2026-02-14T09:49:05,783 Created temporary directory: /tmp/pip-ephem-wheel-cache-0baqzv8r 2026-02-14T09:49:05,785 Created temporary directory: /tmp/pip-build-tracker-eun2ujhg 2026-02-14T09:49:05,785 Initialized build tracking at /tmp/pip-build-tracker-eun2ujhg 2026-02-14T09:49:05,786 Created build tracker: /tmp/pip-build-tracker-eun2ujhg 2026-02-14T09:49:05,786 Entered build tracker: /tmp/pip-build-tracker-eun2ujhg 2026-02-14T09:49:05,787 Created temporary directory: /tmp/pip-wheel-tzv8lopx 2026-02-14T09:49:05,790 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-02-14T09:49:05,792 Created temporary directory: /tmp/pip-ephem-wheel-cache-jkrullk7 2026-02-14T09:49:05,814 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-02-14T09:49:05,817 2 location(s) to search for versions of rna-tools: 2026-02-14T09:49:05,817 * https://pypi.org/simple/rna-tools/ 2026-02-14T09:49:05,817 * https://www.piwheels.org/simple/rna-tools/ 2026-02-14T09:49:05,818 Fetching project page and analyzing links: https://pypi.org/simple/rna-tools/ 2026-02-14T09:49:05,819 Getting page https://pypi.org/simple/rna-tools/ 2026-02-14T09:49:05,820 Found index url https://pypi.org/simple 2026-02-14T09:49:06,033 Fetched page https://pypi.org/simple/rna-tools/ as application/vnd.pypi.simple.v1+json 2026-02-14T09:49:06,057 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/27/ac/deae7e0ec9e64474a213fa4df809dfc43e5626df0b915eb7c8f51d4f9f85/rna_tools-2.25.post0.dev1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,057 Found link https://files.pythonhosted.org/packages/0c/8d/174c2cc3b4e5021404cd7d7138ccee40167ac352360bcc3b91b44e971d32/rna_tools-2.25.post0.dev1.tar.gz (from https://pypi.org/simple/rna-tools/), version: 2.25.post0.dev1 2026-02-14T09:49:06,058 Found link https://files.pythonhosted.org/packages/4e/b0/7b809484967fa28b258a2b68c30d7bec5888457b012992c55f76758818e0/rna-tools-3.1.1.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.1.1 2026-02-14T09:49:06,059 Found link https://files.pythonhosted.org/packages/3a/6e/619cc9d4a4517d045024cd088ac8eb1401de769b1d43b6d93515250796a6/rna-tools-3.1.2.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.1.2 2026-02-14T09:49:06,060 Found link https://files.pythonhosted.org/packages/2d/86/a2df5021c279e41666877725c5770257c314352b318ec7e88a53897aaccf/rna-tools-3.1.3.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.1.3 2026-02-14T09:49:06,060 Found link https://files.pythonhosted.org/packages/29/e6/6201a362652c44313c09dbbd0c09f8e03334ca6ec37700a56ec2480eac0b/rna-tools-3.1.4.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.1.4 2026-02-14T09:49:06,061 Found link https://files.pythonhosted.org/packages/ad/08/c05b1a785580e53d5107fde09d06c9f076e5ce9e89cee6bdea4699bebdcd/rna-tools-3.1.5.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.1.5 2026-02-14T09:49:06,062 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/c4/33/e4b1d8eed4ea20405b2d367efbffeb72cbf30a70a0ce70cbcae759eb6c7d/rna_tools-3.1.13-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,062 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/c2/24/c921860b5a13a32f0e2f00e7d73269b509f111b98596a88e8ebe7ec7a7ae/rna_tools-3.1.13-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,063 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/73/b9/1be32009d9faf65c962c7fbe9ee1c0859ba673aa6172460db0c38377655c/rna_tools-3.1.14-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,064 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/6e/24/f7f29f36739ec89cbfeaf6a4245066692d37b5b8a74820c2654755d5e7cd/rna_tools-3.1.14-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,065 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/b2/3f/b1f1e72c6b6153e1437fdca77382d846301917a78d21e12e04b0df321cda/rna_tools-3.1.15-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,065 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/12/5a/145d125ceff05d7df087df1a07a598fd21c4b9ce47a66485dd983706a3d4/rna_tools-3.3-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,066 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/5a/d6/077b9f7eb98bd263303f37aa208340baf9b72c006db57c5039f5671fdfd2/rna_tools-3.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,066 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/be/dd/253fac044d33bef68872170ba60f1b4bd10192d3e991a388c12aefa7ce94/rna_tools-3.3.1-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,066 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d7/fc/933c581bd2c81204aae2de47c89f610c9db9bee96f1db8cd8effea16bf78/rna_tools-3.3.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,067 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/5f/b2/062399b540ef2a40520d6d912209721ee7fc1268abcff3c304fc5fcde93d/rna_tools-3.3.2-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,068 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/63/3d/c5ec1795c49e47d1a2c8ce53fd6af723be70ea726eefa1c20cbcba793fcc/rna_tools-3.4.0-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,068 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/26/fd/a1b2383b98af42ac57521a2d247f301d508afd5dd63d02974a6bece261ce/rna_tools-3.4.0-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,069 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/31/38/4544bbb5588b52df0910454554b071443046560010b372f3dd09379d1cc0/rna_tools-3.4.1-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,070 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/01/ae/a6fe7fea76005d4cfc4e81e06667c3001b9ae238f7be5d4426eab3aa88dd/rna_tools-3.4.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,070 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/4f/c4/a757665c0966491112436e87e33c3b73816becc399c952fbcaa6d2e478e8/rna_tools-3.4.2-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,071 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/3e/f0/509614a6c9b455f44506e0eae5128f0922aea9a03726dbdda6bd92fa429a/rna_tools-3.4.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,072 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/e0/f4/d5691aedc69811d854c2ed029943694a6e5e21f2e3ce6918545138702eae/rna_tools-3.4.4-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,072 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/42/d9/16a66c5c8c39d68ccb8dbf8027e38933ac464a1eb9a0850be92cfbc96b26/rna_tools-3.4.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,073 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/fa/5d/46ba78f2bd54c6f2576825b2d542f44a3097123a9a7ff232cbbc914046d1/rna_tools-3.4.5-py2-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,074 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/f8/26/19de2ffc593a9ace2fdce3d8dfa00e4227ac58861a154b84ddd614b56b24/rna_tools-3.4.5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,075 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/65/74/11aa2c3d6272e3cbb813eaf551a11cb030d00d1466c1071eb8eed4c4a985/rna_tools-3.4.7-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,075 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d1/3b/c6e86cb322748b49fa7168f279dffb967b80e597ac469307f0ab0ed9cb35/rna_tools-3.5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,076 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/8a/7c/448be21c0ad13d21bec53d6840133e4de88b5c5335db3edc719bbadb9252/rna_tools-3.5.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,076 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/22/10/073230e8ddb3cfeb67b983758e66c126f778e268a55332eeb5273f4ed4cc/rna_tools-3.5.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,077 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/e0/92/4010b5d4bacc7047fb68d0eb51aa21d18968bead37b87bad04c07730b855/rna_tools-3.5.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,078 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ac/4c/606fe4ea704d03e186e82e2cc94e01f4c895e9c1cb0dac8d72bd613b3644/rna_tools-3.5.5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,078 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/f6/e8/647108209022fa3ff2b69af1ed16a861981096211df6efe0d8dc1da056d5/rna_tools-3.6-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,079 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/03/85/c816e24a9acd50ab582bfba3048f23f1a59a012cd8e979c93b4634027b35/rna_tools-3.6.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,080 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/c3/07/9121662b6e2315c661bc2ec4b01078ac4be2d1ace7b4a18fbffe2070bcb9/rna_tools-3.6.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,080 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/71/c0/b24b9f2ca47de749f7ae0e101decd08d4232cf27efe963713084313aac49/rna_tools-3.7-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,081 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/5c/6e/bf780dabac571b88eb52a559f1533e827682391a7f9462edbea1347ee930/rna_tools-3.7.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,082 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/c4/67/140758300c943992c4674f6ce353cc9cef735fa10ac000f95878386d7141/rna_tools-3.7.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,082 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/a1/d3/2e1570a828267c1c3677bc4717e043bbf9aea35f26cd2bb32ce96d3151ca/rna_tools-3.7.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,083 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ea/c8/cd108dbd0fa39e25e8cb148e6b97ddf0397f88f3cced794e87794c188729/rna_tools-3.7.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,084 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d6/28/ea20784ef8ee605834b4b5fa95cc749eea4567467e3079e6b792db58967e/rna_tools-3.7.7-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,084 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/49/b2/418968051e4994ea647336f1af0f0382df2f6b0f9d3f1635a69d9fe08ce5/rna_tools-3.7.8-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,085 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/9d/f2/ec9545598fbac1355d120ee3f9510ef9601a503a5d82ea0a9d18284f93ec/rna_tools-3.7.9-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,086 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d4/f8/2b25b41f563c317eee2f82ea53c3531f141cfb71b2a4b25398b6f026e4b4/rna_tools-3.7.10-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,086 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/bb/e2/732a7ee1a6efe5190598294da98d8742c4734660c87fe8ff62a3e2dadefe/rna_tools-3.7.11-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,087 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/06/33/f1200ba13560982209354d0f0dc5e7497ade51d176f68a8dbcc229fe1085/rna_tools-3.7.12-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,087 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/a2/71/528a9fa0822567e48d0e5fd72dacdf52547145fcf5dcc5f09536bd255f49/rna_tools-3.7.13-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,088 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/74/8c/77cfd3f1294bc4935f10f93c6e69a86189948fd06d2e31e6d48e24a6063a/rna_tools-3.7.14-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,088 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/1e/fe/1c9720fa09b24440bb9508d8a2673892884c5fc5d5b4bff841bd886761c5/rna_tools-3.7.15-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,089 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/62/f4/de8d6b19a9dabbbd5a8672d81ab7f7f68949296f32336c34bd5acdd2a886/rna_tools-3.7.16-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,089 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d8/28/1755c749204d19d1fd735232db7ad6c8928e288550ba6fddd0b48b2083b3/rna_tools-3.7.17-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,090 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/f0/e0/fbf930d498bc90f307f86930fda2f56e7590c01b9cc4dda83c5b15427f9d/rna_tools-3.7.18-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,091 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/b2/8f/e41975acb770b3e281c7f97d44d77a92fd0f2e4e39f3a4a65a111e7a4c70/rna_tools-3.7.19-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,091 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/6a/70/caa40cbda37adcd6377f6205b5e6d774086303f39925beae98fd84ed5d6d/rna_tools-3.7.20-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,092 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/25/9a/56c5f0c92bb506fcfafcc848ed06d08ff2bfb730cdfeae3451222464deb2/rna_tools-3.7.22-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,092 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/7a/8b/f52c6a0d5ffdff0fe5e28fcb8e8f6a8ec0421d063e71395ba517bb393f25/rna_tools-3.8.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,093 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/2b/ca/e524f597d52d15e99d8b70a8a7c00a917849f1e0fd7414463f5bab23cb47/rna_tools-3.8.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,094 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/fc/28/54f42db5d1d8058ac335285407279b707fba209f5002f9d45fb13a5507c2/rna_tools-3.8.5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,095 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/a5/23/4d5f4be246b1d866327d5cc6efa1c4b508e3ca659cfdc33efceda1613518/rna_tools-3.8.6-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,095 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/74/16/6aff151c887e257c2fd04783cc15d315259381c0865037272f3eb6750e61/rna_tools-3.8.10-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,096 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/dd/c2/ffe7c96c9e912798393a688c112e755a001ffa521d885176976b48af6fc6/rna_tools-3.8.11-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,096 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ca/e2/fd4e35ad632d744c9e649f94344d4ab386980ae8a9d4bc22eb1b6d9f714e/rna_tools-3.8.11.post0.dev2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,097 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/7b/0f/5d2c73ef6ea38577d7edcf672f6c5a824ec5dbdcc8d792459cc7388dffa3/rna_tools-3.8.11.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,097 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/fa/cf/c680eae9f1392cab967fbe874217e831caae3e98fca3a9371bd98c3d5826/rna_tools-3.8.12-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,098 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/21/be/f365909ad856cc82358fb1007a5a6c2ee3427df19657f6234c5f1a128d62/rna_tools-3.8.12.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,099 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ac/cc/c2e8ab56ec3e8afea1a1d1e967056886b039003d3888281d830739fafecf/rna_tools-3.8.13-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,099 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/c4/78/078f7ea5add75c135733e1365612361f8a6ee6077af018ed2890f409cddd/rna_tools-3.8.13.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,100 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/a8/49/61592eaef9a7553b4c818c2f882c8f88dd316bfd99a8a3fe2ec0e46e09c8/rna_tools-3.8.13.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,101 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ee/65/d194e4298660f28ae9a94d354a9293f7b5f5aa1e2f5039e5ad0438a9eeac/rna_tools-3.8.13.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,101 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/52/89/819d64bebf0b9d8261cb3318a4aed594c31d5f0b15d277e4edb843e8e0a0/rna_tools-3.8.13.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,102 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/a7/f9/c7b24e5d95b20e4ae941a9e6bbd90632050152139a334a6c631725aa2d03/rna_tools-3.10.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,102 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/6f/98/7796b6a8338b05adc8a915a5bc4ac6b7b974250185d753a9005b56957b98/rna_tools-3.10.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,103 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/e8/1f/588323aeb6c84cac9d37997b5fcad13129a3d7f70ab890b23de28a24c064/rna_tools-3.10.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,104 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ab/5d/89eed5c36ae6fbce2435acc0415731289a8d27a64eab93a22442eb91cd50/rna_tools-3.10.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,105 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/64/65/b3d51217885a1fab05924c5fa06e406229d35eb0d9595dfb893f8d3d29a5/rna_tools-3.11-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,105 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/8b/53/af165acc9659a515960b0509465ca519ad819302bb46ed9a3b9f80c353e6/rna_tools-3.12-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,105 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ca/27/7c8d941bd2a02dd153f7c7101114b076bda1209c93fb66287df4a07dd946/rna_tools-3.12.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,106 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/b7/d9/999f1ff7305fe4640f39e38dbe72d117abfb16f1a4d3e91f58bccd61a655/rna_tools-3.13-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,106 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d9/03/348ad97d49482c213e6c1b7eaa876aa34503cfd267d10f7c3ac2493b3691/rna_tools-3.13.post0.dev5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,107 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/c1/5c/f1c5a9363135b555e5db1af376b0692471996d1b49572f5aa642f2ced61f/rna_tools-3.13.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,107 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/20/3a/177f042c69905d40641dfc70cc8a503bfa55d1691192ef5ba9bfbf58690d/rna_tools-3.13.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,108 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/b5/40/89d0396460f132e9b7e74ec4645ad38569663b89160f1f3490ef8c6061e9/rna_tools-3.13.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,109 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/79/72/266b5b98bf29feede54f7de5885966a9c10377349e36f2ec366cca80b257/rna_tools-3.13.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,110 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/dc/31/2eb37d1404462162c565d490a4149ae77c28610278d426141d7831085932/rna_tools-3.13.5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,110 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/00/91/b097269ab563449d1516d7585569786eb200bdf6035fea0c1af3028e676b/rna_tools-3.13.6-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,111 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/8a/da/98e453b7f9a7545c764ca95017b575efc36219a311103bcfa30aedf7f81a/rna_tools-3.13.7-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,111 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/38/94/fd535910f86f0d4b24f8b0b00effdd4f5baca6b59faf6069389481879b80/rna_tools-3.13.8-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,112 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/67/48/1fe829345411ec55cb6f8e1842316421a13c242261f7406487eef96bfe23/rna_tools-3.13.9-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,113 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/fe/80/416f9f940c80e6a8d50fb2f8e2f3439f1ec7f50ab451bf30d9974ebc27ba/rna_tools-3.14-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,114 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/9b/a2/e1ceda920eb104806f2856ea81313d9ea844a4cf37e51246b3b3823baaf2/rna_tools-3.14.1.post0.dev3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,114 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/44/d5/39199976dbda86f5179a51b170a678874de8d9479db71c259e960485a9aa/rna_tools-3.16-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,115 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/18/fe/d98457ff763a3d87b7435419ceb97ee5652e29fd30385aef50fb43e222d5/rna_tools-3.17-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,115 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/0d/c9/5973317db1c630f55b73efafa053008e879bc07a26d8102875be6848ebbf/rna_tools-3.18-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,116 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/56/6c/bd8607e69de5e63f72decf4398bee9c90ee391eff6d4451005de8156ca15/rna_tools-3.19-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,116 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ae/5f/e57ac244bd51cff84868a22eb6a5faf2c1b6b616bcd6b4e9e47c3e1f1c8b/rna_tools-3.20-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,117 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/8b/01/201b394e887e5e7f5b719ed76710649177c687c99e7223a9ea7943266e0e/rna_tools-3.20.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,117 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/1f/f1/2b93875467d8768d8d5964319bf3a942135385be9d4f0ce6a5ff214b7452/rna_tools-3.20.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,118 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/e3/0b/70660cc72263a421156abc6d283440de0e3b2a6a03b26c7d1e5e71016bdd/rna_tools-3.20.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,119 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/7a/44/df5a6d5ed9a8ae108122d8677186a371b32377132003b7ca2ec73ecee9e1/rna_tools-3.21-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,120 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/1b/68/56cf5b177b10d6bfd4d7e50d033553a9ecd4efbbb03568272f1a53b69ed1/rna_tools-3.22-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,120 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/1f/ff/b46f4fb145fa3debabee58351371e12335e245d598f627bd6a326daed13e/rna_tools-3.22.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,121 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/cc/21/46eb127af883db354478507ef53350958a4b99b2b78b23658bc3daa652f3/rna_tools-3.22.2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,122 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/53/c5/cbfcb8911f14b963ecd95bc7ed9fd49413bc0454aedd61b8063899d2449d/rna_tools-3.22.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,123 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/e6/07/121915f57db55b93e89a6dd5ebea44661fe78b73b2a237cf5b72444a8ba9/rna_tools-3.22.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,123 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d3/86/393db491384fe40b69b2af4035bd6e45f91d5e184d8e7b0e8c9b21cdcc53/rna_tools-3.22.5-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,124 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/54/f7/84af3db9a8d2337c6af632fff3194d196e534dfd47ba2dd69f515511be9f/rna_tools-3.23.post0.dev2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,125 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/77/4c/d5eddc44da8b8f903179877d2e4fd21768acc11776d222be5030fd95d8c7/rna_tools-3.23.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,126 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/f7/04/4f4271af4cec16f9d14ad605bb6b934f210cfcf97af831e9e9de6b87c332/rna_tools-3.25-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,126 Found link https://files.pythonhosted.org/packages/a8/ed/7a195c3da380f259f526fa808c00ecb2b791636683aa082db6b12fd234cd/rna_tools-3.25.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.25 2026-02-14T09:49:06,127 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/e5/e2/8086e4c9ac1f7740f9466806d68780855fb1c58a5b90de975727a41b0fe0/rna_tools-3.25.post0.dev2-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,127 Found link https://files.pythonhosted.org/packages/fc/ca/ced6c944bcb743064c9a86ca07aa26129a14c5eb62596f797b3b2f20a0e2/rna_tools-3.25.post0.dev2.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.25.post0.dev2 2026-02-14T09:49:06,128 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/02/81/d232686bd8939c4a7019e89df66e8f44f9f2ac7e855dd21faa79cffee769/rna_tools-3.25.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,129 Found link https://files.pythonhosted.org/packages/cd/55/f0b5239e24d4bbd2af7863a8c64c4b795a4d3deba50400b4dc3e85ee584c/rna_tools-3.25.1.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.25.1 2026-02-14T09:49:06,130 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/d0/be/5fc036fc5c934a1d636d59590b2c953a85ed521695f44a853441e49585f3/rna_tools-3.25.1.post0.dev1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,130 Found link https://files.pythonhosted.org/packages/00/11/0caec019f31c20c14566b265c0541d22cce934683957cde7b3a968cea7c3/rna_tools-3.25.1.post0.dev1.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.25.1.post0.dev1 2026-02-14T09:49:06,131 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/cd/19/cf3aba43c9cbce61b3b94cf293e0e38bac65c7872eb714548d84b44462cd/rna_tools-3.25.3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,132 Found link https://files.pythonhosted.org/packages/8e/0e/dec7fcbaa1c11e52a2a4c9ade27386bd52043aa8e99989840b47a23774a2/rna_tools-3.25.3.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.25.3 2026-02-14T09:49:06,133 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/f9/31/9a2c82a0e5ea19b639f0b32c2ce4095b7614721edd39c296e9e01351abbe/rna_tools-3.25.4-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,133 Found link https://files.pythonhosted.org/packages/9b/83/23c17faaf88b230aef89f9267d550f1e1f733bc39420c0b2a99fdd266400/rna_tools-3.25.4.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.25.4 2026-02-14T09:49:06,134 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/24/e9/aac4dbd96a5ca08a80501fc729717cba92e19d00c13e84701a8c0a526004/rna_tools-3.26-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,135 Found link https://files.pythonhosted.org/packages/76/42/2335539142cacb855a106e5ae3d29a222e4d07f3f04f191d063e8a6752b8/rna_tools-3.26.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.26 2026-02-14T09:49:06,136 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/a2/a8/ccde277f837dfd1d8c2de1a90d739f94eaf458ac8c732afc273824cec49f/rna_tools-3.27.post0.dev3-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,136 Found link https://files.pythonhosted.org/packages/ff/02/8c7fed3b483197fded9567fdbcf783e9b8b0debcb26196a9638fe9eae58d/rna_tools-3.27.post0.dev3.