,977   adding 'janis_core/tests/testworkflows/trace.py'
2023-09-25T16:50:28,978   adding 'janis_core/tests/testworkflows/unwrap.py'
2023-09-25T16:50:28,980   adding 'janis_core/tool/__init__.py'
2023-09-25T16:50:28,981   adding 'janis_core/tool/batchrun.py'
2023-09-25T16:50:28,985   adding 'janis_core/tool/commandtool.py'
2023-09-25T16:50:28,987   adding 'janis_core/tool/cwl_tool_parser.py'
2023-09-25T16:50:28,988   adding 'janis_core/tool/documentation.py'
2023-09-25T16:50:28,989   adding 'janis_core/tool/test_classes.py'
2023-09-25T16:50:28,991   adding 'janis_core/tool/test_definitions.py'
2023-09-25T16:50:28,992   adding 'janis_core/tool/test_helpers.py'
2023-09-25T16:50:28,995   adding 'janis_core/tool/test_suite_runner.py'
2023-09-25T16:50:28,997   adding 'janis_core/tool/tool.py'
2023-09-25T16:50:28,998   adding 'janis_core/toolbox/__init__.py'
2023-09-25T16:50:29,000   adding 'janis_core/toolbox/entrypoints.py'
2023-09-25T16:50:29,001   adding 'janis_core/toolbox/register.py'
2023-09-25T16:50:29,003   adding 'janis_core/toolbox/toolbox.py'
2023-09-25T16:50:29,005   adding 'janis_core/transformation/__init__.py'
2023-09-25T16:50:29,007   adding 'janis_core/translation_deps/__init__.py'
2023-09-25T16:50:29,008   adding 'janis_core/translation_deps/exportpath.py'
2023-09-25T16:50:29,009   adding 'janis_core/translation_deps/supportedtranslations.py'
2023-09-25T16:50:29,011   adding 'janis_core/translation_utils/__init__.py'
2023-09-25T16:50:29,012   adding 'janis_core/translation_utils/datatypes.py'
2023-09-25T16:50:29,014   adding 'janis_core/translation_utils/graph.py'
2023-09-25T16:50:29,016   adding 'janis_core/translations/__init__.py'
2023-09-25T16:50:29,017   adding 'janis_core/translations/main.py'
2023-09-25T16:50:29,020   adding 'janis_core/translations/translationbase.py'
2023-09-25T16:50:29,021   adding 'janis_core/translations/common/__init__.py'
2023-09-25T16:50:29,023   adding 'janis_core/translations/common/trace.py'
2023-09-25T16:50:29,025   adding 'janis_core/translations/common/preprocessing/__init__.py'
2023-09-25T16:50:29,026   adding 'janis_core/translations/common/preprocessing/builders/__init__.py'
2023-09-25T16:50:29,028   adding 'janis_core/translations/common/preprocessing/builders/main.py'
2023-09-25T16:50:29,029   adding 'janis_core/translations/common/preprocessing/prune/__init__.py'
2023-09-25T16:50:29,031   adding 'janis_core/translations/common/preprocessing/prune/common.py'
2023-09-25T16:50:29,032   adding 'janis_core/translations/common/preprocessing/prune/gather.py'
2023-09-25T16:50:29,034   adding 'janis_core/translations/common/preprocessing/prune/history.py'
2023-09-25T16:50:29,035   adding 'janis_core/translations/common/preprocessing/prune/main.py'
2023-09-25T16:50:29,036   adding 'janis_core/translations/common/preprocessing/prune/tools.py'
2023-09-25T16:50:29,037   adding 'janis_core/translations/common/preprocessing/prune/workflows.py'
2023-09-25T16:50:29,039   adding 'janis_core/translations/cwl/__init__.py'
2023-09-25T16:50:29,046   adding 'janis_core/translations/cwl/main.py'
2023-09-25T16:50:29,048   adding 'janis_core/translations/janis/__init__.py'
2023-09-25T16:50:29,051   adding 'janis_core/translations/janis/main.py'
2023-09-25T16:50:29,053   adding 'janis_core/translations/nextflow/__init__.py'
2023-09-25T16:50:29,054   adding 'janis_core/translations/nextflow/expressions.py'
2023-09-25T16:50:29,056   adding 'janis_core/translations/nextflow/main.py'
2023-09-25T16:50:29,057   adding 'janis_core/translations/nextflow/nfgen_utils.py'
2023-09-25T16:50:29,058   adding 'janis_core/translations/nextflow/nulls.py'
2023-09-25T16:50:29,060   adding 'janis_core/translations/nextflow/scope.py'
2023-09-25T16:50:29,061   adding 'janis_core/translations/nextflow/task_inputs.py'
2023-09-25T16:50:29,065   adding 'janis_core/translations/nextflow/unwrap.py'
2023-09-25T16:50:29,067   adding 'janis_core/translations/nextflow/variables.py'
2023-09-25T16:50:29,068   adding 'janis_core/translations/nextflow/casefmt/__init__.py'
2023-09-25T16:50:29,069   adding 'janis_core/translations/nextflow/casefmt/casefmt.py'
2023-09-25T16:50:29,070   adding 'janis_core/translations/nextflow/casefmt/mapping.py'