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.27.post0.dev3 2026-02-14T09:49:06,137 Skipping link: No binaries permitted for rna-tools: https://files.pythonhosted.org/packages/ea/5b/ed6a000bc88c7024c124e3baeed34de23ab8bee8a7f95e0e85f005f309bf/rna_tools-3.27.1-py3-none-any.whl (from https://pypi.org/simple/rna-tools/) 2026-02-14T09:49:06,137 Found link https://files.pythonhosted.org/packages/6a/58/281f7fc35a2cf9bc253fb704988e1e17baafe74ccb70b7b86d605b4c3c05/rna_tools-3.27.1.tar.gz (from https://pypi.org/simple/rna-tools/), version: 3.27.1 2026-02-14T09:49:06,138 Fetching project page and analyzing links: https://www.piwheels.org/simple/rna-tools/ 2026-02-14T09:49:06,139 Getting page https://www.piwheels.org/simple/rna-tools/ 2026-02-14T09:49:06,140 Found index url https://www.piwheels.org/simple 2026-02-14T09:49:06,297 Fetched page https://www.piwheels.org/simple/rna-tools/ as text/html 2026-02-14T09:49:06,300 Skipping link: No binaries permitted for rna-tools: https://www.piwheels.org/simple/rna-tools/rna_tools-3.25.3-py3-none-any.whl#sha256=165a43111ce2ee359c011e3c133fb52b70f9bb2fe74ac0c44ec118cafc40798d (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,301 Skipping link: No binaries permitted for rna-tools: https://www.piwheels.org/simple/rna-tools/rna_tools-3.25.1.post0.dev1-py3-none-any.whl#sha256=8703a1ac6cd850cf569abe5186cb3e5b63c34b869f74de3cbc7c5c5acc90e8b8 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,302 Skipping link: No binaries permitted for rna-tools: https://www.piwheels.org/simple/rna-tools/rna_tools-3.25.1-py3-none-any.whl#sha256=31a0a058078b01e82235ae72c41ef99cdeae2bfdf03bc1faec83fc61666995d6 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,303 Skipping link: No binaries permitted for rna-tools: https://www.piwheels.org/simple/rna-tools/rna_tools-3.25.post0.dev2-py3-none-any.whl#sha256=465af7e799388e527a2e2b0436144da336a2d02c006bf36c6ae8c2c8ee4bd120 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,304 Skipping link: No binaries permitted for rna-tools: https://archive1.piwheels.org/simple/rna-tools/UNKNOWN-0%2Bunknown-py3-none-any.whl#sha256=b4214c42117c74da3961ab3bbaf3ce3e12ea386e102aecb92e8e47c607e842dc (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,304 Skipping link: No binaries permitted for rna-tools: https://archive1.piwheels.org/simple/rna-tools/rna_tools-3.1.4-py3-none-any.whl#sha256=1194ddbf480426f804e230eb711eb705a79f41efaf61679c966fd6b7fec65e17 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,305 Skipping link: No binaries permitted for rna-tools: https://archive1.piwheels.org/simple/rna-tools/rna_tools-3.1.3-py3-none-any.whl#sha256=1d45105a5c8cc161b13b088a8e903b5d239701ca023758c17a591a0a0dfb86bb (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,305 Skipping link: No binaries permitted for rna-tools: https://archive1.piwheels.org/simple/rna-tools/rna_tools-3.1.2-py3-none-any.whl#sha256=7b92483d69eb10c0a144b20d4a546bc79db74de7e1340d8e204c697b1b7b5e20 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,306 Skipping link: No binaries permitted for rna-tools: https://archive1.piwheels.org/simple/rna-tools/rna_tools-3.1.1-py3-none-any.whl#sha256=c9c26356bd9c8c2b8fef932367a9c0f2982e68353ec6b07872c6762d1654be50 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,307 Skipping link: No binaries permitted for rna-tools: https://www.piwheels.org/simple/rna-tools/rna_tools-2.25.post0.dev1-py3-none-any.whl#sha256=069317b2d39ca3013977ae7584d23defb1894f6bb42522298a49962020a300f2 (from https://www.piwheels.org/simple/rna-tools/) 2026-02-14T09:49:06,308 Skipping link: not a file: https://www.piwheels.org/simple/rna-tools/ 2026-02-14T09:49:06,308 Skipping link: not a file: https://pypi.org/simple/rna-tools/ 2026-02-14T09:49:06,331 Given no hashes to check 1 links for project 'rna-tools': discarding no candidates 2026-02-14T09:49:06,350 Collecting rna-tools==3.27.post0.dev3 2026-02-14T09:49:06,353 Created temporary directory: /tmp/pip-unpack-l3e3tn18 2026-02-14T09:49:06,574 Downloading rna_tools-3.27.post0.dev3.tar.gz (57.5 MB) 2026-02-14T09:49:22,490 Added rna-tools==3.27.post0.dev3 from https://files.pythonhosted.org/packages/ff/02/8c7fed3b483197fded9567fdbcf783e9b8b0debcb26196a9638fe9eae58d/rna_tools-3.27.post0.dev3.tar.gz to build tracker '/tmp/pip-build-tracker-eun2ujhg' 2026-02-14T09:49:22,494 Created temporary directory: /tmp/pip-build-env-3ij4lnu8 2026-02-14T09:49:22,499 Installing build dependencies: started 2026-02-14T09:49:22,500 Running command pip subprocess to install build dependencies 2026-02-14T09:49:23,709 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-02-14T09:49:24,370 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-02-14T09:49:24,396 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-02-14T09:49:26,201 Collecting setuptools<72 2026-02-14T09:49:26,216 Downloading https://www.piwheels.org/simple/setuptools/setuptools-71.1.0-py3-none-any.whl (2.3 MB) 2026-02-14T09:49:26,508 ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 2.3/2.3 MB 8.3 MB/s eta 0:00:00 2026-02-14T09:49:26,827 Collecting wheel 2026-02-14T09:49:26,845 Using cached https://www.piwheels.org/simple/wheel/wheel-0.46.3-py3-none-any.whl (30 kB) 2026-02-14T09:49:26,962 Collecting versioneer 2026-02-14T09:49:26,981 Using cached https://www.piwheels.org/simple/versioneer/versioneer-0.29-py3-none-any.whl (46 kB) 2026-02-14T09:49:27,183 Collecting packaging>=24.0 2026-02-14T09:49:27,227 Using cached https://www.piwheels.org/simple/packaging/packaging-26.0-py3-none-any.whl (74 kB) 2026-02-14T09:49:30,379 Installing collected packages: versioneer, setuptools, packaging, wheel 2026-02-14T09:49:30,420 Creating /tmp/pip-build-env-3ij4lnu8/overlay/local/bin 2026-02-14T09:49:30,424 changing mode of /tmp/pip-build-env-3ij4lnu8/overlay/local/bin/versioneer to 755 2026-02-14T09:49:35,868 changing mode of /tmp/pip-build-env-3ij4lnu8/overlay/local/bin/wheel to 755 2026-02-14T09:49:35,898 Successfully installed packaging-26.0 setuptools-71.1.0 versioneer-0.29 wheel-0.46.3 2026-02-14T09:49:36,181 Installing build dependencies: finished with status 'done' 2026-02-14T09:49:36,188 Getting requirements to build wheel: started 2026-02-14T09:49:36,189 Running command Getting requirements to build wheel 2026-02-14T09:49:36,928 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:458: SetuptoolsDeprecationWarning: Invalid dash-separated options 2026-02-14T09:49:36,928 !! 2026-02-14T09:49:36,930 ******************************************************************************** 2026-02-14T09:49:36,931 Usage of dash-separated 'description-file' will not be supported in future 2026-02-14T09:49:36,931 versions. Please use the underscore name 'description_file' instead. 2026-02-14T09:49:36,933 This deprecation is overdue, please update your project and remove deprecated 2026-02-14T09:49:36,933 calls to avoid build errors in the future. 2026-02-14T09:49:36,934 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2026-02-14T09:49:36,934 ******************************************************************************** 2026-02-14T09:49:36,935 !! 2026-02-14T09:49:36,936 opt = self.warn_dash_deprecation(opt, section) 2026-02-14T09:49:36,967 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:300: InformationOnly: Normalizing '3.27.post.dev3' to '3.27.post0.dev3' 2026-02-14T09:49:36,968 self.metadata.version = self._normalize_version(self.metadata.version) 2026-02-14T09:49:36,992 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:36,993 Try to load it from setup.cfg 2026-02-14T09:49:36,993 running egg_info 2026-02-14T09:49:36,999 writing rna_tools.egg-info/PKG-INFO 2026-02-14T09:49:37,003 writing dependency_links to rna_tools.egg-info/dependency_links.txt 2026-02-14T09:49:37,006 writing requirements to rna_tools.egg-info/requires.txt 2026-02-14T09:49:37,007 writing top-level names to rna_tools.egg-info/top_level.txt 2026-02-14T09:49:37,125 reading manifest file 'rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:37,412 reading manifest template 'MANIFEST.in' 2026-02-14T09:49:38,236 adding license file 'LICENSE' 2026-02-14T09:49:38,321 writing manifest file 'rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:38,344 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:38,344 Try to load it from setup.cfg 2026-02-14T09:49:38,436 Getting requirements to build wheel: finished with status 'done' 2026-02-14T09:49:38,439 Created temporary directory: /tmp/pip-modern-metadata-zg4s8snm 2026-02-14T09:49:38,442 Preparing metadata (pyproject.toml): started 2026-02-14T09:49:38,443 Running command Preparing metadata (pyproject.toml) 2026-02-14T09:49:39,089 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:300: InformationOnly: Normalizing '3.27.post.dev3' to '3.27.post0.dev3' 2026-02-14T09:49:39,089 self.metadata.version = self._normalize_version(self.metadata.version) 2026-02-14T09:49:39,093 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:458: SetuptoolsDeprecationWarning: Invalid dash-separated options 2026-02-14T09:49:39,093 !! 2026-02-14T09:49:39,095 ******************************************************************************** 2026-02-14T09:49:39,095 Usage of dash-separated 'description-file' will not be supported in future 2026-02-14T09:49:39,096 versions. Please use the underscore name 'description_file' instead. 2026-02-14T09:49:39,097 This deprecation is overdue, please update your project and remove deprecated 2026-02-14T09:49:39,097 calls to avoid build errors in the future. 2026-02-14T09:49:39,098 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2026-02-14T09:49:39,099 ******************************************************************************** 2026-02-14T09:49:39,100 !! 2026-02-14T09:49:39,101 opt = self.warn_dash_deprecation(opt, section) 2026-02-14T09:49:39,123 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:39,124 Try to load it from setup.cfg 2026-02-14T09:49:39,124 running dist_info 2026-02-14T09:49:39,125 creating /tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info 2026-02-14T09:49:39,132 writing /tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/PKG-INFO 2026-02-14T09:49:39,137 writing dependency_links to /tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/dependency_links.txt 2026-02-14T09:49:39,139 writing requirements to /tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/requires.txt 2026-02-14T09:49:39,140 writing top-level names to /tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/top_level.txt 2026-02-14T09:49:39,141 writing manifest file '/tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:39,241 reading manifest file '/tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:39,243 reading manifest template 'MANIFEST.in' 2026-02-14T09:49:39,987 adding license file 'LICENSE' 2026-02-14T09:49:40,048 writing manifest file '/tmp/pip-modern-metadata-zg4s8snm/rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:40,069 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:40,070 Try to load it from setup.cfg 2026-02-14T09:49:40,070 creating '/tmp/pip-modern-metadata-zg4s8snm/rna_tools-3.27.post0.dev3.dist-info' 2026-02-14T09:49:40,222 Preparing metadata (pyproject.toml): finished with status 'done' 2026-02-14T09:49:40,230 Source in /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998 has version 3.27.post0.dev3, which satisfies requirement rna-tools==3.27.post0.dev3 from https://files.pythonhosted.org/packages/ff/02/8c7fed3b483197fded9567fdbcf783e9b8b0debcb26196a9638fe9eae58d/rna_tools-3.27.post0.dev3.tar.gz 2026-02-14T09:49:40,231 Removed rna-tools==3.27.post0.dev3 from https://files.pythonhosted.org/packages/ff/02/8c7fed3b483197fded9567fdbcf783e9b8b0debcb26196a9638fe9eae58d/rna_tools-3.27.post0.dev3.tar.gz from build tracker '/tmp/pip-build-tracker-eun2ujhg' 2026-02-14T09:49:40,239 Created temporary directory: /tmp/pip-unpack-0bm7ewez 2026-02-14T09:49:40,240 Building wheels for collected packages: rna-tools 2026-02-14T09:49:40,245 Created temporary directory: /tmp/pip-wheel-a6dl3f4m 2026-02-14T09:49:40,245 Destination directory: /tmp/pip-wheel-a6dl3f4m 2026-02-14T09:49:40,248 Building wheel for rna-tools (pyproject.toml): started 2026-02-14T09:49:40,249 Running command Building wheel for rna-tools (pyproject.toml) 2026-02-14T09:49:40,939 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:300: InformationOnly: Normalizing '3.27.post.dev3' to '3.27.post0.dev3' 2026-02-14T09:49:40,940 self.metadata.version = self._normalize_version(self.metadata.version) 2026-02-14T09:49:40,945 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:458: SetuptoolsDeprecationWarning: Invalid dash-separated options 2026-02-14T09:49:40,946 !! 2026-02-14T09:49:40,948 ******************************************************************************** 2026-02-14T09:49:40,949 Usage of dash-separated 'description-file' will not be supported in future 2026-02-14T09:49:40,949 versions. Please use the underscore name 'description_file' instead. 2026-02-14T09:49:40,951 This deprecation is overdue, please update your project and remove deprecated 2026-02-14T09:49:40,951 calls to avoid build errors in the future. 2026-02-14T09:49:40,953 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2026-02-14T09:49:40,954 ******************************************************************************** 2026-02-14T09:49:40,955 !! 2026-02-14T09:49:40,955 opt = self.warn_dash_deprecation(opt, section) 2026-02-14T09:49:40,990 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:40,991 Try to load it from setup.cfg 2026-02-14T09:49:40,992 running bdist_wheel 2026-02-14T09:49:41,011 running build 2026-02-14T09:49:41,012 running build_py 2026-02-14T09:49:41,021 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:41,021 Try to load it from setup.cfg 2026-02-14T09:49:41,022 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:41,022 Try to load it from setup.cfg 2026-02-14T09:49:41,023 creating build 2026-02-14T09:49:41,023 creating build/lib 2026-02-14T09:49:41,024 creating build/lib/rna_tools 2026-02-14T09:49:41,024 copying rna_tools/_version.py -> build/lib/rna_tools 2026-02-14T09:49:41,025 copying rna_tools/rna_cif2pdb.py -> build/lib/rna_tools 2026-02-14T09:49:41,027 copying rna_tools/rna_pdb_fetch.py -> build/lib/rna_tools 2026-02-14T09:49:41,029 copying rna_tools/__init__.py -> build/lib/rna_tools 2026-02-14T09:49:41,031 copying rna_tools/rna_pdb_tools.py -> build/lib/rna_tools 2026-02-14T09:49:41,035 copying rna_tools/rna_dot2ct.py -> build/lib/rna_tools 2026-02-14T09:49:41,036 copying rna_tools/rna_torsions.py -> build/lib/rna_tools 2026-02-14T09:49:41,038 copying rna_tools/rna_tools_config.py -> build/lib/rna_tools 2026-02-14T09:49:41,040 copying rna_tools/rna_pdb_seq.py -> build/lib/rna_tools 2026-02-14T09:49:41,042 copying rna_tools/rna_pdb_inspect.py -> build/lib/rna_tools 2026-02-14T09:49:41,044 copying rna_tools/rna_pdb_fetch_header.py -> build/lib/rna_tools 2026-02-14T09:49:41,046 copying rna_tools/SecondaryStructure.py -> build/lib/rna_tools 2026-02-14T09:49:41,048 copying rna_tools/rna_tools_lib.py -> build/lib/rna_tools 2026-02-14T09:49:41,056 copying rna_tools/rna_secondary_structure_prediction.py -> build/lib/rna_tools 2026-02-14T09:49:41,064 copying rna_tools/rna_tools_test_all.py -> build/lib/rna_tools 2026-02-14T09:49:41,073 copying rna_tools/rna_pdb_replace.py -> build/lib/rna_tools 2026-02-14T09:49:41,078 copying rna_tools/rna_simrnaweb_download_job.py -> build/lib/rna_tools 2026-02-14T09:49:41,081 copying rna_tools/Seq.py -> build/lib/rna_tools 2026-02-14T09:49:41,085 copying rna_tools/BlastPDB.py -> build/lib/rna_tools 2026-02-14T09:49:41,088 copying rna_tools/rna_calc_fenergy.py -> build/lib/rna_tools 2026-02-14T09:49:41,090 copying rna_tools/update_readme.py -> build/lib/rna_tools 2026-02-14T09:49:41,092 copying rna_tools/stats.py -> build/lib/rna_tools 2026-02-14T09:49:41,098 copying rna_tools/rna_standardize.py -> build/lib/rna_tools 2026-02-14T09:49:41,107 copying rna_tools/RfamSearch.py -> build/lib/rna_tools 2026-02-14T09:49:41,117 creating build/lib/tests 2026-02-14T09:49:41,121 copying tests/__init__.py -> build/lib/tests 2026-02-14T09:49:41,128 copying tests/test_module.py -> build/lib/tests 2026-02-14T09:49:41,135 creating build/lib/rna_tools/tools 2026-02-14T09:49:41,138 copying rna_tools/tools/__init__.py -> build/lib/rna_tools/tools 2026-02-14T09:49:41,143 creating build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,144 copying rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,147 copying rna_tools/tools/rna_calc_rmsd/__init__.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,148 copying rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_biopython.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,152 copying rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_multi_targets.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,154 copying rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_pymol.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,156 copying rna_tools/tools/rna_calc_rmsd/rna_plot_alignment_bounds.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,160 copying rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_all_vs_all.py -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:41,163 creating build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:41,164 copying rna_tools/tools/rna_calc_evo_rmsd/rna_calc_evo_rmsd.py -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:41,167 copying rna_tools/tools/rna_calc_evo_rmsd/__init__.py -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:41,169 copying rna_tools/tools/rna_calc_evo_rmsd/RNAmodel.py -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:41,172 copying rna_tools/tools/rna_calc_evo_rmsd/RNAalignment.py -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:41,175 creating build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,176 copying rna_tools/tools/rna_alignment/rna_align_coverage.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,178 copying rna_tools/tools/rna_alignment/rna_align_fetch_seed.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,180 copying rna_tools/tools/rna_alignment/rna_align_foldability.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,182 copying rna_tools/tools/rna_alignment/__init__.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,184 copying rna_tools/tools/rna_alignment/rna_alignment_r2r.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,185 copying rna_tools/tools/rna_alignment/rna_align_fetch_cm.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,187 copying rna_tools/tools/rna_alignment/rna_align_find_core.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,189 copying rna_tools/tools/rna_alignment/rna_alignment.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,193 copying rna_tools/tools/rna_alignment/rna_align_get_ss_from_stk.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,194 copying rna_tools/tools/rna_alignment/rna_align_get_ss_from_fasta.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,196 copying rna_tools/tools/rna_alignment/rna_align_sto2csv.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,198 copying rna_tools/tools/rna_alignment/rna_align_distance_to_seq.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,199 copying rna_tools/tools/rna_alignment/test_rna_alignment.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,201 copying rna_tools/tools/rna_alignment/test.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,203 copying rna_tools/tools/rna_alignment/random_assignment_of_nucleotides.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,205 copying rna_tools/tools/rna_alignment/rna_align_seq_to_alignment.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,207 copying rna_tools/tools/rna_alignment/rna_align_find_seq_in_alignment.py -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:41,209 creating build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:41,210 copying rna_tools/tools/mini_moderna3/__init__.py -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:41,212 creating build/lib/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:41,213 copying rna_tools/tools/pdbs_measure_atom_dists/__init__.py -> build/lib/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:41,215 copying rna_tools/tools/pdbs_measure_atom_dists/pdbs_measure_atom_dists.py -> build/lib/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:41,217 creating build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:41,218 copying rna_tools/tools/rna_pdb_merge_structure_with_fragments/rna_pdb_merge_structure_with_fragments.py -> build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:41,220 copying rna_tools/tools/rna_pdb_merge_structure_with_fragments/__init__.py -> build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:41,222 creating build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,223 copying rna_tools/tools/misc/rna_test_cuda.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,225 copying rna_tools/tools/misc/translate.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,227 copying rna_tools/tools/misc/__init__.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,229 copying rna_tools/tools/misc/rna_dict2fasta.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,230 copying rna_tools/tools/misc/rna_tools_demo.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,232 copying rna_tools/tools/misc/rna_tools_which.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,234 copying rna_tools/tools/misc/rna_remote_run.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,236 copying rna_tools/tools/misc/rna_topdb.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,237 copying rna_tools/tools/misc/reverse.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,239 copying rna_tools/tools/misc/rna_add_chain.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,241 copying rna_tools/tools/misc/rna_ok_mail.py -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:41,243 creating build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:41,243 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/__init__.py -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:41,245 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/rna_pdb_edit_occupancy_bfactor.py -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:41,248 creating build/lib/rna_tools/tools/ClashCalc 2026-02-14T09:49:41,249 copying rna_tools/tools/ClashCalc/__init__.py -> build/lib/rna_tools/tools/ClashCalc 2026-02-14T09:49:41,251 copying rna_tools/tools/ClashCalc/ClashCalc.py -> build/lib/rna_tools/tools/ClashCalc 2026-02-14T09:49:41,254 creating build/lib/rna_tools/tools/rna_x3dna 2026-02-14T09:49:41,255 copying rna_tools/tools/rna_x3dna/rna_x3dna.py -> build/lib/rna_tools/tools/rna_x3dna 2026-02-14T09:49:41,258 copying rna_tools/tools/rna_x3dna/__init__.py -> build/lib/rna_tools/tools/rna_x3dna 2026-02-14T09:49:41,260 creating build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,261 copying rna_tools/tools/webserver-engine/__init__.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,263 copying rna_tools/tools/webserver-engine/sendmail.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,265 copying rna_tools/tools/webserver-engine/manage.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,267 copying rna_tools/tools/webserver-engine/wsgi.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,269 copying rna_tools/tools/webserver-engine/cleanup.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,271 copying rna_tools/tools/webserver-engine/checker.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,273 copying rna_tools/tools/webserver-engine/daemon.py -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:41,276 creating build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,277 copying rna_tools/tools/simrna_trajectory/rna_simrna_lowest.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,279 copying rna_tools/tools/simrna_trajectory/rna_simrna_energy_plot.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,280 copying rna_tools/tools/simrna_trajectory/__init__.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,282 copying rna_tools/tools/simrna_trajectory/rna_simrna_cluster.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,283 copying rna_tools/tools/simrna_trajectory/test_rmsd.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,285 copying rna_tools/tools/simrna_trajectory/rna_simrna_extract.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,287 copying rna_tools/tools/simrna_trajectory/simrna_trajectory.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,289 copying rna_tools/tools/simrna_trajectory/rna_simrna_subset.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,291 copying rna_tools/tools/simrna_trajectory/test_rna_simrna.py -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:41,293 creating build/lib/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:41,294 copying rna_tools/tools/renum_pdb_to_aln/__init__.py -> build/lib/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:41,295 copying rna_tools/tools/renum_pdb_to_aln/renum_pdb_to_aln.py -> build/lib/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:41,297 creating build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:41,298 copying rna_tools/tools/rna_calc_inf/__init__.py -> build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:41,300 copying rna_tools/tools/rna_calc_inf/rna_calc_inf.py -> build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:41,302 copying rna_tools/tools/rna_calc_inf/rna_calc_dinf.py -> build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:41,304 creating build/lib/rna_tools/tools/rna_refinement 2026-02-14T09:49:41,305 copying rna_tools/tools/rna_refinement/rna_refinement.py -> build/lib/rna_tools/tools/rna_refinement 2026-02-14T09:49:41,308 copying rna_tools/tools/rna_refinement/__init__.py -> build/lib/rna_tools/tools/rna_refinement 2026-02-14T09:49:41,310 creating build/lib/rna_tools/tools/cluster_load 2026-02-14T09:49:41,311 copying rna_tools/tools/cluster_load/__init__.py -> build/lib/rna_tools/tools/cluster_load 2026-02-14T09:49:41,312 copying rna_tools/tools/cluster_load/cluster_load.py -> build/lib/rna_tools/tools/cluster_load 2026-02-14T09:49:41,315 copying rna_tools/tools/cluster_load/cluster_mini_free.py -> build/lib/rna_tools/tools/cluster_load 2026-02-14T09:49:41,317 creating build/lib/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:41,318 copying rna_tools/tools/rna_convert_pseudoknot_formats/__init__.py -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:41,319 copying rna_tools/tools/rna_convert_pseudoknot_formats/rna_pk_simrna_to_one_line.py -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:41,321 copying rna_tools/tools/rna_convert_pseudoknot_formats/rna_ss_pk_to_simrna.py -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:41,324 creating build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,325 copying rna_tools/tools/rna_filter/rna_pairs2rfilter.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,327 copying rna_tools/tools/rna_filter/__init__.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,329 copying rna_tools/tools/rna_filter/rna_ss_get_bps.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,331 copying rna_tools/tools/rna_filter/simrna_get_restraints.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,334 copying rna_tools/tools/rna_filter/rna_pairs2SimRNArestrs.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,338 copying rna_tools/tools/rna_filter/rna_get_dists.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,343 copying rna_tools/tools/rna_filter/rna_dca_select_interactions.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,345 copying rna_tools/tools/rna_filter/test_rna_filter.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,347 copying rna_tools/tools/rna_filter/rna_dca_mapping.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,350 copying rna_tools/tools/rna_filter/rna_get_distances.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,352 copying rna_tools/tools/rna_filter/rna_restrs2SimRNArestrs.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,354 copying rna_tools/tools/rna_filter/rna_ec2x.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,356 copying rna_tools/tools/rna_filter/rna_filter.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,359 copying rna_tools/tools/rna_filter/rna_pairs_diff.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,360 copying rna_tools/tools/rna_filter/pymol_dists.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,362 copying rna_tools/tools/rna_filter/rna_csv2pairs.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,365 copying rna_tools/tools/rna_filter/rna_restrs2mqapRNA.py -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:41,367 creating build/lib/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:41,368 copying rna_tools/tools/rna_calc_rmsd_trafl/__init__.py -> build/lib/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:41,370 copying rna_tools/tools/rna_calc_rmsd_trafl/rna_calc_rmsd_trafl.py -> build/lib/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:41,372 copying rna_tools/tools/rna_calc_rmsd_trafl/rna_cal_rmsd_trafl_plot.py -> build/lib/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:41,375 creating build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,375 copying rna_tools/tools/plotting/rna_plot_density.py -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,377 copying rna_tools/tools/plotting/rna_plot_dendogram.py -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,379 copying rna_tools/tools/plotting/__init__.py -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,380 copying rna_tools/tools/plotting/rna_plot_boxplotlike.py -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,382 copying rna_tools/tools/plotting/rna_plot_heatmap.py -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,384 copying rna_tools/tools/plotting/rna_plot_hist.py -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:41,386 creating build/lib/rna_tools/tools/md 2026-02-14T09:49:41,387 copying rna_tools/tools/md/__init__.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,388 copying rna_tools/tools/md/rna_traj_range.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,390 copying rna_tools/tools/md/rna_gromacs_ready.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,391 copying rna_tools/tools/md/rna_traj_n.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,393 copying rna_tools/tools/md/rna_traj_nohetm.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,395 copying rna_tools/tools/md/rna_md.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,397 copying rna_tools/tools/md/rnakb_utils.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,399 copying rna_tools/tools/md/rna_minimize.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,401 copying rna_tools/tools/md/test.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,403 copying rna_tools/tools/md/rna_get_energy.py -> build/lib/rna_tools/tools/md 2026-02-14T09:49:41,406 creating build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:41,407 copying rna_tools/tools/clarna_app/__init__.py -> build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:41,409 copying rna_tools/tools/clarna_app/test.py -> build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:41,410 copying rna_tools/tools/clarna_app/rna_clarna2graph.py -> build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:41,412 copying rna_tools/tools/clarna_app/rna_clarna_app.py -> build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:41,416 creating build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:41,417 copying rna_tools/tools/clarna_play/__init__.py -> build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:41,420 copying rna_tools/tools/clarna_play/PDBSeq.py -> build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:41,422 copying rna_tools/tools/clarna_play/rna_clarna_compare.py -> build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:41,425 copying rna_tools/tools/clarna_play/rna_clarna_run.py -> build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:41,429 creating build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:41,430 copying rna_tools/tools/clanstix/__init__.py -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:41,431 copying rna_tools/tools/clanstix/rna_clanstix.py -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:41,434 creating build/lib/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:41,435 copying rna_tools/tools/rna_prediction_significance/__init__.py -> build/lib/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:41,437 copying rna_tools/tools/rna_prediction_significance/rna_prediction_significance.py -> build/lib/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:41,440 creating build/lib/rna_tools/tools/extra_functions 2026-02-14T09:49:41,442 copying rna_tools/tools/extra_functions/__init__.py -> build/lib/rna_tools/tools/extra_functions 2026-02-14T09:49:41,445 copying rna_tools/tools/extra_functions/gen_numbering.py -> build/lib/rna_tools/tools/extra_functions 2026-02-14T09:49:41,448 copying rna_tools/tools/extra_functions/select_fragment.py -> build/lib/rna_tools/tools/extra_functions 2026-02-14T09:49:41,454 creating build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,455 copying rna_tools/tools/mq/__init__.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,457 copying rna_tools/tools/mq/rna_mq_wx_collect.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,458 copying rna_tools/tools/mq/rna_mq_plot.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,460 copying rna_tools/tools/mq/rna_mq_score.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,462 copying rna_tools/tools/mq/rna_mq_collect.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,465 copying rna_tools/tools/mq/rna_mq_exp.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,466 copying rna_tools/tools/mq/rna_mq_collect_tqdm.py -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:41,469 creating build/lib/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:49:41,470 copying rna_tools/tools/rna_sali2dotbracket/__init__.py -> build/lib/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:49:41,472 copying rna_tools/tools/rna_sali2dotbracket/rna_sali2dotbracket.py -> build/lib/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:49:41,474 creating build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,475 copying rna_tools/tools/rna_rosetta/rna_rosetta_extract.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,477 copying rna_tools/tools/rna_rosetta/rna_rosetta_min.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,479 copying rna_tools/tools/rna_rosetta/__init__.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,480 copying rna_tools/tools/rna_rosetta/rna_rosetta_silent_random.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,482 copying rna_tools/tools/rna_rosetta/rna_rosetta_head.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,484 copying rna_tools/tools/rna_rosetta/rna_rosetta_extract_lowscore_decoys.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,486 copying rna_tools/tools/rna_rosetta/rna_rosetta_easy_cat.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,488 copying rna_tools/tools/rna_rosetta/rna_rosetta_check_progress.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,490 copying rna_tools/tools/rna_rosetta/rna_rosetta_get_score.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,491 copying rna_tools/tools/rna_rosetta/rna_rosetta_silent_file_sort_and_select.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,493 copying rna_tools/tools/rna_rosetta/test.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,496 copying rna_tools/tools/rna_rosetta/rna_rosetta_run.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,716 copying rna_tools/tools/rna_rosetta/rna_rosetta_silent_split.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,718 copying rna_tools/tools/rna_rosetta/rna_rosetta_n.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,720 copying rna_tools/tools/rna_rosetta/rna_rosetta_cluster.py -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:41,722 creating build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,723 copying rna_tools/tools/PyMOL4RNA/PyMOL4RNA.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,726 copying rna_tools/tools/PyMOL4RNA/rnapuzzles.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,728 copying rna_tools/tools/PyMOL4RNA/__init__.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,730 copying rna_tools/tools/PyMOL4RNA/code_for_color_spl.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,732 copying rna_tools/tools/PyMOL4RNA/PyMOL4Spliceosome.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,734 copying rna_tools/tools/PyMOL4RNA/external_flatten_object.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,736 copying rna_tools/tools/PyMOL4RNA/code_for_spl.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,738 copying rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,740 copying rna_tools/tools/PyMOL4RNA/rna_draw_edges.py -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:41,743 creating build/lib/rna_tools/tools/rna_bp 2026-02-14T09:49:41,744 copying rna_tools/tools/rna_bp/__init__.py -> build/lib/rna_tools/tools/rna_bp 2026-02-14T09:49:41,745 copying rna_tools/tools/rna_bp/base_pair.py -> build/lib/rna_tools/tools/rna_bp 2026-02-14T09:49:41,747 creating build/lib/rna_tools/tools/rna_helix_vis 2026-02-14T09:49:41,748 copying rna_tools/tools/rna_helix_vis/rna_helix_vis.py -> build/lib/rna_tools/tools/rna_helix_vis 2026-02-14T09:49:41,750 copying rna_tools/tools/rna_helix_vis/__init__.py -> build/lib/rna_tools/tools/rna_helix_vis 2026-02-14T09:49:41,752 creating build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,753 copying rna_tools/tools/pdb_formatix/test-quick-and-dirty.py -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,754 copying rna_tools/tools/pdb_formatix/__init__.py -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,756 copying rna_tools/tools/pdb_formatix/rebuilder.py -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,757 copying rna_tools/tools/pdb_formatix/PDBFile.py -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,760 copying rna_tools/tools/pdb_formatix/SingleLineUtils.py -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,761 copying rna_tools/tools/pdb_formatix/RosettaUtils.py -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:41,763 creating build/lib/rna_tools/tools/pymol_drawing 2026-02-14T09:49:41,764 copying rna_tools/tools/pymol_drawing/__init__.py -> build/lib/rna_tools/tools/pymol_drawing 2026-02-14T09:49:41,766 copying rna_tools/tools/pymol_drawing/pymol_drawing.py -> build/lib/rna_tools/tools/pymol_drawing 2026-02-14T09:49:41,768 creating build/lib/rna_tools/tools/diffpdb 2026-02-14T09:49:41,769 copying rna_tools/tools/diffpdb/__init__.py -> build/lib/rna_tools/tools/diffpdb 2026-02-14T09:49:41,771 copying rna_tools/tools/diffpdb/diffpdb.py -> build/lib/rna_tools/tools/diffpdb 2026-02-14T09:49:41,773 creating build/lib/rna_tools/tools/rna_calc_rmsd/lib 2026-02-14T09:49:41,774 copying rna_tools/tools/rna_calc_rmsd/lib/__init__.py -> build/lib/rna_tools/tools/rna_calc_rmsd/lib 2026-02-14T09:49:41,776 creating build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:41,777 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/__init__.py -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:41,778 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/calculate_rmsd.py -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:41,781 creating build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,782 copying rna_tools/tools/rna_alignment/utils/mfa-get-seq-for-species.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,784 copying rna_tools/tools/rna_alignment/utils/__init__.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,785 copying rna_tools/tools/rna_alignment/utils/rna_alignment_r2r.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,787 copying rna_tools/tools/rna_alignment/utils/rna_align_strip_stk.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,789 copying rna_tools/tools/rna_alignment/utils/rna_alignment_process_id.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,790 copying rna_tools/tools/rna_alignment/utils/rna_alignment_merge_by_species.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,792 copying rna_tools/tools/rna_alignment/utils/rna_alignment_get_species.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,794 copying rna_tools/tools/rna_alignment/utils/rna_alignment_calc_energy.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,797 copying rna_tools/tools/rna_alignment/utils/rna_alignment_sto_remove_uniq_ids.py -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:41,799 creating build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,800 copying rna_tools/tools/mini_moderna3/moderna/Renumerator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,802 copying rna_tools/tools/mini_moderna3/moderna/_version.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,804 copying rna_tools/tools/mini_moderna3/moderna/Helix.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,806 copying rna_tools/tools/mini_moderna3/moderna/FragmentInsertion.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,807 copying rna_tools/tools/mini_moderna3/moderna/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,809 copying rna_tools/tools/mini_moderna3/moderna/Constants.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,811 copying rna_tools/tools/mini_moderna3/moderna/PdbConverter.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,813 copying rna_tools/tools/mini_moderna3/moderna/ModelingRecipe.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,815 copying rna_tools/tools/mini_moderna3/moderna/ModernaStructure.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,817 copying rna_tools/tools/mini_moderna3/moderna/RNAResidue.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,820 copying rna_tools/tools/mini_moderna3/moderna/Renumerator_new.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,821 copying rna_tools/tools/mini_moderna3/moderna/ModernaFragment.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,824 copying rna_tools/tools/mini_moderna3/moderna/Template.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,826 copying rna_tools/tools/mini_moderna3/moderna/moderna.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,828 copying rna_tools/tools/mini_moderna3/moderna/commands.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,831 copying rna_tools/tools/mini_moderna3/moderna/CheckPdb.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,835 copying rna_tools/tools/mini_moderna3/moderna/ModernaSuperimposer.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,837 copying rna_tools/tools/mini_moderna3/moderna/RNAChain.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,840 copying rna_tools/tools/mini_moderna3/moderna/RNAModel.py -> build/lib/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:41,843 creating build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,845 copying rna_tools/tools/mini_moderna3/moderna/modifications/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,847 copying rna_tools/tools/mini_moderna3/moderna/modifications/ModificationAdder.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,849 copying rna_tools/tools/mini_moderna3/moderna/modifications/BaseExchanger.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,851 copying rna_tools/tools/mini_moderna3/moderna/modifications/ModificationRemover.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,854 copying rna_tools/tools/mini_moderna3/moderna/modifications/ModifyResidue.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,856 copying rna_tools/tools/mini_moderna3/moderna/modifications/ResidueEditor.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:41,859 creating build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,860 copying rna_tools/tools/mini_moderna3/moderna/sequence/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,862 copying rna_tools/tools/mini_moderna3/moderna/sequence/commands.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,864 copying rna_tools/tools/mini_moderna3/moderna/sequence/ModernaAlphabet.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,867 copying rna_tools/tools/mini_moderna3/moderna/sequence/AlignmentMatcher.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,869 copying rna_tools/tools/mini_moderna3/moderna/sequence/ModernaSequence.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,871 copying rna_tools/tools/mini_moderna3/moderna/sequence/RNAAlignment.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:41,875 creating build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:41,876 copying rna_tools/tools/mini_moderna3/moderna/fragment_library/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:41,879 copying rna_tools/tools/mini_moderna3/moderna/fragment_library/SearchLIR.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:41,882 copying rna_tools/tools/mini_moderna3/moderna/fragment_library/LIRdb.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:41,885 copying rna_tools/tools/mini_moderna3/moderna/fragment_library/StructureLibrary.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:41,887 copying rna_tools/tools/mini_moderna3/moderna/fragment_library/LIR.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:41,891 creating build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:41,892 copying rna_tools/tools/mini_moderna3/moderna/isosteric/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:41,894 copying rna_tools/tools/mini_moderna3/moderna/isosteric/IsostericityMatrices.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:41,896 copying rna_tools/tools/mini_moderna3/moderna/isosteric/Isostericity.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:41,898 copying rna_tools/tools/mini_moderna3/moderna/isosteric/IsostericModelling.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:41,901 creating build/lib/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:41,902 copying rna_tools/tools/mini_moderna3/moderna/util/validators.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:41,904 copying rna_tools/tools/mini_moderna3/moderna/util/decorators.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:41,906 copying rna_tools/tools/mini_moderna3/moderna/util/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:41,908 copying rna_tools/tools/mini_moderna3/moderna/util/LogFile.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:41,909 copying rna_tools/tools/mini_moderna3/moderna/util/Errors.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:41,912 creating build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,913 copying rna_tools/tools/mini_moderna3/moderna/builder/ChiRotator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,915 copying rna_tools/tools/mini_moderna3/moderna/builder/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,916 copying rna_tools/tools/mini_moderna3/moderna/builder/Constants.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,918 copying rna_tools/tools/mini_moderna3/moderna/builder/BackboneBuilder.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,920 copying rna_tools/tools/mini_moderna3/moderna/builder/PhosphateBuilder.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,923 copying rna_tools/tools/mini_moderna3/moderna/builder/CoordBuilder.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,925 copying rna_tools/tools/mini_moderna3/moderna/builder/FCCDLoopCloser.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:41,928 creating build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,929 copying rna_tools/tools/mini_moderna3/moderna/analyze/StackingCalculator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,931 copying rna_tools/tools/mini_moderna3/moderna/analyze/HBondCalculator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,935 copying rna_tools/tools/mini_moderna3/moderna/analyze/MolecularGraph.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,937 copying rna_tools/tools/mini_moderna3/moderna/analyze/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,939 copying rna_tools/tools/mini_moderna3/moderna/analyze/Constants.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,941 copying rna_tools/tools/mini_moderna3/moderna/analyze/PuckerCalculator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,943 copying rna_tools/tools/mini_moderna3/moderna/analyze/RNASuites.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,945 copying rna_tools/tools/mini_moderna3/moderna/analyze/MolParameters.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,947 copying rna_tools/tools/mini_moderna3/moderna/analyze/BasePairCalculator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,949 copying rna_tools/tools/mini_moderna3/moderna/analyze/MolTopologies.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,952 copying rna_tools/tools/mini_moderna3/moderna/analyze/GeometryAnalyzer.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,954 copying rna_tools/tools/mini_moderna3/moderna/analyze/ClashRecognizer.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,956 copying rna_tools/tools/mini_moderna3/moderna/analyze/ChainConnectivity.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,958 copying rna_tools/tools/mini_moderna3/moderna/analyze/GeometryStatistics.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,960 copying rna_tools/tools/mini_moderna3/moderna/analyze/MolGraphParser.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,963 copying rna_tools/tools/mini_moderna3/moderna/analyze/BaseRecognizer.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,965 copying rna_tools/tools/mini_moderna3/moderna/analyze/GeometryParameters.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:41,968 creating build/lib/rna_tools/tools/mini_moderna3/moderna/examples 2026-02-14T09:49:41,969 copying rna_tools/tools/mini_moderna3/moderna/examples/__init__.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/examples 2026-02-14T09:49:41,971 copying rna_tools/tools/mini_moderna3/moderna/examples/usage_examples.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/examples 2026-02-14T09:49:41,974 creating build/lib/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:41,975 copying rna_tools/tools/webserver-engine/web/__init__.py -> build/lib/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:41,977 copying rna_tools/tools/webserver-engine/web/wsgi.py -> build/lib/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:41,978 copying rna_tools/tools/webserver-engine/web/settings.py -> build/lib/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:41,981 copying rna_tools/tools/webserver-engine/web/urls.py -> build/lib/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:41,983 creating build/lib/rna_tools/tools/webserver-engine/django_extensions 2026-02-14T09:49:41,984 copying rna_tools/tools/webserver-engine/django_extensions/__init__.py -> build/lib/rna_tools/tools/webserver-engine/django_extensions 2026-02-14T09:49:41,986 creating build/lib/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:41,987 copying rna_tools/tools/webserver-engine/app/__init__.py -> build/lib/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:41,988 copying rna_tools/tools/webserver-engine/app/models.py -> build/lib/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:41,990 copying rna_tools/tools/webserver-engine/app/admin.py -> build/lib/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:41,992 copying rna_tools/tools/webserver-engine/app/views.py -> build/lib/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:41,995 creating build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:41,996 copying rna_tools/tools/clarna_play/ClaRNAlib/cl_settings_global.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:41,998 copying rna_tools/tools/clarna_play/ClaRNAlib/__init__.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,000 copying rna_tools/tools/clarna_play/ClaRNAlib/structure_ciach.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,002 copying rna_tools/tools/clarna_play/ClaRNAlib/clarna.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,005 copying rna_tools/tools/clarna_play/ClaRNAlib/cl_settings.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,006 copying rna_tools/tools/clarna_play/ClaRNAlib/utils.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,009 copying rna_tools/tools/clarna_play/ClaRNAlib/distances.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,012 copying rna_tools/tools/clarna_play/ClaRNAlib/normalize_pdb.py -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:42,015 creating build/lib/rna_tools/tools/clarna_play/lib 2026-02-14T09:49:42,016 copying rna_tools/tools/clarna_play/lib/__init__.py -> build/lib/rna_tools/tools/clarna_play/lib 2026-02-14T09:49:42,018 creating build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:42,019 copying rna_tools/tools/clarna_play/lib/rna_pdb_tools/__init__.py -> build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:42,020 copying rna_tools/tools/clarna_play/lib/rna_pdb_tools/rna-pdb-tools.py -> build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:42,022 copying rna_tools/tools/clarna_play/lib/rna_pdb_tools/pdb_parser_lib.py -> build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:42,026 creating build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:42,027 copying rna_tools/tools/mq/RASP/__init__.py -> build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:42,029 copying rna_tools/tools/mq/RASP/rasp_for_pymol.py -> build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:42,032 copying rna_tools/tools/mq/RASP/RASP.py -> build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:42,036 copying rna_tools/tools/mq/RASP/test.py -> build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:42,039 copying rna_tools/tools/mq/RASP/rna_mq_rasp.py -> build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:42,041 creating build/lib/rna_tools/tools/mq/FARNA 2026-02-14T09:49:42,042 copying rna_tools/tools/mq/FARNA/__init__.py -> build/lib/rna_tools/tools/mq/FARNA 2026-02-14T09:49:42,043 copying rna_tools/tools/mq/FARNA/FARNA.py -> build/lib/rna_tools/tools/mq/FARNA 2026-02-14T09:49:42,046 copying rna_tools/tools/mq/FARNA/rna_mq_farna.py -> build/lib/rna_tools/tools/mq/FARNA 2026-02-14T09:49:42,048 creating build/lib/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:42,049 copying rna_tools/tools/mq/FARFAR2/rna_mq_farfar2.py -> build/lib/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:42,051 copying rna_tools/tools/mq/FARFAR2/__init__.py -> build/lib/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:42,053 copying rna_tools/tools/mq/FARFAR2/FARFAR2.py -> build/lib/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:42,056 creating build/lib/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:42,056 copying rna_tools/tools/mq/rsRNASP/__init__.py -> build/lib/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:42,058 copying rna_tools/tools/mq/rsRNASP/rsRNASP.py -> build/lib/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:42,060 copying rna_tools/tools/mq/rsRNASP/rna_mq_rsRNASP.py -> build/lib/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:42,062 creating build/lib/rna_tools/tools/mq/RNAscore 2026-02-14T09:49:42,063 copying rna_tools/tools/mq/RNAscore/__init__.py -> build/lib/rna_tools/tools/mq/RNAscore 2026-02-14T09:49:42,065 copying rna_tools/tools/mq/RNAscore/RNAscore.py -> build/lib/rna_tools/tools/mq/RNAscore 2026-02-14T09:49:42,067 creating build/lib/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:42,068 copying rna_tools/tools/mq/RNAkb/__init__.py -> build/lib/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:42,070 copying rna_tools/tools/mq/RNAkb/RNAkb.py -> build/lib/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:42,072 copying rna_tools/tools/mq/RNAkb/rna_mq_rnakb.py -> build/lib/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:42,075 creating build/lib/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:42,075 copying rna_tools/tools/mq/eSCORE/rna_mq_eSCORE.py -> build/lib/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:42,078 copying rna_tools/tools/mq/eSCORE/__init__.py -> build/lib/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:42,081 copying rna_tools/tools/mq/eSCORE/eSCORE.py -> build/lib/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:42,083 creating build/lib/rna_tools/tools/mq/ClashScore 2026-02-14T09:49:42,084 copying rna_tools/tools/mq/ClashScore/ClashScore.py -> build/lib/rna_tools/tools/mq/ClashScore 2026-02-14T09:49:42,086 copying rna_tools/tools/mq/ClashScore/__init__.py -> build/lib/rna_tools/tools/mq/ClashScore 2026-02-14T09:49:42,087 copying rna_tools/tools/mq/ClashScore/rna_mq_clashscore.py -> build/lib/rna_tools/tools/mq/ClashScore 2026-02-14T09:49:42,089 creating build/lib/rna_tools/tools/mq/QRNAS 2026-02-14T09:49:42,090 copying rna_tools/tools/mq/QRNAS/__init__.py -> build/lib/rna_tools/tools/mq/QRNAS 2026-02-14T09:49:42,092 copying rna_tools/tools/mq/QRNAS/QRNAS.py -> build/lib/rna_tools/tools/mq/QRNAS 2026-02-14T09:49:42,095 creating build/lib/rna_tools/tools/mq/Dfire 2026-02-14T09:49:42,096 copying rna_tools/tools/mq/Dfire/__init__.py -> build/lib/rna_tools/tools/mq/Dfire 2026-02-14T09:49:42,098 copying rna_tools/tools/mq/Dfire/Dfire.py -> build/lib/rna_tools/tools/mq/Dfire 2026-02-14T09:49:42,101 copying rna_tools/tools/mq/Dfire/rna_mq_dfire.py -> build/lib/rna_tools/tools/mq/Dfire 2026-02-14T09:49:42,103 creating build/lib/rna_tools/tools/mq/lib 2026-02-14T09:49:42,105 copying rna_tools/tools/mq/lib/__init__.py -> build/lib/rna_tools/tools/mq/lib 2026-02-14T09:49:42,107 creating build/lib/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:49:42,109 copying rna_tools/tools/mq/AnalyzeGeometry/__init__.py -> build/lib/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:49:42,111 copying rna_tools/tools/mq/AnalyzeGeometry/AnalyzeGeometry.py -> build/lib/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:49:42,115 copying rna_tools/tools/mq/AnalyzeGeometry/rna_mq_analyzegeometry.py -> build/lib/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:49:42,120 creating build/lib/rna_tools/tools/mq/SimRNA 2026-02-14T09:49:42,121 copying rna_tools/tools/mq/SimRNA/__init__.py -> build/lib/rna_tools/tools/mq/SimRNA 2026-02-14T09:49:42,123 copying rna_tools/tools/mq/SimRNA/SimRNA.py -> build/lib/rna_tools/tools/mq/SimRNA 2026-02-14T09:49:42,126 copying rna_tools/tools/mq/SimRNA/rna_mq_simrna.py -> build/lib/rna_tools/tools/mq/SimRNA 2026-02-14T09:49:42,131 creating build/lib/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:49:42,133 copying rna_tools/tools/mq/RNA3DCNN/__init__.py -> build/lib/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:49:42,137 copying rna_tools/tools/mq/RNA3DCNN/rna_mq_rna3dcnn.py -> build/lib/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:49:42,140 copying rna_tools/tools/mq/RNA3DCNN/RNA3DCNN.py -> build/lib/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:49:42,144 creating build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:42,145 copying rna_tools/tools/mq/RASP/test/__init__.py -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:42,147 copying rna_tools/tools/mq/RASP/test/test.py -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:42,150 creating build/lib/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:49:42,151 copying rna_tools/tools/mq/QRNAS/test/__init__.py -> build/lib/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:49:42,154 copying rna_tools/tools/mq/QRNAS/test/test.py -> build/lib/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:49:42,157 creating build/lib/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:49:42,158 copying rna_tools/tools/mq/lib/wrappers/__init__.py -> build/lib/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:49:42,160 copying rna_tools/tools/mq/lib/wrappers/base_wrappers.py -> build/lib/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:49:42,163 copying rna_tools/tools/mq/lib/wrappers/SubprocessUtils.py -> build/lib/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:49:42,166 creating build/lib/rna_tools/tools/mq/lib/timex 2026-02-14T09:49:42,167 copying rna_tools/tools/mq/lib/timex/__init__.py -> build/lib/rna_tools/tools/mq/lib/timex 2026-02-14T09:49:42,170 copying rna_tools/tools/mq/lib/timex/timex.py -> build/lib/rna_tools/tools/mq/lib/timex 2026-02-14T09:49:42,173 creating build/lib/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:49:42,174 copying rna_tools/tools/mq/lib/shellgraphics/__init__.py -> build/lib/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:49:42,176 copying rna_tools/tools/mq/lib/shellgraphics/shellgraphics.py -> build/lib/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:49:42,180 creating build/lib/rna_tools/tools/mq/lib/wrappers/test 2026-02-14T09:49:42,181 copying rna_tools/tools/mq/lib/wrappers/test/__init__.py -> build/lib/rna_tools/tools/mq/lib/wrappers/test 2026-02-14T09:49:42,185 copying rna_tools/tools/mq/lib/wrappers/test/test.py -> build/lib/rna_tools/tools/mq/lib/wrappers/test 2026-02-14T09:49:42,188 creating build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,189 copying rna_tools/tools/PyMOL4RNA/libs/get_raw_distances.