2023-09-25T16:50:29,071   adding 'janis_core/translations/nextflow/casefmt/patterns.py'
2023-09-25T16:50:29,073   adding 'janis_core/translations/nextflow/generate/__init__.py'
2023-09-25T16:50:29,075   adding 'janis_core/translations/nextflow/generate/config.py'
2023-09-25T16:50:29,076   adding 'janis_core/translations/nextflow/generate/files/__init__.py'
2023-09-25T16:50:29,078   adding 'janis_core/translations/nextflow/generate/files/channel_declarations.py'
2023-09-25T16:50:29,079   adding 'janis_core/translations/nextflow/generate/files/main.py'
2023-09-25T16:50:29,081   adding 'janis_core/translations/nextflow/generate/files/process.py'
2023-09-25T16:50:29,082   adding 'janis_core/translations/nextflow/generate/files/variable_declarations.py'
2023-09-25T16:50:29,083   adding 'janis_core/translations/nextflow/generate/files/workflow.py'
2023-09-25T16:50:29,085   adding 'janis_core/translations/nextflow/generate/process/__init__.py'
2023-09-25T16:50:29,087   adding 'janis_core/translations/nextflow/generate/process/directives.py'
2023-09-25T16:50:29,088   adding 'janis_core/translations/nextflow/generate/process/inputs.py'
2023-09-25T16:50:29,090   adding 'janis_core/translations/nextflow/generate/process/main.py'
2023-09-25T16:50:29,092   adding 'janis_core/translations/nextflow/generate/process/outputs/__init__.py'
2023-09-25T16:50:29,094   adding 'janis_core/translations/nextflow/generate/process/outputs/factory_cmdtool.py'
2023-09-25T16:50:29,095   adding 'janis_core/translations/nextflow/generate/process/outputs/factory_pythontool.py'
2023-09-25T16:50:29,097   adding 'janis_core/translations/nextflow/generate/process/outputs/main.py'
2023-09-25T16:50:29,098   adding 'janis_core/translations/nextflow/generate/process/script/__init__.py'
2023-09-25T16:50:29,100   adding 'janis_core/translations/nextflow/generate/process/script/attributes.py'
2023-09-25T16:50:29,101   adding 'janis_core/translations/nextflow/generate/process/script/common.py'
2023-09-25T16:50:29,102   adding 'janis_core/translations/nextflow/generate/process/script/ctype.py'
2023-09-25T16:50:29,104   adding 'janis_core/translations/nextflow/generate/process/script/main.py'
2023-09-25T16:50:29,105   adding 'janis_core/translations/nextflow/generate/process/script/ordering.py'
2023-09-25T16:50:29,108   adding 'janis_core/translations/nextflow/generate/process/script/prescript.py'
2023-09-25T16:50:29,110   adding 'janis_core/translations/nextflow/generate/process/script/script.py'
2023-09-25T16:50:29,111   adding 'janis_core/translations/nextflow/generate/process/script/selection.py'
2023-09-25T16:50:29,113   adding 'janis_core/translations/nextflow/generate/workflow/__init__.py'
2023-09-25T16:50:29,115   adding 'janis_core/translations/nextflow/generate/workflow/call.py'
2023-09-25T16:50:29,116   adding 'janis_core/translations/nextflow/generate/workflow/common.py'
2023-09-25T16:50:29,117   adding 'janis_core/translations/nextflow/generate/workflow/datatype_mismatch.py'
2023-09-25T16:50:29,118   adding 'janis_core/translations/nextflow/generate/workflow/edge_cases.py'
2023-09-25T16:50:29,120   adding 'janis_core/translations/nextflow/generate/workflow/main.py'
2023-09-25T16:50:29,121   adding 'janis_core/translations/nextflow/generate/workflow/scatter.py'
2023-09-25T16:50:29,123   adding 'janis_core/translations/nextflow/model/__init__.py'
2023-09-25T16:50:29,124   adding 'janis_core/translations/nextflow/model/files/__init__.py'
2023-09-25T16:50:29,126   adding 'janis_core/translations/nextflow/model/files/channels.py'
2023-09-25T16:50:29,127   adding 'janis_core/translations/nextflow/model/files/files.py'
2023-09-25T16:50:29,128   adding 'janis_core/translations/nextflow/model/files/variables.py'
2023-09-25T16:50:29,130   adding 'janis_core/translations/nextflow/model/process/__init__.py'
2023-09-25T16:50:29,131   adding 'janis_core/translations/nextflow/model/process/directives.py'
2023-09-25T16:50:29,132   adding 'janis_core/translations/nextflow/model/process/inputs.py'
2023-09-25T16:50:29,133   adding 'janis_core/translations/nextflow/model/process/outputs.py'
2023-09-25T16:50:29,135   adding 'janis_core/translations/nextflow/model/process/process.py'