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,192 copying rna_tools/tools/PyMOL4RNA/libs/__init__.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,194 copying rna_tools/tools/PyMOL4RNA/libs/calc_gdt.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,196 copying rna_tools/tools/PyMOL4RNA/libs/colorbyrmsd.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,199 copying rna_tools/tools/PyMOL4RNA/libs/show_contacts.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,202 copying rna_tools/tools/PyMOL4RNA/libs/pymol_daslab.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,205 copying rna_tools/tools/PyMOL4RNA/libs/pucker.py -> build/lib/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:49:42,208 creating build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:42,210 copying rna_tools/tools/pdb_formatix/test/__init__.py -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:42,212 copying rna_tools/tools/pdb_formatix/test/test.py -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:42,215 running egg_info 2026-02-14T09:49:42,224 writing rna_tools.egg-info/PKG-INFO 2026-02-14T09:49:42,232 writing dependency_links to rna_tools.egg-info/dependency_links.txt 2026-02-14T09:49:42,236 writing requirements to rna_tools.egg-info/requires.txt 2026-02-14T09:49:42,238 writing top-level names to rna_tools.egg-info/top_level.txt 2026-02-14T09:49:42,334 reading manifest file 'rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:42,372 reading manifest template 'MANIFEST.in' 2026-02-14T09:49:43,115 adding license file 'LICENSE' 2026-02-14T09:49:43,199 writing manifest file 'rna_tools.egg-info/SOURCES.txt' 2026-02-14T09:49:43,222 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.data' is absent from the `packages` configuration. 2026-02-14T09:49:43,223 !! 2026-02-14T09:49:43,223 ******************************************************************************** 2026-02-14T09:49:43,224 ############################ 2026-02-14T09:49:43,224 # Package would be ignored # 2026-02-14T09:49:43,225 ############################ 2026-02-14T09:49:43,225 Python recognizes 'rna_tools.data' as an importable package[^1], 2026-02-14T09:49:43,226 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,227 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,227 package, please make sure that 'rna_tools.data' is explicitly added 2026-02-14T09:49:43,228 to the `packages` configuration field. 2026-02-14T09:49:43,229 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,229 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,230 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,231 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,233 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,234 If you don't want 'rna_tools.data' to be distributed and are 2026-02-14T09:49:43,234 already explicitly excluding 'rna_tools.data' via 2026-02-14T09:49:43,235 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,236 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,236 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,237 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,239 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,240 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,240 even if it does not contain any `.py` files. 2026-02-14T09:49:43,241 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,241 directory, all directories are treated like packages. 2026-02-14T09:49:43,242 ******************************************************************************** 2026-02-14T09:49:43,243 !! 2026-02-14T09:49:43,243 check.warn(importable) 2026-02-14T09:49:43,244 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tests' is absent from the `packages` configuration. 2026-02-14T09:49:43,244 !! 2026-02-14T09:49:43,245 ******************************************************************************** 2026-02-14T09:49:43,246 ############################ 2026-02-14T09:49:43,247 # Package would be ignored # 2026-02-14T09:49:43,247 ############################ 2026-02-14T09:49:43,248 Python recognizes 'rna_tools.tests' as an importable package[^1], 2026-02-14T09:49:43,248 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,250 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,250 package, please make sure that 'rna_tools.tests' is explicitly added 2026-02-14T09:49:43,250 to the `packages` configuration field. 2026-02-14T09:49:43,251 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,251 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,252 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,252 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,253 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,254 If you don't want 'rna_tools.tests' to be distributed and are 2026-02-14T09:49:43,254 already explicitly excluding 'rna_tools.tests' via 2026-02-14T09:49:43,254 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,255 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,255 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,256 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,257 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,258 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,258 even if it does not contain any `.py` files. 2026-02-14T09:49:43,259 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,259 directory, all directories are treated like packages. 2026-02-14T09:49:43,260 ******************************************************************************** 2026-02-14T09:49:43,261 !! 2026-02-14T09:49:43,261 check.warn(importable) 2026-02-14T09:49:43,262 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tests.test_import_module' is absent from the `packages` configuration. 2026-02-14T09:49:43,262 !! 2026-02-14T09:49:43,263 ******************************************************************************** 2026-02-14T09:49:43,264 ############################ 2026-02-14T09:49:43,264 # Package would be ignored # 2026-02-14T09:49:43,265 ############################ 2026-02-14T09:49:43,266 Python recognizes 'rna_tools.tests.test_import_module' as an importable package[^1], 2026-02-14T09:49:43,266 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,267 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,268 package, please make sure that 'rna_tools.tests.test_import_module' is explicitly added 2026-02-14T09:49:43,268 to the `packages` configuration field. 2026-02-14T09:49:43,269 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,270 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,270 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,271 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,272 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,273 If you don't want 'rna_tools.tests.test_import_module' to be distributed and are 2026-02-14T09:49:43,274 already explicitly excluding 'rna_tools.tests.test_import_module' via 2026-02-14T09:49:43,274 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,275 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,276 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,277 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,277 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,278 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,279 even if it does not contain any `.py` files. 2026-02-14T09:49:43,279 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,279 directory, all directories are treated like packages. 2026-02-14T09:49:43,280 ******************************************************************************** 2026-02-14T09:49:43,280 !! 2026-02-14T09:49:43,281 check.warn(importable) 2026-02-14T09:49:43,281 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tests.test_import_module.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,281 !! 2026-02-14T09:49:43,282 ******************************************************************************** 2026-02-14T09:49:43,282 ############################ 2026-02-14T09:49:43,283 # Package would be ignored # 2026-02-14T09:49:43,283 ############################ 2026-02-14T09:49:43,283 Python recognizes 'rna_tools.tests.test_import_module.test_data' as an importable package[^1], 2026-02-14T09:49:43,284 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,285 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,285 package, please make sure that 'rna_tools.tests.test_import_module.test_data' is explicitly added 2026-02-14T09:49:43,286 to the `packages` configuration field. 2026-02-14T09:49:43,287 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,288 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,288 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,289 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,290 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,291 If you don't want 'rna_tools.tests.test_import_module.test_data' to be distributed and are 2026-02-14T09:49:43,292 already explicitly excluding 'rna_tools.tests.test_import_module.test_data' via 2026-02-14T09:49:43,293 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,293 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,293 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,294 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,295 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,297 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,297 even if it does not contain any `.py` files. 2026-02-14T09:49:43,298 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,298 directory, all directories are treated like packages. 2026-02-14T09:49:43,299 ******************************************************************************** 2026-02-14T09:49:43,300 !! 2026-02-14T09:49:43,300 check.warn(importable) 2026-02-14T09:49:43,301 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.ClashCalc.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,302 !! 2026-02-14T09:49:43,303 ******************************************************************************** 2026-02-14T09:49:43,303 ############################ 2026-02-14T09:49:43,303 # Package would be ignored # 2026-02-14T09:49:43,304 ############################ 2026-02-14T09:49:43,304 Python recognizes 'rna_tools.tools.ClashCalc.test_data' as an importable package[^1], 2026-02-14T09:49:43,304 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,305 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,305 package, please make sure that 'rna_tools.tools.ClashCalc.test_data' is explicitly added 2026-02-14T09:49:43,306 to the `packages` configuration field. 2026-02-14T09:49:43,306 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,307 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,307 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,308 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,309 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,309 If you don't want 'rna_tools.tools.ClashCalc.test_data' to be distributed and are 2026-02-14T09:49:43,310 already explicitly excluding 'rna_tools.tools.ClashCalc.test_data' via 2026-02-14T09:49:43,310 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,311 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,311 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,313 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,314 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,315 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,316 even if it does not contain any `.py` files. 2026-02-14T09:49:43,317 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,317 directory, all directories are treated like packages. 2026-02-14T09:49:43,318 ******************************************************************************** 2026-02-14T09:49:43,319 !! 2026-02-14T09:49:43,320 check.warn(importable) 2026-02-14T09:49:43,320 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.PyMOL4RNA.doc' is absent from the `packages` configuration. 2026-02-14T09:49:43,321 !! 2026-02-14T09:49:43,322 ******************************************************************************** 2026-02-14T09:49:43,322 ############################ 2026-02-14T09:49:43,323 # Package would be ignored # 2026-02-14T09:49:43,323 ############################ 2026-02-14T09:49:43,324 Python recognizes 'rna_tools.tools.PyMOL4RNA.doc' as an importable package[^1], 2026-02-14T09:49:43,324 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,325 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,326 package, please make sure that 'rna_tools.tools.PyMOL4RNA.doc' is explicitly added 2026-02-14T09:49:43,326 to the `packages` configuration field. 2026-02-14T09:49:43,328 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,328 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,329 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,330 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,330 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,331 If you don't want 'rna_tools.tools.PyMOL4RNA.doc' to be distributed and are 2026-02-14T09:49:43,331 already explicitly excluding 'rna_tools.tools.PyMOL4RNA.doc' via 2026-02-14T09:49:43,332 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,332 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,332 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,333 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,334 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,335 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,335 even if it does not contain any `.py` files. 2026-02-14T09:49:43,336 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,336 directory, all directories are treated like packages. 2026-02-14T09:49:43,337 ******************************************************************************** 2026-02-14T09:49:43,337 !! 2026-02-14T09:49:43,338 check.warn(importable) 2026-02-14T09:49:43,338 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.PyMOL4RNA.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,339 !! 2026-02-14T09:49:43,340 ******************************************************************************** 2026-02-14T09:49:43,340 ############################ 2026-02-14T09:49:43,340 # Package would be ignored # 2026-02-14T09:49:43,341 ############################ 2026-02-14T09:49:43,341 Python recognizes 'rna_tools.tools.PyMOL4RNA.test_data' as an importable package[^1], 2026-02-14T09:49:43,342 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,343 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,343 package, please make sure that 'rna_tools.tools.PyMOL4RNA.test_data' is explicitly added 2026-02-14T09:49:43,344 to the `packages` configuration field. 2026-02-14T09:49:43,345 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,345 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,346 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,347 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,348 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,349 If you don't want 'rna_tools.tools.PyMOL4RNA.test_data' to be distributed and are 2026-02-14T09:49:43,349 already explicitly excluding 'rna_tools.tools.PyMOL4RNA.test_data' via 2026-02-14T09:49:43,350 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,350 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,350 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,352 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,353 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,354 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,355 even if it does not contain any `.py` files. 2026-02-14T09:49:43,356 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,356 directory, all directories are treated like packages. 2026-02-14T09:49:43,356 ******************************************************************************** 2026-02-14T09:49:43,357 !! 2026-02-14T09:49:43,358 check.warn(importable) 2026-02-14T09:49:43,358 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clanstix.doc' is absent from the `packages` configuration. 2026-02-14T09:49:43,358 !! 2026-02-14T09:49:43,359 ******************************************************************************** 2026-02-14T09:49:43,359 ############################ 2026-02-14T09:49:43,360 # Package would be ignored # 2026-02-14T09:49:43,360 ############################ 2026-02-14T09:49:43,360 Python recognizes 'rna_tools.tools.clanstix.doc' as an importable package[^1], 2026-02-14T09:49:43,361 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,361 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,362 package, please make sure that 'rna_tools.tools.clanstix.doc' is explicitly added 2026-02-14T09:49:43,362 to the `packages` configuration field. 2026-02-14T09:49:43,363 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,364 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,364 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,365 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,366 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,367 If you don't want 'rna_tools.tools.clanstix.doc' to be distributed and are 2026-02-14T09:49:43,368 already explicitly excluding 'rna_tools.tools.clanstix.doc' via 2026-02-14T09:49:43,369 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,369 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,370 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,371 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,372 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,374 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,374 even if it does not contain any `.py` files. 2026-02-14T09:49:43,374 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,375 directory, all directories are treated like packages. 2026-02-14T09:49:43,375 ******************************************************************************** 2026-02-14T09:49:43,376 !! 2026-02-14T09:49:43,377 check.warn(importable) 2026-02-14T09:49:43,377 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clanstix.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,378 !! 2026-02-14T09:49:43,379 ******************************************************************************** 2026-02-14T09:49:43,379 ############################ 2026-02-14T09:49:43,380 # Package would be ignored # 2026-02-14T09:49:43,380 ############################ 2026-02-14T09:49:43,381 Python recognizes 'rna_tools.tools.clanstix.test_data' as an importable package[^1], 2026-02-14T09:49:43,382 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,383 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,383 package, please make sure that 'rna_tools.tools.clanstix.test_data' is explicitly added 2026-02-14T09:49:43,383 to the `packages` configuration field. 2026-02-14T09:49:43,384 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,385 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,385 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,386 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,386 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,387 If you don't want 'rna_tools.tools.clanstix.test_data' to be distributed and are 2026-02-14T09:49:43,387 already explicitly excluding 'rna_tools.tools.clanstix.test_data' via 2026-02-14T09:49:43,388 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,388 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,389 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,390 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,391 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,392 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,392 even if it does not contain any `.py` files. 2026-02-14T09:49:43,393 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,393 directory, all directories are treated like packages. 2026-02-14T09:49:43,394 ******************************************************************************** 2026-02-14T09:49:43,395 !! 2026-02-14T09:49:43,395 check.warn(importable) 2026-02-14T09:49:43,396 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clanstix.test_data.rp17_del' is absent from the `packages` configuration. 2026-02-14T09:49:43,397 !! 2026-02-14T09:49:43,398 ******************************************************************************** 2026-02-14T09:49:43,398 ############################ 2026-02-14T09:49:43,399 # Package would be ignored # 2026-02-14T09:49:43,400 ############################ 2026-02-14T09:49:43,400 Python recognizes 'rna_tools.tools.clanstix.test_data.rp17_del' as an importable package[^1], 2026-02-14T09:49:43,401 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,402 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,402 package, please make sure that 'rna_tools.tools.clanstix.test_data.rp17_del' is explicitly added 2026-02-14T09:49:43,403 to the `packages` configuration field. 2026-02-14T09:49:43,404 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,404 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,405 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,406 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,407 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,408 If you don't want 'rna_tools.tools.clanstix.test_data.rp17_del' to be distributed and are 2026-02-14T09:49:43,408 already explicitly excluding 'rna_tools.tools.clanstix.test_data.rp17_del' via 2026-02-14T09:49:43,409 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,410 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,410 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,411 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,411 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,412 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,413 even if it does not contain any `.py` files. 2026-02-14T09:49:43,413 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,414 directory, all directories are treated like packages. 2026-02-14T09:49:43,414 ******************************************************************************** 2026-02-14T09:49:43,415 !! 2026-02-14T09:49:43,415 check.warn(importable) 2026-02-14T09:49:43,415 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_app.data' is absent from the `packages` configuration. 2026-02-14T09:49:43,416 !! 2026-02-14T09:49:43,416 ******************************************************************************** 2026-02-14T09:49:43,417 ############################ 2026-02-14T09:49:43,417 # Package would be ignored # 2026-02-14T09:49:43,418 ############################ 2026-02-14T09:49:43,418 Python recognizes 'rna_tools.tools.clarna_app.data' as an importable package[^1], 2026-02-14T09:49:43,419 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,420 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,420 package, please make sure that 'rna_tools.tools.clarna_app.data' is explicitly added 2026-02-14T09:49:43,421 to the `packages` configuration field. 2026-02-14T09:49:43,422 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,422 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,423 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,424 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,425 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,426 If you don't want 'rna_tools.tools.clarna_app.data' to be distributed and are 2026-02-14T09:49:43,427 already explicitly excluding 'rna_tools.tools.clarna_app.data' via 2026-02-14T09:49:43,427 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,428 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,428 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,429 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,430 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,431 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,432 even if it does not contain any `.py` files. 2026-02-14T09:49:43,432 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,433 directory, all directories are treated like packages. 2026-02-14T09:49:43,433 ******************************************************************************** 2026-02-14T09:49:43,434 !! 2026-02-14T09:49:43,435 check.warn(importable) 2026-02-14T09:49:43,436 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_play.ClaRNAlib.lib' is absent from the `packages` configuration. 2026-02-14T09:49:43,437 !! 2026-02-14T09:49:43,437 ******************************************************************************** 2026-02-14T09:49:43,438 ############################ 2026-02-14T09:49:43,438 # Package would be ignored # 2026-02-14T09:49:43,438 ############################ 2026-02-14T09:49:43,439 Python recognizes 'rna_tools.tools.clarna_play.ClaRNAlib.lib' as an importable package[^1], 2026-02-14T09:49:43,439 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,440 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,440 package, please make sure that 'rna_tools.tools.clarna_play.ClaRNAlib.lib' is explicitly added 2026-02-14T09:49:43,440 to the `packages` configuration field. 2026-02-14T09:49:43,441 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,442 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,442 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,443 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,444 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,444 If you don't want 'rna_tools.tools.clarna_play.ClaRNAlib.lib' to be distributed and are 2026-02-14T09:49:43,445 already explicitly excluding 'rna_tools.tools.clarna_play.ClaRNAlib.lib' via 2026-02-14T09:49:43,445 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,446 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,446 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,447 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,449 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,450 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,451 even if it does not contain any `.py` files. 2026-02-14T09:49:43,451 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,452 directory, all directories are treated like packages. 2026-02-14T09:49:43,452 ******************************************************************************** 2026-02-14T09:49:43,453 !! 2026-02-14T09:49:43,454 check.warn(importable) 2026-02-14T09:49:43,454 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_play.docs' is absent from the `packages` configuration. 2026-02-14T09:49:43,455 !! 2026-02-14T09:49:43,456 ******************************************************************************** 2026-02-14T09:49:43,456 ############################ 2026-02-14T09:49:43,457 # Package would be ignored # 2026-02-14T09:49:43,457 ############################ 2026-02-14T09:49:43,458 Python recognizes 'rna_tools.tools.clarna_play.docs' as an importable package[^1], 2026-02-14T09:49:43,458 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,459 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,460 package, please make sure that 'rna_tools.tools.clarna_play.docs' is explicitly added 2026-02-14T09:49:43,460 to the `packages` configuration field. 2026-02-14T09:49:43,462 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,462 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,463 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,464 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,465 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,465 If you don't want 'rna_tools.tools.clarna_play.docs' to be distributed and are 2026-02-14T09:49:43,466 already explicitly excluding 'rna_tools.tools.clarna_play.docs' via 2026-02-14T09:49:43,466 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,466 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,467 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,468 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,468 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,470 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,470 even if it does not contain any `.py` files. 2026-02-14T09:49:43,470 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,471 directory, all directories are treated like packages. 2026-02-14T09:49:43,471 ******************************************************************************** 2026-02-14T09:49:43,472 !! 2026-02-14T09:49:43,473 check.warn(importable) 2026-02-14T09:49:43,473 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_play.lib.ClaRNAwd_to_vienaSS' is absent from the `packages` configuration. 2026-02-14T09:49:43,474 !! 2026-02-14T09:49:43,475 ******************************************************************************** 2026-02-14T09:49:43,476 ############################ 2026-02-14T09:49:43,476 # Package would be ignored # 2026-02-14T09:49:43,477 ############################ 2026-02-14T09:49:43,477 Python recognizes 'rna_tools.tools.clarna_play.lib.ClaRNAwd_to_vienaSS' as an importable package[^1], 2026-02-14T09:49:43,478 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,479 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,480 package, please make sure that 'rna_tools.tools.clarna_play.lib.ClaRNAwd_to_vienaSS' is explicitly added 2026-02-14T09:49:43,480 to the `packages` configuration field. 2026-02-14T09:49:43,481 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,482 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,482 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,483 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,484 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,485 If you don't want 'rna_tools.tools.clarna_play.lib.ClaRNAwd_to_vienaSS' to be distributed and are 2026-02-14T09:49:43,486 already explicitly excluding 'rna_tools.tools.clarna_play.lib.ClaRNAwd_to_vienaSS' via 2026-02-14T09:49:43,486 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,487 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,487 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,488 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,490 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,491 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,491 even if it does not contain any `.py` files. 2026-02-14T09:49:43,491 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,492 directory, all directories are treated like packages. 2026-02-14T09:49:43,492 ******************************************************************************** 2026-02-14T09:49:43,493 !! 2026-02-14T09:49:43,493 check.warn(importable) 2026-02-14T09:49:43,493 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_play.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,494 !! 2026-02-14T09:49:43,495 ******************************************************************************** 2026-02-14T09:49:43,495 ############################ 2026-02-14T09:49:43,495 # Package would be ignored # 2026-02-14T09:49:43,496 ############################ 2026-02-14T09:49:43,496 Python recognizes 'rna_tools.tools.clarna_play.test_data' as an importable package[^1], 2026-02-14T09:49:43,496 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,497 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,497 package, please make sure that 'rna_tools.tools.clarna_play.test_data' is explicitly added 2026-02-14T09:49:43,498 to the `packages` configuration field. 2026-02-14T09:49:43,499 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,499 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,500 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,501 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,502 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,503 If you don't want 'rna_tools.tools.clarna_play.test_data' to be distributed and are 2026-02-14T09:49:43,504 already explicitly excluding 'rna_tools.tools.clarna_play.test_data' via 2026-02-14T09:49:43,504 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,505 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,505 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,506 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,507 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,508 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,509 even if it does not contain any `.py` files. 2026-02-14T09:49:43,509 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,510 directory, all directories are treated like packages. 2026-02-14T09:49:43,510 ******************************************************************************** 2026-02-14T09:49:43,511 !! 2026-02-14T09:49:43,512 check.warn(importable) 2026-02-14T09:49:43,512 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_play.test_output' is absent from the `packages` configuration. 2026-02-14T09:49:43,513 !! 2026-02-14T09:49:43,514 ******************************************************************************** 2026-02-14T09:49:43,514 ############################ 2026-02-14T09:49:43,515 # Package would be ignored # 2026-02-14T09:49:43,515 ############################ 2026-02-14T09:49:43,516 Python recognizes 'rna_tools.tools.clarna_play.test_output' as an importable package[^1], 2026-02-14T09:49:43,516 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,517 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,517 package, please make sure that 'rna_tools.tools.clarna_play.test_output' is explicitly added 2026-02-14T09:49:43,517 to the `packages` configuration field. 2026-02-14T09:49:43,518 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,518 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,519 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,520 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,520 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,521 If you don't want 'rna_tools.tools.clarna_play.test_output' to be distributed and are 2026-02-14T09:49:43,521 already explicitly excluding 'rna_tools.tools.clarna_play.test_output' via 2026-02-14T09:49:43,522 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,522 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,523 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,524 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,525 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,526 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,527 even if it does not contain any `.py` files. 2026-02-14T09:49:43,528 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,528 directory, all directories are treated like packages. 2026-02-14T09:49:43,529 ******************************************************************************** 2026-02-14T09:49:43,530 !! 2026-02-14T09:49:43,530 check.warn(importable) 2026-02-14T09:49:43,531 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.clarna_play.tests' is absent from the `packages` configuration. 2026-02-14T09:49:43,531 !! 2026-02-14T09:49:43,532 ******************************************************************************** 2026-02-14T09:49:43,533 ############################ 2026-02-14T09:49:43,534 # Package would be ignored # 2026-02-14T09:49:43,534 ############################ 2026-02-14T09:49:43,535 Python recognizes 'rna_tools.tools.clarna_play.tests' as an importable package[^1], 2026-02-14T09:49:43,535 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,536 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,537 package, please make sure that 'rna_tools.tools.clarna_play.tests' is explicitly added 2026-02-14T09:49:43,537 to the `packages` configuration field. 2026-02-14T09:49:43,538 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,539 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,540 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,541 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,542 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,543 If you don't want 'rna_tools.tools.clarna_play.tests' to be distributed and are 2026-02-14T09:49:43,543 already explicitly excluding 'rna_tools.tools.clarna_play.tests' via 2026-02-14T09:49:43,544 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,544 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,544 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,545 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,546 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,547 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,547 even if it does not contain any `.py` files. 2026-02-14T09:49:43,548 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,548 directory, all directories are treated like packages. 2026-02-14T09:49:43,548 ******************************************************************************** 2026-02-14T09:49:43,549 !! 2026-02-14T09:49:43,549 check.warn(importable) 2026-02-14T09:49:43,550 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.df' is absent from the `packages` configuration. 2026-02-14T09:49:43,550 !! 2026-02-14T09:49:43,551 ******************************************************************************** 2026-02-14T09:49:43,551 ############################ 2026-02-14T09:49:43,552 # Package would be ignored # 2026-02-14T09:49:43,553 ############################ 2026-02-14T09:49:43,553 Python recognizes 'rna_tools.tools.df' as an importable package[^1], 2026-02-14T09:49:43,554 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,555 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,555 package, please make sure that 'rna_tools.tools.df' is explicitly added 2026-02-14T09:49:43,556 to the `packages` configuration field. 2026-02-14T09:49:43,557 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,558 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,558 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,559 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,560 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,561 If you don't want 'rna_tools.tools.df' to be distributed and are 2026-02-14T09:49:43,561 already explicitly excluding 'rna_tools.tools.df' via 2026-02-14T09:49:43,562 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,562 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,563 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,564 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,565 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,566 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,567 even if it does not contain any `.py` files. 2026-02-14T09:49:43,567 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,568 directory, all directories are treated like packages. 2026-02-14T09:49:43,568 ******************************************************************************** 2026-02-14T09:49:43,570 !! 2026-02-14T09:49:43,570 check.warn(importable) 2026-02-14T09:49:43,570 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.df.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,571 !! 2026-02-14T09:49:43,571 ******************************************************************************** 2026-02-14T09:49:43,572 ############################ 2026-02-14T09:49:43,572 # Package would be ignored # 2026-02-14T09:49:43,572 ############################ 2026-02-14T09:49:43,573 Python recognizes 'rna_tools.tools.df.test_data' as an importable package[^1], 2026-02-14T09:49:43,573 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,574 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,574 package, please make sure that 'rna_tools.tools.df.test_data' is explicitly added 2026-02-14T09:49:43,574 to the `packages` configuration field. 2026-02-14T09:49:43,575 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,575 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,576 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,577 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,577 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,578 If you don't want 'rna_tools.tools.df.test_data' to be distributed and are 2026-02-14T09:49:43,579 already explicitly excluding 'rna_tools.tools.df.test_data' via 2026-02-14T09:49:43,580 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,580 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,581 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,582 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,583 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,584 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,585 even if it does not contain any `.py` files. 2026-02-14T09:49:43,585 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,586 directory, all directories are treated like packages. 2026-02-14T09:49:43,586 ******************************************************************************** 2026-02-14T09:49:43,587 !! 2026-02-14T09:49:43,588 check.warn(importable) 2026-02-14T09:49:43,588 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.diffpdb.doc' is absent from the `packages` configuration. 2026-02-14T09:49:43,588 !! 2026-02-14T09:49:43,589 ******************************************************************************** 2026-02-14T09:49:43,590 ############################ 2026-02-14T09:49:43,590 # Package would be ignored # 2026-02-14T09:49:43,591 ############################ 2026-02-14T09:49:43,591 Python recognizes 'rna_tools.tools.diffpdb.doc' as an importable package[^1], 2026-02-14T09:49:43,592 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,593 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,593 package, please make sure that 'rna_tools.tools.diffpdb.doc' is explicitly added 2026-02-14T09:49:43,594 to the `packages` configuration field. 2026-02-14T09:49:43,595 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,595 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,596 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,596 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,597 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,598 If you don't want 'rna_tools.tools.diffpdb.doc' to be distributed and are 2026-02-14T09:49:43,598 already explicitly excluding 'rna_tools.tools.diffpdb.doc' via 2026-02-14T09:49:43,598 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,599 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,599 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,600 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,600 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,601 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,602 even if it does not contain any `.py` files. 2026-02-14T09:49:43,602 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,602 directory, all directories are treated like packages. 2026-02-14T09:49:43,603 ******************************************************************************** 2026-02-14T09:49:43,604 !! 2026-02-14T09:49:43,604 check.warn(importable) 2026-02-14T09:49:43,605 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.diffpdb.lib' is absent from the `packages` configuration. 2026-02-14T09:49:43,605 !! 2026-02-14T09:49:43,606 ******************************************************************************** 2026-02-14T09:49:43,607 ############################ 2026-02-14T09:49:43,607 # Package would be ignored # 2026-02-14T09:49:43,608 ############################ 2026-02-14T09:49:43,609 Python recognizes 'rna_tools.tools.diffpdb.lib' as an importable package[^1], 2026-02-14T09:49:43,609 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,610 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,611 package, please make sure that 'rna_tools.tools.diffpdb.lib' is explicitly added 2026-02-14T09:49:43,611 to the `packages` configuration field. 2026-02-14T09:49:43,612 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,613 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,613 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,614 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,615 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,616 If you don't want 'rna_tools.tools.diffpdb.lib' to be distributed and are 2026-02-14T09:49:43,616 already explicitly excluding 'rna_tools.tools.diffpdb.lib' via 2026-02-14T09:49:43,617 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,617 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,618 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,619 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,620 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,621 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,622 even if it does not contain any `.py` files. 2026-02-14T09:49:43,622 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,622 directory, all directories are treated like packages. 2026-02-14T09:49:43,623 ******************************************************************************** 2026-02-14T09:49:43,623 !! 2026-02-14T09:49:43,624 check.warn(importable) 2026-02-14T09:49:43,624 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.diffpdb.output' is absent from the `packages` configuration. 2026-02-14T09:49:43,624 !! 2026-02-14T09:49:43,625 ******************************************************************************** 2026-02-14T09:49:43,625 ############################ 2026-02-14T09:49:43,626 # Package would be ignored # 2026-02-14T09:49:43,626 ############################ 2026-02-14T09:49:43,626 Python recognizes 'rna_tools.tools.diffpdb.output' as an importable package[^1], 2026-02-14T09:49:43,627 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,627 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,628 package, please make sure that 'rna_tools.tools.diffpdb.output' is explicitly added 2026-02-14T09:49:43,628 to the `packages` configuration field. 2026-02-14T09:49:43,629 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,629 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,630 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,631 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,632 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,633 If you don't want 'rna_tools.tools.diffpdb.output' to be distributed and are 2026-02-14T09:49:43,633 already explicitly excluding 'rna_tools.tools.diffpdb.output' via 2026-02-14T09:49:43,634 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,635 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,635 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,636 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,637 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,638 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,639 even if it does not contain any `.py` files. 2026-02-14T09:49:43,639 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,639 directory, all directories are treated like packages. 2026-02-14T09:49:43,640 ******************************************************************************** 2026-02-14T09:49:43,641 !! 2026-02-14T09:49:43,641 check.warn(importable) 2026-02-14T09:49:43,642 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.diffpdb.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,642 !! 2026-02-14T09:49:43,643 ******************************************************************************** 2026-02-14T09:49:43,644 ############################ 2026-02-14T09:49:43,644 # Package would be ignored # 2026-02-14T09:49:43,645 ############################ 2026-02-14T09:49:43,645 Python recognizes 'rna_tools.tools.diffpdb.test_data' as an importable package[^1], 2026-02-14T09:49:43,646 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,647 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,647 package, please make sure that 'rna_tools.tools.diffpdb.test_data' is explicitly added 2026-02-14T09:49:43,647 to the `packages` configuration field. 2026-02-14T09:49:43,648 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,648 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,649 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,649 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,650 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,651 If you don't want 'rna_tools.tools.diffpdb.test_data' to be distributed and are 2026-02-14T09:49:43,651 already explicitly excluding 'rna_tools.tools.diffpdb.test_data' via 2026-02-14T09:49:43,651 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,652 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,652 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,653 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,654 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,655 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,656 even if it does not contain any `.py` files. 2026-02-14T09:49:43,656 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,657 directory, all directories are treated like packages. 2026-02-14T09:49:43,658 ******************************************************************************** 2026-02-14T09:49:43,659 !! 2026-02-14T09:49:43,659 check.warn(importable) 2026-02-14T09:49:43,660 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.md.data' is absent from the `packages` configuration. 2026-02-14T09:49:43,660 !! 2026-02-14T09:49:43,661 ******************************************************************************** 2026-02-14T09:49:43,662 ############################ 2026-02-14T09:49:43,662 # Package would be ignored # 2026-02-14T09:49:43,663 ############################ 2026-02-14T09:49:43,663 Python recognizes 'rna_tools.tools.md.data' as an importable package[^1], 2026-02-14T09:49:43,664 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,665 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,665 package, please make sure that 'rna_tools.tools.md.data' is explicitly added 2026-02-14T09:49:43,665 to the `packages` configuration field. 2026-02-14T09:49:43,666 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,667 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,667 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,668 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,669 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,670 If you don't want 'rna_tools.tools.md.data' to be distributed and are 2026-02-14T09:49:43,671 already explicitly excluding 'rna_tools.tools.md.data' via 2026-02-14T09:49:43,671 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,672 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,673 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,673 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,674 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,675 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,675 even if it does not contain any `.py` files. 2026-02-14T09:49:43,676 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,676 directory, all directories are treated like packages. 2026-02-14T09:49:43,677 ******************************************************************************** 2026-02-14T09:49:43,678 !! 2026-02-14T09:49:43,678 check.warn(importable) 2026-02-14T09:49:43,679 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.md.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,679 !! 2026-02-14T09:49:43,680 ******************************************************************************** 2026-02-14T09:49:43,680 ############################ 2026-02-14T09:49:43,681 # Package would be ignored # 2026-02-14T09:49:43,681 ############################ 2026-02-14T09:49:43,682 Python recognizes 'rna_tools.tools.md.test_data' as an importable package[^1], 2026-02-14T09:49:43,682 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,683 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,684 package, please make sure that 'rna_tools.tools.md.test_data' is explicitly added 2026-02-14T09:49:43,684 to the `packages` configuration field. 2026-02-14T09:49:43,685 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,686 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,686 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,688 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,689 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,690 If you don't want 'rna_tools.tools.md.test_data' to be distributed and are 2026-02-14T09:49:43,690 already explicitly excluding 'rna_tools.tools.md.test_data' via 2026-02-14T09:49:43,691 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,691 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,692 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,693 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,694 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,695 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,695 even if it does not contain any `.py` files. 2026-02-14T09:49:43,696 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,696 directory, all directories are treated like packages. 2026-02-14T09:49:43,697 ******************************************************************************** 2026-02-14T09:49:43,698 !! 2026-02-14T09:49:43,699 check.warn(importable) 2026-02-14T09:49:43,699 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.md.test_output' is absent from the `packages` configuration. 2026-02-14T09:49:43,700 !! 2026-02-14T09:49:43,701 ******************************************************************************** 2026-02-14T09:49:43,701 ############################ 2026-02-14T09:49:43,702 # Package would be ignored # 2026-02-14T09:49:43,702 ############################ 2026-02-14T09:49:43,702 Python recognizes 'rna_tools.tools.md.test_output' as an importable package[^1], 2026-02-14T09:49:43,703 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,703 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,704 package, please make sure that 'rna_tools.tools.md.test_output' is explicitly added 2026-02-14T09:49:43,704 to the `packages` configuration field. 2026-02-14T09:49:43,705 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,706 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,706 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,707 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,708 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,709 If you don't want 'rna_tools.tools.md.test_output' to be distributed and are 2026-02-14T09:49:43,710 already explicitly excluding 'rna_tools.tools.md.test_output' via 2026-02-14T09:49:43,710 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,711 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,711 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,713 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,714 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,716 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,717 even if it does not contain any `.py` files. 2026-02-14T09:49:43,717 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,718 directory, all directories are treated like packages. 2026-02-14T09:49:43,719 ******************************************************************************** 2026-02-14T09:49:43,720 !! 2026-02-14T09:49:43,721 check.warn(importable) 2026-02-14T09:49:43,721 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.analyze.suites' is absent from the `packages` configuration. 2026-02-14T09:49:43,722 !! 2026-02-14T09:49:43,723 ******************************************************************************** 2026-02-14T09:49:43,724 ############################ 2026-02-14T09:49:43,725 # Package would be ignored # 2026-02-14T09:49:43,725 ############################ 2026-02-14T09:49:43,726 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.analyze.suites' as an importable package[^1], 2026-02-14T09:49:43,727 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,728 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,729 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.analyze.suites' is explicitly added 2026-02-14T09:49:43,729 to the `packages` configuration field. 2026-02-14T09:49:43,731 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,731 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,732 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,733 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,734 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,735 If you don't want 'rna_tools.tools.mini_moderna3.moderna.analyze.suites' to be distributed and are 2026-02-14T09:49:43,736 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.analyze.suites' via 2026-02-14T09:49:43,736 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,737 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,737 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,738 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,739 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,741 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,742 even if it does not contain any `.py` files. 2026-02-14T09:49:43,742 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,743 directory, all directories are treated like packages. 2026-02-14T09:49:43,743 ******************************************************************************** 2026-02-14T09:49:43,744 !! 2026-02-14T09:49:43,745 check.warn(importable) 2026-02-14T09:49:43,746 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.analyze.suites.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,746 !! 