2023-09-25T16:50:29,136   adding 'janis_core/translations/nextflow/model/workflow/__init__.py'
2023-09-25T16:50:29,138   adding 'janis_core/translations/nextflow/model/workflow/workflow.py'
2023-09-25T16:50:29,140   adding 'janis_core/translations/nextflow/naming/__init__.py'
2023-09-25T16:50:29,141   adding 'janis_core/translations/nextflow/naming/constructs.py'
2023-09-25T16:50:29,142   adding 'janis_core/translations/nextflow/naming/process.py'
2023-09-25T16:50:29,144   adding 'janis_core/translations/nextflow/params/__init__.py'
2023-09-25T16:50:29,145   adding 'janis_core/translations/nextflow/params/main.py'
2023-09-25T16:50:29,147   adding 'janis_core/translations/nextflow/params/update.py'
2023-09-25T16:50:29,149   adding 'janis_core/translations/nextflow/preprocessing/__init__.py'
2023-09-25T16:50:29,150   adding 'janis_core/translations/nextflow/preprocessing/unique_task_names.py'
2023-09-25T16:50:29,151   adding 'janis_core/translations/nextflow/preprocessing/task_inputs/__init__.py'
2023-09-25T16:50:29,153   adding 'janis_core/translations/nextflow/preprocessing/task_inputs/categories.py'
2023-09-25T16:50:29,154   adding 'janis_core/translations/nextflow/preprocessing/task_inputs/common.py'
2023-09-25T16:50:29,156   adding 'janis_core/translations/nextflow/preprocessing/task_inputs/history.py'
2023-09-25T16:50:29,157   adding 'janis_core/translations/nextflow/preprocessing/task_inputs/main.py'
2023-09-25T16:50:29,159   adding 'janis_core/translations/nextflow/preprocessing/task_inputs/populator.py'
2023-09-25T16:50:29,160   adding 'janis_core/translations/wdl/__init__.py'
2023-09-25T16:50:29,170   adding 'janis_core/translations/wdl/main.py'
2023-09-25T16:50:29,172   adding 'janis_core/translations/wdl/ordering.py'
2023-09-25T16:50:29,174   adding 'janis_core/types/__init__.py'
2023-09-25T16:50:29,177   adding 'janis_core/types/common_data_types.py'
2023-09-25T16:50:29,179   adding 'janis_core/types/data_types.py'
2023-09-25T16:50:29,181   adding 'janis_core/utils/__init__.py'
2023-09-25T16:50:29,183   adding 'janis_core/utils/bracketmatching.py'
2023-09-25T16:50:29,184   adding 'janis_core/utils/docparser_info.py'
2023-09-25T16:50:29,185   adding 'janis_core/utils/errors.py'
2023-09-25T16:50:29,187   adding 'janis_core/utils/generators.py'
2023-09-25T16:50:29,188   adding 'janis_core/utils/generics_util.py'
2023-09-25T16:50:29,189   adding 'janis_core/utils/janisconstants.py'
2023-09-25T16:50:29,190   adding 'janis_core/utils/levenshteindistance.py'
2023-09-25T16:50:29,192   adding 'janis_core/utils/logger.py'
2023-09-25T16:50:29,193   adding 'janis_core/utils/metadata.py'
2023-09-25T16:50:29,194   adding 'janis_core/utils/pickvalue.py'
2023-09-25T16:50:29,195   adding 'janis_core/utils/scatter.py'
2023-09-25T16:50:29,196   adding 'janis_core/utils/secondary.py'
2023-09-25T16:50:29,197   adding 'janis_core/utils/validators.py'
2023-09-25T16:50:29,198   adding 'janis_core/utils/yaml_utils.py'
2023-09-25T16:50:29,200   adding 'janis_core/workflow/__init__.py'
2023-09-25T16:50:29,206   adding 'janis_core/workflow/workflow.py'
2023-09-25T16:50:29,213   adding 'janis_pipelines.core-0.13.0.dist-info/LICENSE'
2023-09-25T16:50:29,220   adding 'janis_pipelines.core-0.13.0.dist-info/METADATA'
2023-09-25T16:50:29,221   adding 'janis_pipelines.core-0.13.0.dist-info/WHEEL'
2023-09-25T16:50:29,222   adding 'janis_pipelines.core-0.13.0.dist-info/top_level.txt'
2023-09-25T16:50:29,264   adding 'janis_pipelines.core-0.13.0.dist-info/RECORD'
2023-09-25T16:50:29,749   removing build/bdist.linux-armv7l/wheel
2023-09-25T16:50:30,480   Building wheel for janis-pipelines-core (pyproject.toml): finished with status 'done'
2023-09-25T16:50:32,193   Created wheel for janis-pipelines-core: filename=janis_pipelines.core-0.13.0-py3-none-any.whl size=75006090 sha256=1486d6ca7e092e3416fdbda08f0a22e700813a535c64c707ebe24987bf2e6443
2023-09-25T16:50:32,194   Stored in directory: /tmp/pip-ephem-wheel-cache-mt3607_o/wheels/6d/21/13/994586bc61d6558726c0f76bd03ed29fae374ce8e896db6f15
2023-09-25T16:50:32,315 Successfully built janis-pipelines-core
2023-09-25T16:50:34,100 Removed build tracker: '/tmp/pip-build-tracker-mb9mc3mr'