2026-02-14T09:49:43,747 ******************************************************************************** 2026-02-14T09:49:43,748 ############################ 2026-02-14T09:49:43,749 # Package would be ignored # 2026-02-14T09:49:43,750 ############################ 2026-02-14T09:49:43,750 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.analyze.suites.test_data' as an importable package[^1], 2026-02-14T09:49:43,751 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,752 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,753 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.analyze.suites.test_data' is explicitly added 2026-02-14T09:49:43,754 to the `packages` configuration field. 2026-02-14T09:49:43,755 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,755 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,756 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,757 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,758 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,760 If you don't want 'rna_tools.tools.mini_moderna3.moderna.analyze.suites.test_data' to be distributed and are 2026-02-14T09:49:43,760 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.analyze.suites.test_data' via 2026-02-14T09:49:43,761 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,762 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,763 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,765 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,766 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,767 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,768 even if it does not contain any `.py` files. 2026-02-14T09:49:43,768 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,769 directory, all directories are treated like packages. 2026-02-14T09:49:43,769 ******************************************************************************** 2026-02-14T09:49:43,770 !! 2026-02-14T09:49:43,771 check.warn(importable) 2026-02-14T09:49:43,771 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.data' is absent from the `packages` configuration. 2026-02-14T09:49:43,772 !! 2026-02-14T09:49:43,773 ******************************************************************************** 2026-02-14T09:49:43,773 ############################ 2026-02-14T09:49:43,774 # Package would be ignored # 2026-02-14T09:49:43,774 ############################ 2026-02-14T09:49:43,775 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.data' as an importable package[^1], 2026-02-14T09:49:43,776 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,777 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,777 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.data' is explicitly added 2026-02-14T09:49:43,778 to the `packages` configuration field. 2026-02-14T09:49:43,779 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,780 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,781 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,782 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,783 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,785 If you don't want 'rna_tools.tools.mini_moderna3.moderna.data' to be distributed and are 2026-02-14T09:49:43,785 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.data' via 2026-02-14T09:49:43,786 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,787 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,787 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,789 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,790 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,792 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,792 even if it does not contain any `.py` files. 2026-02-14T09:49:43,793 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,793 directory, all directories are treated like packages. 2026-02-14T09:49:43,794 ******************************************************************************** 2026-02-14T09:49:43,796 !! 2026-02-14T09:49:43,796 check.warn(importable) 2026-02-14T09:49:43,797 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs' is absent from the `packages` configuration. 2026-02-14T09:49:43,798 !! 2026-02-14T09:49:43,799 ******************************************************************************** 2026-02-14T09:49:43,800 ############################ 2026-02-14T09:49:43,800 # Package would be ignored # 2026-02-14T09:49:43,801 ############################ 2026-02-14T09:49:43,801 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs' as an importable package[^1], 2026-02-14T09:49:43,802 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,803 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,803 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs' is explicitly added 2026-02-14T09:49:43,804 to the `packages` configuration field. 2026-02-14T09:49:43,805 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,805 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,806 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,807 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,808 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,809 If you don't want 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs' to be distributed and are 2026-02-14T09:49:43,809 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs' via 2026-02-14T09:49:43,809 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,810 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,810 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,811 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,812 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,814 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,815 even if it does not contain any `.py` files. 2026-02-14T09:49:43,815 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,816 directory, all directories are treated like packages. 2026-02-14T09:49:43,816 ******************************************************************************** 2026-02-14T09:49:43,818 !! 2026-02-14T09:49:43,818 check.warn(importable) 2026-02-14T09:49:43,819 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs.stacking' is absent from the `packages` configuration. 2026-02-14T09:49:43,819 !! 2026-02-14T09:49:43,820 ******************************************************************************** 2026-02-14T09:49:43,821 ############################ 2026-02-14T09:49:43,821 # Package would be ignored # 2026-02-14T09:49:43,822 ############################ 2026-02-14T09:49:43,822 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs.stacking' as an importable package[^1], 2026-02-14T09:49:43,823 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,824 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,824 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs.stacking' is explicitly added 2026-02-14T09:49:43,825 to the `packages` configuration field. 2026-02-14T09:49:43,826 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,826 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,827 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,828 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,829 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,829 If you don't want 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs.stacking' to be distributed and are 2026-02-14T09:49:43,830 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.data.base_pairs.stacking' via 2026-02-14T09:49:43,830 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,830 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,831 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,832 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,832 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,833 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,834 even if it does not contain any `.py` files. 2026-02-14T09:49:43,834 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,835 directory, all directories are treated like packages. 2026-02-14T09:49:43,835 ******************************************************************************** 2026-02-14T09:49:43,836 !! 2026-02-14T09:49:43,836 check.warn(importable) 2026-02-14T09:49:43,837 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.data.modification_fragments' is absent from the `packages` configuration. 2026-02-14T09:49:43,837 !! 2026-02-14T09:49:43,838 ******************************************************************************** 2026-02-14T09:49:43,839 ############################ 2026-02-14T09:49:43,839 # Package would be ignored # 2026-02-14T09:49:43,840 ############################ 2026-02-14T09:49:43,841 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.data.modification_fragments' as an importable package[^1], 2026-02-14T09:49:43,841 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,843 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,843 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.data.modification_fragments' is explicitly added 2026-02-14T09:49:43,844 to the `packages` configuration field. 2026-02-14T09:49:43,845 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,845 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,846 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,847 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,847 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,848 If you don't want 'rna_tools.tools.mini_moderna3.moderna.data.modification_fragments' to be distributed and are 2026-02-14T09:49:43,849 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.data.modification_fragments' via 2026-02-14T09:49:43,849 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,850 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,850 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,851 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,853 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,854 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,854 even if it does not contain any `.py` files. 2026-02-14T09:49:43,854 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,855 directory, all directories are treated like packages. 2026-02-14T09:49:43,855 ******************************************************************************** 2026-02-14T09:49:43,856 !! 2026-02-14T09:49:43,856 check.warn(importable) 2026-02-14T09:49:43,856 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mini_moderna3.moderna.data.standard_bases' is absent from the `packages` configuration. 2026-02-14T09:49:43,857 !! 2026-02-14T09:49:43,858 ******************************************************************************** 2026-02-14T09:49:43,858 ############################ 2026-02-14T09:49:43,858 # Package would be ignored # 2026-02-14T09:49:43,859 ############################ 2026-02-14T09:49:43,859 Python recognizes 'rna_tools.tools.mini_moderna3.moderna.data.standard_bases' as an importable package[^1], 2026-02-14T09:49:43,859 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,860 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,861 package, please make sure that 'rna_tools.tools.mini_moderna3.moderna.data.standard_bases' is explicitly added 2026-02-14T09:49:43,861 to the `packages` configuration field. 2026-02-14T09:49:43,862 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,863 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,863 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,864 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,865 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,866 If you don't want 'rna_tools.tools.mini_moderna3.moderna.data.standard_bases' to be distributed and are 2026-02-14T09:49:43,867 already explicitly excluding 'rna_tools.tools.mini_moderna3.moderna.data.standard_bases' via 2026-02-14T09:49:43,868 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,868 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,869 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,870 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,871 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,872 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,872 even if it does not contain any `.py` files. 2026-02-14T09:49:43,873 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,873 directory, all directories are treated like packages. 2026-02-14T09:49:43,874 ******************************************************************************** 2026-02-14T09:49:43,875 !! 2026-02-14T09:49:43,875 check.warn(importable) 2026-02-14T09:49:43,876 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.FARFAR2.test_output' is absent from the `packages` configuration. 2026-02-14T09:49:43,877 !! 2026-02-14T09:49:43,878 ******************************************************************************** 2026-02-14T09:49:43,878 ############################ 2026-02-14T09:49:43,879 # Package would be ignored # 2026-02-14T09:49:43,880 ############################ 2026-02-14T09:49:43,880 Python recognizes 'rna_tools.tools.mq.FARFAR2.test_output' as an importable package[^1], 2026-02-14T09:49:43,881 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,881 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,882 package, please make sure that 'rna_tools.tools.mq.FARFAR2.test_output' is explicitly added 2026-02-14T09:49:43,882 to the `packages` configuration field. 2026-02-14T09:49:43,883 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,883 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,883 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,884 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,885 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,886 If you don't want 'rna_tools.tools.mq.FARFAR2.test_output' to be distributed and are 2026-02-14T09:49:43,886 already explicitly excluding 'rna_tools.tools.mq.FARFAR2.test_output' via 2026-02-14T09:49:43,886 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,887 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,887 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,888 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,889 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,891 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,892 even if it does not contain any `.py` files. 2026-02-14T09:49:43,892 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,893 directory, all directories are treated like packages. 2026-02-14T09:49:43,893 ******************************************************************************** 2026-02-14T09:49:43,895 !! 2026-02-14T09:49:43,895 check.warn(importable) 2026-02-14T09:49:43,896 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.FARNA.test_output' is absent from the `packages` configuration. 2026-02-14T09:49:43,896 !! 2026-02-14T09:49:43,897 ******************************************************************************** 2026-02-14T09:49:43,898 ############################ 2026-02-14T09:49:43,898 # Package would be ignored # 2026-02-14T09:49:43,899 ############################ 2026-02-14T09:49:43,899 Python recognizes 'rna_tools.tools.mq.FARNA.test_output' as an importable package[^1], 2026-02-14T09:49:43,900 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,901 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,902 package, please make sure that 'rna_tools.tools.mq.FARNA.test_output' is explicitly added 2026-02-14T09:49:43,903 to the `packages` configuration field. 2026-02-14T09:49:43,904 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,905 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,905 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,907 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,908 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,909 If you don't want 'rna_tools.tools.mq.FARNA.test_output' to be distributed and are 2026-02-14T09:49:43,909 already explicitly excluding 'rna_tools.tools.mq.FARNA.test_output' via 2026-02-14T09:49:43,910 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,911 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,911 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,912 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,913 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,914 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,914 even if it does not contain any `.py` files. 2026-02-14T09:49:43,914 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,915 directory, all directories are treated like packages. 2026-02-14T09:49:43,915 ******************************************************************************** 2026-02-14T09:49:43,916 !! 2026-02-14T09:49:43,917 check.warn(importable) 2026-02-14T09:49:43,917 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.RNAkb.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:43,918 !! 2026-02-14T09:49:43,919 ******************************************************************************** 2026-02-14T09:49:43,919 ############################ 2026-02-14T09:49:43,920 # Package would be ignored # 2026-02-14T09:49:43,920 ############################ 2026-02-14T09:49:43,921 Python recognizes 'rna_tools.tools.mq.RNAkb.test_data' as an importable package[^1], 2026-02-14T09:49:43,921 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,922 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,922 package, please make sure that 'rna_tools.tools.mq.RNAkb.test_data' is explicitly added 2026-02-14T09:49:43,923 to the `packages` configuration field. 2026-02-14T09:49:43,924 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,925 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,925 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,926 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,927 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,928 If you don't want 'rna_tools.tools.mq.RNAkb.test_data' to be distributed and are 2026-02-14T09:49:43,929 already explicitly excluding 'rna_tools.tools.mq.RNAkb.test_data' via 2026-02-14T09:49:43,929 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,929 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,930 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,931 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,932 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,933 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,934 even if it does not contain any `.py` files. 2026-02-14T09:49:43,935 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,935 directory, all directories are treated like packages. 2026-02-14T09:49:43,936 ******************************************************************************** 2026-02-14T09:49:43,937 !! 2026-02-14T09:49:43,937 check.warn(importable) 2026-02-14T09:49:43,938 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.SimRNA.test' is absent from the `packages` configuration. 2026-02-14T09:49:43,938 !! 2026-02-14T09:49:43,939 ******************************************************************************** 2026-02-14T09:49:43,939 ############################ 2026-02-14T09:49:43,939 # Package would be ignored # 2026-02-14T09:49:43,940 ############################ 2026-02-14T09:49:43,940 Python recognizes 'rna_tools.tools.mq.SimRNA.test' as an importable package[^1], 2026-02-14T09:49:43,940 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,941 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,941 package, please make sure that 'rna_tools.tools.mq.SimRNA.test' is explicitly added 2026-02-14T09:49:43,941 to the `packages` configuration field. 2026-02-14T09:49:43,942 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,943 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,943 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,944 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,945 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,946 If you don't want 'rna_tools.tools.mq.SimRNA.test' to be distributed and are 2026-02-14T09:49:43,946 already explicitly excluding 'rna_tools.tools.mq.SimRNA.test' via 2026-02-14T09:49:43,947 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,947 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,948 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,949 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,950 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,952 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,952 even if it does not contain any `.py` files. 2026-02-14T09:49:43,953 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,953 directory, all directories are treated like packages. 2026-02-14T09:49:43,954 ******************************************************************************** 2026-02-14T09:49:43,954 !! 2026-02-14T09:49:43,955 check.warn(importable) 2026-02-14T09:49:43,955 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.eSCORE.test' is absent from the `packages` configuration. 2026-02-14T09:49:43,956 !! 2026-02-14T09:49:43,957 ******************************************************************************** 2026-02-14T09:49:43,957 ############################ 2026-02-14T09:49:43,958 # Package would be ignored # 2026-02-14T09:49:43,958 ############################ 2026-02-14T09:49:43,959 Python recognizes 'rna_tools.tools.mq.eSCORE.test' as an importable package[^1], 2026-02-14T09:49:43,959 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,960 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,961 package, please make sure that 'rna_tools.tools.mq.eSCORE.test' is explicitly added 2026-02-14T09:49:43,962 to the `packages` configuration field. 2026-02-14T09:49:43,962 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,963 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,963 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,964 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,964 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,965 If you don't want 'rna_tools.tools.mq.eSCORE.test' to be distributed and are 2026-02-14T09:49:43,965 already explicitly excluding 'rna_tools.tools.mq.eSCORE.test' via 2026-02-14T09:49:43,966 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,966 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,966 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,967 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,968 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,969 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,969 even if it does not contain any `.py` files. 2026-02-14T09:49:43,970 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,970 directory, all directories are treated like packages. 2026-02-14T09:49:43,970 ******************************************************************************** 2026-02-14T09:49:43,972 !! 2026-02-14T09:49:43,972 check.warn(importable) 2026-02-14T09:49:43,973 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.test' is absent from the `packages` configuration. 2026-02-14T09:49:43,973 !! 2026-02-14T09:49:43,974 ******************************************************************************** 2026-02-14T09:49:43,975 ############################ 2026-02-14T09:49:43,975 # Package would be ignored # 2026-02-14T09:49:43,976 ############################ 2026-02-14T09:49:43,976 Python recognizes 'rna_tools.tools.mq.test' as an importable package[^1], 2026-02-14T09:49:43,977 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,978 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,978 package, please make sure that 'rna_tools.tools.mq.test' is explicitly added 2026-02-14T09:49:43,979 to the `packages` configuration field. 2026-02-14T09:49:43,980 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,980 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,981 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:43,981 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:43,982 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:43,983 If you don't want 'rna_tools.tools.mq.test' to be distributed and are 2026-02-14T09:49:43,984 already explicitly excluding 'rna_tools.tools.mq.test' via 2026-02-14T09:49:43,984 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:43,985 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:43,985 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:43,987 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:43,987 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:43,989 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:43,989 even if it does not contain any `.py` files. 2026-02-14T09:49:43,990 On the other hand, currently there is no concept of package data 2026-02-14T09:49:43,990 directory, all directories are treated like packages. 2026-02-14T09:49:43,990 ******************************************************************************** 2026-02-14T09:49:43,991 !! 2026-02-14T09:49:43,991 check.warn(importable) 2026-02-14T09:49:43,992 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.mq.tmp' is absent from the `packages` configuration. 2026-02-14T09:49:43,992 !! 2026-02-14T09:49:43,993 ******************************************************************************** 2026-02-14T09:49:43,993 ############################ 2026-02-14T09:49:43,994 # Package would be ignored # 2026-02-14T09:49:43,994 ############################ 2026-02-14T09:49:43,995 Python recognizes 'rna_tools.tools.mq.tmp' as an importable package[^1], 2026-02-14T09:49:43,995 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:43,996 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:43,997 package, please make sure that 'rna_tools.tools.mq.tmp' is explicitly added 2026-02-14T09:49:43,997 to the `packages` configuration field. 2026-02-14T09:49:43,998 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:43,999 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:43,999 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,001 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,002 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,003 If you don't want 'rna_tools.tools.mq.tmp' to be distributed and are 2026-02-14T09:49:44,003 already explicitly excluding 'rna_tools.tools.mq.tmp' via 2026-02-14T09:49:44,004 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,005 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,005 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,006 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,007 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,009 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,009 even if it does not contain any `.py` files. 2026-02-14T09:49:44,010 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,010 directory, all directories are treated like packages. 2026-02-14T09:49:44,010 ******************************************************************************** 2026-02-14T09:49:44,011 !! 2026-02-14T09:49:44,012 check.warn(importable) 2026-02-14T09:49:44,013 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pdbs_measure_atom_dists.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,013 !! 2026-02-14T09:49:44,014 ******************************************************************************** 2026-02-14T09:49:44,015 ############################ 2026-02-14T09:49:44,016 # Package would be ignored # 2026-02-14T09:49:44,016 ############################ 2026-02-14T09:49:44,016 Python recognizes 'rna_tools.tools.pdbs_measure_atom_dists.test_data' as an importable package[^1], 2026-02-14T09:49:44,017 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,018 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,018 package, please make sure that 'rna_tools.tools.pdbs_measure_atom_dists.test_data' is explicitly added 2026-02-14T09:49:44,018 to the `packages` configuration field. 2026-02-14T09:49:44,019 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,019 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,020 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,020 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,021 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,022 If you don't want 'rna_tools.tools.pdbs_measure_atom_dists.test_data' to be distributed and are 2026-02-14T09:49:44,022 already explicitly excluding 'rna_tools.tools.pdbs_measure_atom_dists.test_data' via 2026-02-14T09:49:44,023 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,023 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,023 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,024 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,025 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,026 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,027 even if it does not contain any `.py` files. 2026-02-14T09:49:44,027 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,028 directory, all directories are treated like packages. 2026-02-14T09:49:44,029 ******************************************************************************** 2026-02-14T09:49:44,030 !! 2026-02-14T09:49:44,030 check.warn(importable) 2026-02-14T09:49:44,031 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.plotting.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,031 !! 2026-02-14T09:49:44,032 ******************************************************************************** 2026-02-14T09:49:44,033 ############################ 2026-02-14T09:49:44,033 # Package would be ignored # 2026-02-14T09:49:44,034 ############################ 2026-02-14T09:49:44,034 Python recognizes 'rna_tools.tools.plotting.test_data' as an importable package[^1], 2026-02-14T09:49:44,035 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,036 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,036 package, please make sure that 'rna_tools.tools.plotting.test_data' is explicitly added 2026-02-14T09:49:44,037 to the `packages` configuration field. 2026-02-14T09:49:44,038 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,038 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,039 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,040 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,041 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,042 If you don't want 'rna_tools.tools.plotting.test_data' to be distributed and are 2026-02-14T09:49:44,042 already explicitly excluding 'rna_tools.tools.plotting.test_data' via 2026-02-14T09:49:44,043 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,043 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,043 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,044 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,045 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,046 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,046 even if it does not contain any `.py` files. 2026-02-14T09:49:44,046 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,047 directory, all directories are treated like packages. 2026-02-14T09:49:44,047 ******************************************************************************** 2026-02-14T09:49:44,048 !! 2026-02-14T09:49:44,048 check.warn(importable) 2026-02-14T09:49:44,049 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.proteins' is absent from the `packages` configuration. 2026-02-14T09:49:44,049 !! 2026-02-14T09:49:44,050 ******************************************************************************** 2026-02-14T09:49:44,051 ############################ 2026-02-14T09:49:44,051 # Package would be ignored # 2026-02-14T09:49:44,052 ############################ 2026-02-14T09:49:44,052 Python recognizes 'rna_tools.tools.proteins' as an importable package[^1], 2026-02-14T09:49:44,053 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,054 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,054 package, please make sure that 'rna_tools.tools.proteins' is explicitly added 2026-02-14T09:49:44,055 to the `packages` configuration field. 2026-02-14T09:49:44,056 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,057 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,057 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,058 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,059 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,060 If you don't want 'rna_tools.tools.proteins' to be distributed and are 2026-02-14T09:49:44,061 already explicitly excluding 'rna_tools.tools.proteins' via 2026-02-14T09:49:44,061 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,062 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,062 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,064 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,065 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,066 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,067 even if it does not contain any `.py` files. 2026-02-14T09:49:44,067 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,068 directory, all directories are treated like packages. 2026-02-14T09:49:44,069 ******************************************************************************** 2026-02-14T09:49:44,070 !! 2026-02-14T09:49:44,070 check.warn(importable) 2026-02-14T09:49:44,070 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_color_by_conserv' is absent from the `packages` configuration. 2026-02-14T09:49:44,071 !! 2026-02-14T09:49:44,071 ******************************************************************************** 2026-02-14T09:49:44,072 ############################ 2026-02-14T09:49:44,072 # Package would be ignored # 2026-02-14T09:49:44,072 ############################ 2026-02-14T09:49:44,073 Python recognizes 'rna_tools.tools.pymol_color_by_conserv' as an importable package[^1], 2026-02-14T09:49:44,073 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,074 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,074 package, please make sure that 'rna_tools.tools.pymol_color_by_conserv' is explicitly added 2026-02-14T09:49:44,075 to the `packages` configuration field. 2026-02-14T09:49:44,076 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,076 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,076 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,077 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,078 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,079 If you don't want 'rna_tools.tools.pymol_color_by_conserv' to be distributed and are 2026-02-14T09:49:44,080 already explicitly excluding 'rna_tools.tools.pymol_color_by_conserv' via 2026-02-14T09:49:44,080 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,081 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,081 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,082 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,084 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,085 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,086 even if it does not contain any `.py` files. 2026-02-14T09:49:44,086 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,087 directory, all directories are treated like packages. 2026-02-14T09:49:44,087 ******************************************************************************** 2026-02-14T09:49:44,088 !! 2026-02-14T09:49:44,089 check.warn(importable) 2026-02-14T09:49:44,089 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_color_by_conserv.data.cwc15' is absent from the `packages` configuration. 2026-02-14T09:49:44,090 !! 2026-02-14T09:49:44,090 ******************************************************************************** 2026-02-14T09:49:44,091 ############################ 2026-02-14T09:49:44,091 # Package would be ignored # 2026-02-14T09:49:44,092 ############################ 2026-02-14T09:49:44,092 Python recognizes 'rna_tools.tools.pymol_color_by_conserv.data.cwc15' as an importable package[^1], 2026-02-14T09:49:44,093 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,094 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,095 package, please make sure that 'rna_tools.tools.pymol_color_by_conserv.data.cwc15' is explicitly added 2026-02-14T09:49:44,095 to the `packages` configuration field. 2026-02-14T09:49:44,096 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,096 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,097 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,097 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,098 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,099 If you don't want 'rna_tools.tools.pymol_color_by_conserv.data.cwc15' to be distributed and are 2026-02-14T09:49:44,099 already explicitly excluding 'rna_tools.tools.pymol_color_by_conserv.data.cwc15' via 2026-02-14T09:49:44,100 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,100 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,100 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,101 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,102 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,103 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,104 even if it does not contain any `.py` files. 2026-02-14T09:49:44,104 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,105 directory, all directories are treated like packages. 2026-02-14T09:49:44,105 ******************************************************************************** 2026-02-14T09:49:44,106 !! 2026-02-14T09:49:44,107 check.warn(importable) 2026-02-14T09:49:44,107 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_color_by_conserv.docs' is absent from the `packages` configuration. 2026-02-14T09:49:44,108 !! 2026-02-14T09:49:44,109 ******************************************************************************** 2026-02-14T09:49:44,110 ############################ 2026-02-14T09:49:44,110 # Package would be ignored # 2026-02-14T09:49:44,111 ############################ 2026-02-14T09:49:44,111 Python recognizes 'rna_tools.tools.pymol_color_by_conserv.docs' as an importable package[^1], 2026-02-14T09:49:44,112 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,113 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,113 package, please make sure that 'rna_tools.tools.pymol_color_by_conserv.docs' is explicitly added 2026-02-14T09:49:44,114 to the `packages` configuration field. 2026-02-14T09:49:44,115 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,115 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,116 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,117 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,118 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,119 If you don't want 'rna_tools.tools.pymol_color_by_conserv.docs' to be distributed and are 2026-02-14T09:49:44,119 already explicitly excluding 'rna_tools.tools.pymol_color_by_conserv.docs' via 2026-02-14T09:49:44,120 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,120 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,121 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,122 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,123 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,124 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,124 even if it does not contain any `.py` files. 2026-02-14T09:49:44,125 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,125 directory, all directories are treated like packages. 2026-02-14T09:49:44,125 ******************************************************************************** 2026-02-14T09:49:44,126 !! 2026-02-14T09:49:44,127 check.warn(importable) 2026-02-14T09:49:44,127 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_drawing.docs' is absent from the `packages` configuration. 2026-02-14T09:49:44,127 !! 2026-02-14T09:49:44,128 ******************************************************************************** 2026-02-14T09:49:44,128 ############################ 2026-02-14T09:49:44,129 # Package would be ignored # 2026-02-14T09:49:44,129 ############################ 2026-02-14T09:49:44,130 Python recognizes 'rna_tools.tools.pymol_drawing.docs' as an importable package[^1], 2026-02-14T09:49:44,130 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,131 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,132 package, please make sure that 'rna_tools.tools.pymol_drawing.docs' is explicitly added 2026-02-14T09:49:44,132 to the `packages` configuration field. 2026-02-14T09:49:44,133 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,134 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,135 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,136 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,137 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,138 If you don't want 'rna_tools.tools.pymol_drawing.docs' to be distributed and are 2026-02-14T09:49:44,139 already explicitly excluding 'rna_tools.tools.pymol_drawing.docs' via 2026-02-14T09:49:44,139 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,140 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,140 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,141 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,142 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,144 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,144 even if it does not contain any `.py` files. 2026-02-14T09:49:44,145 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,145 directory, all directories are treated like packages. 2026-02-14T09:49:44,146 ******************************************************************************** 2026-02-14T09:49:44,147 !! 2026-02-14T09:49:44,147 check.warn(importable) 2026-02-14T09:49:44,148 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_drawing.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,148 !! 2026-02-14T09:49:44,150 ******************************************************************************** 2026-02-14T09:49:44,150 ############################ 2026-02-14T09:49:44,150 # Package would be ignored # 2026-02-14T09:49:44,151 ############################ 2026-02-14T09:49:44,151 Python recognizes 'rna_tools.tools.pymol_drawing.test_data' as an importable package[^1], 2026-02-14T09:49:44,151 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,152 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,153 package, please make sure that 'rna_tools.tools.pymol_drawing.test_data' is explicitly added 2026-02-14T09:49:44,153 to the `packages` configuration field. 2026-02-14T09:49:44,154 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,154 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,155 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,155 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,156 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,157 If you don't want 'rna_tools.tools.pymol_drawing.test_data' to be distributed and are 2026-02-14T09:49:44,157 already explicitly excluding 'rna_tools.tools.pymol_drawing.test_data' via 2026-02-14T09:49:44,158 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,158 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,159 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,160 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,161 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,162 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,163 even if it does not contain any `.py` files. 2026-02-14T09:49:44,163 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,164 directory, all directories are treated like packages. 2026-02-14T09:49:44,165 ******************************************************************************** 2026-02-14T09:49:44,166 !! 2026-02-14T09:49:44,166 check.warn(importable) 2026-02-14T09:49:44,167 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_preview_generator' is absent from the `packages` configuration. 2026-02-14T09:49:44,167 !! 2026-02-14T09:49:44,168 ******************************************************************************** 2026-02-14T09:49:44,169 ############################ 2026-02-14T09:49:44,169 # Package would be ignored # 2026-02-14T09:49:44,170 ############################ 2026-02-14T09:49:44,170 Python recognizes 'rna_tools.tools.pymol_preview_generator' as an importable package[^1], 2026-02-14T09:49:44,170 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,171 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,172 package, please make sure that 'rna_tools.tools.pymol_preview_generator' is explicitly added 2026-02-14T09:49:44,173 to the `packages` configuration field. 2026-02-14T09:49:44,174 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,174 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,175 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,176 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,177 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,177 If you don't want 'rna_tools.tools.pymol_preview_generator' to be distributed and are 2026-02-14T09:49:44,178 already explicitly excluding 'rna_tools.tools.pymol_preview_generator' via 2026-02-14T09:49:44,178 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,178 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,179 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,180 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,180 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,181 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,182 even if it does not contain any `.py` files. 2026-02-14T09:49:44,182 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,182 directory, all directories are treated like packages. 2026-02-14T09:49:44,183 ******************************************************************************** 2026-02-14T09:49:44,184 !! 2026-02-14T09:49:44,184 check.warn(importable) 2026-02-14T09:49:44,184 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_preview_generator.bash' is absent from the `packages` configuration. 2026-02-14T09:49:44,185 !! 2026-02-14T09:49:44,186 ******************************************************************************** 2026-02-14T09:49:44,187 ############################ 2026-02-14T09:49:44,187 # Package would be ignored # 2026-02-14T09:49:44,188 ############################ 2026-02-14T09:49:44,188 Python recognizes 'rna_tools.tools.pymol_preview_generator.bash' as an importable package[^1], 2026-02-14T09:49:44,189 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,190 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,190 package, please make sure that 'rna_tools.tools.pymol_preview_generator.bash' is explicitly added 2026-02-14T09:49:44,191 to the `packages` configuration field. 2026-02-14T09:49:44,192 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,192 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,193 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,194 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,195 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,196 If you don't want 'rna_tools.tools.pymol_preview_generator.bash' to be distributed and are 2026-02-14T09:49:44,196 already explicitly excluding 'rna_tools.tools.pymol_preview_generator.bash' via 2026-02-14T09:49:44,197 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,197 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,198 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,199 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,200 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,202 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,202 even if it does not contain any `.py` files. 2026-02-14T09:49:44,202 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,203 directory, all directories are treated like packages. 2026-02-14T09:49:44,203 ******************************************************************************** 2026-02-14T09:49:44,204 !! 2026-02-14T09:49:44,204 check.warn(importable) 2026-02-14T09:49:44,204 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_preview_generator.docs' is absent from the `packages` configuration. 2026-02-14T09:49:44,205 !! 2026-02-14T09:49:44,206 ******************************************************************************** 2026-02-14T09:49:44,206 ############################ 2026-02-14T09:49:44,206 # Package would be ignored # 2026-02-14T09:49:44,207 ############################ 2026-02-14T09:49:44,207 Python recognizes 'rna_tools.tools.pymol_preview_generator.docs' as an importable package[^1], 2026-02-14T09:49:44,208 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,208 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,209 package, please make sure that 'rna_tools.tools.pymol_preview_generator.docs' is explicitly added 2026-02-14T09:49:44,209 to the `packages` configuration field. 2026-02-14T09:49:44,210 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,211 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,212 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,213 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,214 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,215 If you don't want 'rna_tools.tools.pymol_preview_generator.docs' to be distributed and are 2026-02-14T09:49:44,216 already explicitly excluding 'rna_tools.tools.pymol_preview_generator.docs' via 2026-02-14T09:49:44,216 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,217 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,217 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,218 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,219 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,220 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,221 even if it does not contain any `.py` files. 2026-02-14T09:49:44,221 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,222 directory, all directories are treated like packages. 2026-02-14T09:49:44,222 ******************************************************************************** 2026-02-14T09:49:44,223 !! 2026-02-14T09:49:44,224 check.warn(importable) 2026-02-14T09:49:44,224 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.pymol_preview_generator.zsh' is absent from the `packages` configuration. 2026-02-14T09:49:44,225 !! 2026-02-14T09:49:44,226 ******************************************************************************** 2026-02-14T09:49:44,226 ############################ 2026-02-14T09:49:44,227 # Package would be ignored # 2026-02-14T09:49:44,228 ############################ 2026-02-14T09:49:44,228 Python recognizes 'rna_tools.tools.pymol_preview_generator.zsh' as an importable package[^1], 2026-02-14T09:49:44,229 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,229 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,230 package, please make sure that 'rna_tools.tools.pymol_preview_generator.zsh' is explicitly added 2026-02-14T09:49:44,230 to the `packages` configuration field. 2026-02-14T09:49:44,231 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,231 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,231 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,232 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,233 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,233 If you don't want 'rna_tools.tools.pymol_preview_generator.zsh' to be distributed and are 2026-02-14T09:49:44,234 already explicitly excluding 'rna_tools.tools.pymol_preview_generator.zsh' via 2026-02-14T09:49:44,234 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,235 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,235 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,236 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,237 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,238 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,239 even if it does not contain any `.py` files. 2026-02-14T09:49:44,239 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,240 directory, all directories are treated like packages. 2026-02-14T09:49:44,240 ******************************************************************************** 2026-02-14T09:49:44,241 !! 2026-02-14T09:49:44,242 check.warn(importable) 2026-02-14T09:49:44,243 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.renum_pdb_to_aln.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,243 !! 2026-02-14T09:49:44,244 ******************************************************************************** 2026-02-14T09:49:44,245 ############################ 2026-02-14T09:49:44,245 # Package would be ignored # 2026-02-14T09:49:44,246 ############################ 2026-02-14T09:49:44,246 Python recognizes 'rna_tools.tools.renum_pdb_to_aln.test_data' as an importable package[^1], 2026-02-14T09:49:44,247 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,248 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,248 package, please make sure that 'rna_tools.tools.renum_pdb_to_aln.test_data' is explicitly added 2026-02-14T09:49:44,249 to the `packages` configuration field. 2026-02-14T09:49:44,250 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,250 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,251 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,252 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,253 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,254 If you don't want 'rna_tools.tools.renum_pdb_to_aln.test_data' to be distributed and are 2026-02-14T09:49:44,255 already explicitly excluding 'rna_tools.tools.renum_pdb_to_aln.test_data' via 2026-02-14T09:49:44,255 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,255 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,256 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,256 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,257 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,258 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,259 even if it does not contain any `.py` files. 2026-02-14T09:49:44,259 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,259 directory, all directories are treated like packages. 2026-02-14T09:49:44,260 ******************************************************************************** 2026-02-14T09:49:44,260 !! 2026-02-14T09:49:44,261 check.warn(importable) 2026-02-14T09:49:44,261 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_alignment.pngs' is absent from the `packages` configuration. 2026-02-14T09:49:44,262 !! 2026-02-14T09:49:44,262 ******************************************************************************** 2026-02-14T09:49:44,263 ############################ 2026-02-14T09:49:44,263 # Package would be ignored # 2026-02-14T09:49:44,264 ############################ 2026-02-14T09:49:44,264 Python recognizes 'rna_tools.tools.rna_alignment.pngs' as an importable package[^1], 2026-02-14T09:49:44,265 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,266 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,267 package, please make sure that 'rna_tools.tools.rna_alignment.pngs' is explicitly added 2026-02-14T09:49:44,267 to the `packages` configuration field. 2026-02-14T09:49:44,268 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,269 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,269 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,270 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,271 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,272 If you don't want 'rna_tools.tools.rna_alignment.pngs' to be distributed and are 2026-02-14T09:49:44,273 already explicitly excluding 'rna_tools.tools.rna_alignment.pngs' via 2026-02-14T09:49:44,273 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,274 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,274 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,275 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,276 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,278 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,279 even if it does not contain any `.py` files. 2026-02-14T09:49:44,279 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,280 directory, all directories are treated like packages. 2026-02-14T09:49:44,280 ******************************************************************************** 2026-02-14T09:49:44,281 !! 2026-02-14T09:49:44,282 check.warn(importable) 2026-02-14T09:49:44,282 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_alignment.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,283 !! 2026-02-14T09:49:44,283 ******************************************************************************** 2026-02-14T09:49:44,284 ############################ 2026-02-14T09:49:44,284 # Package would be ignored # 2026-02-14T09:49:44,284 ############################ 2026-02-14T09:49:44,285 Python recognizes 'rna_tools.tools.rna_alignment.test_data' as an importable package[^1], 2026-02-14T09:49:44,285 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,286 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,286 package, please make sure that 'rna_tools.tools.rna_alignment.test_data' is explicitly added 2026-02-14T09:49:44,286 to the `packages` configuration field. 2026-02-14T09:49:44,287 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,288 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,288 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,289 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,290 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,291 If you don't want 'rna_tools.tools.rna_alignment.test_data' to be distributed and are 2026-02-14T09:49:44,291 already explicitly excluding 'rna_tools.tools.rna_alignment.test_data' via 2026-02-14T09:49:44,292 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,292 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,293 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,294 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,295 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,296 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,297 even if it does not contain any `.py` files. 2026-02-14T09:49:44,297 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,298 directory, all directories are treated like packages. 2026-02-14T09:49:44,299 ******************************************************************************** 2026-02-14T09:49:44,299 !! 2026-02-14T09:49:44,300 check.warn(importable) 2026-02-14T09:49:44,300 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_alignment.test_data.foldability' is absent from the `packages` configuration. 2026-02-14T09:49:44,301 !! 2026-02-14T09:49:44,302 ******************************************************************************** 2026-02-14T09:49:44,302 ############################ 2026-02-14T09:49:44,303 # Package would be ignored # 2026-02-14T09:49:44,303 ############################ 2026-02-14T09:49:44,304 Python recognizes 'rna_tools.tools.rna_alignment.test_data.foldability' as an importable package[^1], 2026-02-14T09:49:44,304 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,306 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,306 package, please make sure that 'rna_tools.tools.rna_alignment.test_data.foldability' is explicitly added 2026-02-14T09:49:44,307 to the `packages` configuration field. 2026-02-14T09:49:44,308 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,308 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,308 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,309 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,310 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,310 If you don't want 'rna_tools.tools.rna_alignment.test_data.foldability' to be distributed and are 2026-02-14T09:49:44,311 already explicitly excluding 'rna_tools.tools.rna_alignment.test_data.foldability' via 2026-02-14T09:49:44,311 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,311 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,312 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,312 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,313 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,314 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,314 even if it does not contain any `.py` files. 2026-02-14T09:49:44,315 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,315 directory, all directories are treated like packages. 2026-02-14T09:49:44,316 ******************************************************************************** 2026-02-14T09:49:44,317 !! 2026-02-14T09:49:44,317 check.warn(importable) 2026-02-14T09:49:44,318 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_alignment.test_data.rchie_test_files' is absent from the `packages` configuration. 2026-02-14T09:49:44,318 !! 2026-02-14T09:49:44,319 ******************************************************************************** 2026-02-14T09:49:44,320 ############################ 2026-02-14T09:49:44,320 # Package would be ignored # 2026-02-14T09:49:44,321 ############################ 2026-02-14T09:49:44,321 Python recognizes 'rna_tools.tools.rna_alignment.test_data.rchie_test_files' as an importable package[^1], 2026-02-14T09:49:44,322 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,323 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,323 package, please make sure that 'rna_tools.tools.rna_alignment.test_data.rchie_test_files' is explicitly added 2026-02-14T09:49:44,324 to the `packages` configuration field. 2026-02-14T09:49:44,325 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,325 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,326 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,327 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,328 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,329 If you don't want 'rna_tools.tools.rna_alignment.test_data.rchie_test_files' to be distributed and are 2026-02-14T09:49:44,329 already explicitly excluding 'rna_tools.tools.rna_alignment.test_data.rchie_test_files' via 2026-02-14T09:49:44,330 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,330 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,331 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,332 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,332 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,334 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,334 even if it does not contain any `.py` files. 2026-02-14T09:49:44,334 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,335 directory, all directories are treated like packages. 2026-02-14T09:49:44,335 ******************************************************************************** 2026-02-14T09:49:44,336 !! 2026-02-14T09:49:44,336 check.warn(importable) 2026-02-14T09:49:44,336 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_alignment.test_output' is absent from the `packages` configuration. 2026-02-14T09:49:44,337 !! 2026-02-14T09:49:44,338 ******************************************************************************** 2026-02-14T09:49:44,338 ############################ 2026-02-14T09:49:44,338 # Package would be ignored # 2026-02-14T09:49:44,339 ############################ 2026-02-14T09:49:44,339 Python recognizes 'rna_tools.tools.rna_alignment.test_output' as an importable package[^1], 2026-02-14T09:49:44,340 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,340 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,341 package, please make sure that 'rna_tools.tools.rna_alignment.test_output' is explicitly added 2026-02-14T09:49:44,342 to the `packages` configuration field. 2026-02-14T09:49:44,343 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,343 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,344 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,345 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,346 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,347 If you don't want 'rna_tools.tools.rna_alignment.test_output' to be distributed and are 2026-02-14T09:49:44,348 already explicitly excluding 'rna_tools.tools.rna_alignment.test_output' via 2026-02-14T09:49:44,349 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,349 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,349 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,350 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,351 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,353 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,353 even if it does not contain any `.py` files. 2026-02-14T09:49:44,354 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,354 directory, all directories are treated like packages. 2026-02-14T09:49:44,355 ******************************************************************************** 2026-02-14T09:49:44,356 !! 2026-02-14T09:49:44,356 check.warn(importable) 2026-02-14T09:49:44,357 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_alignment.utils.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,357 !! 2026-02-14T09:49:44,358 ******************************************************************************** 2026-02-14T09:49:44,359 ############################ 2026-02-14T09:49:44,359 # Package would be ignored # 2026-02-14T09:49:44,359 ############################ 2026-02-14T09:49:44,360 Python recognizes 'rna_tools.tools.rna_alignment.utils.test_data' as an importable package[^1], 2026-02-14T09:49:44,360 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,361 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,361 package, please make sure that 'rna_tools.tools.rna_alignment.utils.test_data' is explicitly added 2026-02-14T09:49:44,362 to the `packages` configuration field. 2026-02-14T09:49:44,362 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,363 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,363 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,364 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,364 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,365 If you don't want 'rna_tools.tools.rna_alignment.utils.test_data' to be distributed and are 2026-02-14T09:49:44,366 already explicitly excluding 'rna_tools.tools.rna_alignment.utils.test_data' via 2026-02-14T09:49:44,366 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,366 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,367 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,368 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,369 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,370 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,371 even if it does not contain any `.py` files. 2026-02-14T09:49:44,372 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,372 directory, all directories are treated like packages. 2026-02-14T09:49:44,373 ******************************************************************************** 2026-02-14T09:49:44,374 !! 2026-02-14T09:49:44,374 check.warn(importable) 2026-02-14T09:49:44,375 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_binding_affinity' is absent from the `packages` configuration. 2026-02-14T09:49:44,375 !! 2026-02-14T09:49:44,376 ******************************************************************************** 2026-02-14T09:49:44,377 ############################ 2026-02-14T09:49:44,377 # Package would be ignored # 2026-02-14T09:49:44,378 ############################ 2026-02-14T09:49:44,378 Python recognizes 'rna_tools.tools.rna_binding_affinity' as an importable package[^1], 2026-02-14T09:49:44,379 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,380 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,380 package, please make sure that 'rna_tools.tools.rna_binding_affinity' is explicitly added 2026-02-14T09:49:44,381 to the `packages` configuration field. 2026-02-14T09:49:44,382 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,382 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,383 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,384 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,384 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,385 If you don't want 'rna_tools.tools.rna_binding_affinity' to be distributed and are 2026-02-14T09:49:44,385 already explicitly excluding 'rna_tools.tools.rna_binding_affinity' via 2026-02-14T09:49:44,386 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,386 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,387 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,387 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,388 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,389 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,389 even if it does not contain any `.py` files. 2026-02-14T09:49:44,390 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,390 directory, all directories are treated like packages. 2026-02-14T09:49:44,390 ******************************************************************************** 2026-02-14T09:49:44,391 !! 2026-02-14T09:49:44,392 check.warn(importable) 2026-02-14T09:49:44,392 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_evo_rmsd.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,393 !! 2026-02-14T09:49:44,394 ******************************************************************************** 2026-02-14T09:49:44,394 ############################ 2026-02-14T09:49:44,395 # Package would be ignored # 2026-02-14T09:49:44,396 ############################ 2026-02-14T09:49:44,396 Python recognizes 'rna_tools.tools.rna_calc_evo_rmsd.test_data' as an importable package[^1], 2026-02-14T09:49:44,397 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,398 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,398 package, please make sure that 'rna_tools.tools.rna_calc_evo_rmsd.test_data' is explicitly added 2026-02-14T09:49:44,399 to the `packages` configuration field. 2026-02-14T09:49:44,400 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,400 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,401 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,402 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,403 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,404 If you don't want 'rna_tools.tools.rna_calc_evo_rmsd.test_data' to be distributed and are 2026-02-14T09:49:44,404 already explicitly excluding 'rna_tools.tools.rna_calc_evo_rmsd.test_data' via 2026-02-14T09:49:44,405 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,405 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,406 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,407 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,408 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,410 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,410 even if it does not contain any `.py` files. 2026-02-14T09:49:44,410 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,411 directory, all directories are treated like packages. 2026-02-14T09:49:44,411 ******************************************************************************** 2026-02-14T09:49:44,412 !! 2026-02-14T09:49:44,412 check.warn(importable) 2026-02-14T09:49:44,413 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_gdt' is absent from the `packages` configuration. 2026-02-14T09:49:44,413 !! 2026-02-14T09:49:44,414 ******************************************************************************** 2026-02-14T09:49:44,414 ############################ 2026-02-14T09:49:44,414 # Package would be ignored # 2026-02-14T09:49:44,415 ############################ 2026-02-14T09:49:44,415 Python recognizes 'rna_tools.tools.rna_calc_gdt' as an importable package[^1], 2026-02-14T09:49:44,416 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,417 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,417 package, please make sure that 'rna_tools.tools.rna_calc_gdt' is explicitly added 2026-02-14T09:49:44,418 to the `packages` configuration field. 2026-02-14T09:49:44,419 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,419 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,420 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,421 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,422 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,423 If you don't want 'rna_tools.tools.rna_calc_gdt' to be distributed and are 2026-02-14T09:49:44,423 already explicitly excluding 'rna_tools.tools.rna_calc_gdt' via 2026-02-14T09:49:44,424 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,424 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,425 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,426 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,427 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,429 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,429 even if it does not contain any `.py` files. 2026-02-14T09:49:44,430 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,430 directory, all directories are treated like packages. 2026-02-14T09:49:44,431 ******************************************************************************** 2026-02-14T09:49:44,432 !! 2026-02-14T09:49:44,432 check.warn(importable) 2026-02-14T09:49:44,433 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_hbonds' is absent from the `packages` configuration. 2026-02-14T09:49:44,433 !! 2026-02-14T09:49:44,434 ******************************************************************************** 2026-02-14T09:49:44,435 ############################ 2026-02-14T09:49:44,435 # Package would be ignored # 2026-02-14T09:49:44,436 ############################ 2026-02-14T09:49:44,437 Python recognizes 'rna_tools.tools.rna_calc_hbonds' as an importable package[^1], 2026-02-14T09:49:44,437 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,438 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,438 package, please make sure that 'rna_tools.tools.rna_calc_hbonds' is explicitly added 2026-02-14T09:49:44,439 to the `packages` configuration field. 2026-02-14T09:49:44,439 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,440 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,440 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,441 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,441 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,442 If you don't want 'rna_tools.tools.rna_calc_hbonds' to be distributed and are 2026-02-14T09:49:44,442 already explicitly excluding 'rna_tools.tools.rna_calc_hbonds' via 2026-02-14T09:49:44,443 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,443 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,443 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,444 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,445 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,447 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,447 even if it does not contain any `.py` files. 2026-02-14T09:49:44,448 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,448 directory, all directories are treated like packages. 2026-02-14T09:49:44,449 ******************************************************************************** 2026-02-14T09:49:44,450 !! 2026-02-14T09:49:44,450 check.warn(importable) 2026-02-14T09:49:44,452 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_hbonds.docs' is absent from the `packages` configuration. 2026-02-14T09:49:44,452 !! 2026-02-14T09:49:44,453 ******************************************************************************** 2026-02-14T09:49:44,454 ############################ 2026-02-14T09:49:44,454 # Package would be ignored # 2026-02-14T09:49:44,455 ############################ 2026-02-14T09:49:44,455 Python recognizes 'rna_tools.tools.rna_calc_hbonds.docs' as an importable package[^1], 2026-02-14T09:49:44,456 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,457 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,457 package, please make sure that 'rna_tools.tools.rna_calc_hbonds.docs' is explicitly added 2026-02-14T09:49:44,457 to the `packages` configuration field. 2026-02-14T09:49:44,458 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,459 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,459 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,460 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,461 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,462 If you don't want 'rna_tools.tools.rna_calc_hbonds.docs' to be distributed and are 2026-02-14T09:49:44,463 already explicitly excluding 'rna_tools.tools.rna_calc_hbonds.docs' via 2026-02-14T09:49:44,464 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,464 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,464 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,465 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,466 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,467 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,467 even if it does not contain any `.py` files. 2026-02-14T09:49:44,468 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,468 directory, all directories are treated like packages. 2026-02-14T09:49:44,468 ******************************************************************************** 2026-02-14T09:49:44,469 !! 2026-02-14T09:49:44,469 check.warn(importable) 2026-02-14T09:49:44,470 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_hbonds.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,470 !! 2026-02-14T09:49:44,471 ******************************************************************************** 2026-02-14T09:49:44,471 ############################ 2026-02-14T09:49:44,472 # Package would be ignored # 2026-02-14T09:49:44,472 ############################ 2026-02-14T09:49:44,473 Python recognizes 'rna_tools.tools.rna_calc_hbonds.test_data' as an importable package[^1], 2026-02-14T09:49:44,473 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,474 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,475 package, please make sure that 'rna_tools.tools.rna_calc_hbonds.test_data' is explicitly added 2026-02-14T09:49:44,476 to the `packages` configuration field. 2026-02-14T09:49:44,477 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,477 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,478 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,479 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,480 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,481 If you don't want 'rna_tools.tools.rna_calc_hbonds.test_data' to be distributed and are 2026-02-14T09:49:44,482 already explicitly excluding 'rna_tools.tools.rna_calc_hbonds.test_data' via 2026-02-14T09:49:44,482 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,482 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,483 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,484 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,485 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,486 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,487 even if it does not contain any `.py` files. 2026-02-14T09:49:44,487 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,488 directory, all directories are treated like packages. 2026-02-14T09:49:44,488 ******************************************************************************** 2026-02-14T09:49:44,490 !! 2026-02-14T09:49:44,490 check.warn(importable) 2026-02-14T09:49:44,491 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_inf.doc' is absent from the `packages` configuration. 2026-02-14T09:49:44,491 !! 2026-02-14T09:49:44,492 ******************************************************************************** 2026-02-14T09:49:44,492 ############################ 2026-02-14T09:49:44,493 # Package would be ignored # 2026-02-14T09:49:44,493 ############################ 2026-02-14T09:49:44,493 Python recognizes 'rna_tools.tools.rna_calc_inf.doc' as an importable package[^1], 2026-02-14T09:49:44,494 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,495 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,495 package, please make sure that 'rna_tools.tools.rna_calc_inf.doc' is explicitly added 2026-02-14T09:49:44,495 to the `packages` configuration field. 2026-02-14T09:49:44,496 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,496 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,497 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,497 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,498 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,499 If you don't want 'rna_tools.tools.rna_calc_inf.doc' to be distributed and are 2026-02-14T09:49:44,500 already explicitly excluding 'rna_tools.tools.rna_calc_inf.doc' via 2026-02-14T09:49:44,500 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,500 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,501 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,502 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,503 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,504 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,505 even if it does not contain any `.py` files. 2026-02-14T09:49:44,505 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,506 directory, all directories are treated like packages. 2026-02-14T09:49:44,506 ******************************************************************************** 2026-02-14T09:49:44,507 !! 2026-02-14T09:49:44,508 check.warn(importable) 2026-02-14T09:49:44,508 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_inf.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,509 !! 2026-02-14T09:49:44,509 ******************************************************************************** 2026-02-14T09:49:44,510 ############################ 2026-02-14T09:49:44,510 # Package would be ignored # 2026-02-14T09:49:44,511 ############################ 2026-02-14T09:49:44,511 Python recognizes 'rna_tools.tools.rna_calc_inf.test_data' as an importable package[^1], 2026-02-14T09:49:44,512 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,513 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,514 package, please make sure that 'rna_tools.tools.rna_calc_inf.test_data' is explicitly added 2026-02-14T09:49:44,514 to the `packages` configuration field. 2026-02-14T09:49:44,516 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,517 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,517 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,518 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,519 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,520 If you don't want 'rna_tools.tools.rna_calc_inf.test_data' to be distributed and are 2026-02-14T09:49:44,520 already explicitly excluding 'rna_tools.tools.rna_calc_inf.test_data' via 2026-02-14T09:49:44,521 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,521 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,522 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,523 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,524 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,525 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,526 even if it does not contain any `.py` files. 2026-02-14T09:49:44,526 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,527 directory, all directories are treated like packages. 2026-02-14T09:49:44,527 ******************************************************************************** 2026-02-14T09:49:44,529 !! 2026-02-14T09:49:44,529 check.warn(importable) 2026-02-14T09:49:44,530 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_inf.test_data.rp13' is absent from the `packages` configuration. 2026-02-14T09:49:44,530 !! 2026-02-14T09:49:44,531 ******************************************************************************** 2026-02-14T09:49:44,532 ############################ 2026-02-14T09:49:44,533 # Package would be ignored # 2026-02-14T09:49:44,533 ############################ 2026-02-14T09:49:44,534 Python recognizes 'rna_tools.tools.rna_calc_inf.test_data.rp13' as an importable package[^1], 2026-02-14T09:49:44,535 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,536 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,537 package, please make sure that 'rna_tools.tools.rna_calc_inf.test_data.rp13' is explicitly added 2026-02-14T09:49:44,537 to the `packages` configuration field. 2026-02-14T09:49:44,539 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,539 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,540 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,541 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,542 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,543 If you don't want 'rna_tools.tools.rna_calc_inf.test_data.rp13' to be distributed and are 2026-02-14T09:49:44,544 already explicitly excluding 'rna_tools.tools.rna_calc_inf.test_data.rp13' via 2026-02-14T09:49:44,544 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,545 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,546 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,547 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,549 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,550 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,551 even if it does not contain any `.py` files. 2026-02-14T09:49:44,551 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,551 directory, all directories are treated like packages. 2026-02-14T09:49:44,552 ******************************************************************************** 2026-02-14T09:49:44,553 !! 2026-02-14T09:49:44,553 check.warn(importable) 2026-02-14T09:49:44,554 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.lib.rmsd.examples' is absent from the `packages` configuration. 2026-02-14T09:49:44,554 !! 2026-02-14T09:49:44,555 ******************************************************************************** 2026-02-14T09:49:44,556 ############################ 2026-02-14T09:49:44,556 # Package would be ignored # 2026-02-14T09:49:44,557 ############################ 2026-02-14T09:49:44,557 Python recognizes 'rna_tools.tools.rna_calc_rmsd.lib.rmsd.examples' as an importable package[^1], 2026-02-14T09:49:44,558 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,559 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,559 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.lib.rmsd.examples' is explicitly added 2026-02-14T09:49:44,560 to the `packages` configuration field. 2026-02-14T09:49:44,561 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,562 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,562 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,563 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,565 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,566 If you don't want 'rna_tools.tools.rna_calc_rmsd.lib.rmsd.examples' to be distributed and are 2026-02-14T09:49:44,566 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.lib.rmsd.examples' via 2026-02-14T09:49:44,567 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,568 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,568 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,570 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,571 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,573 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,574 even if it does not contain any `.py` files. 2026-02-14T09:49:44,574 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,575 directory, all directories are treated like packages. 2026-02-14T09:49:44,575 ******************************************************************************** 2026-02-14T09:49:44,577 !! 2026-02-14T09:49:44,577 check.warn(importable) 2026-02-14T09:49:44,578 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,579 !! 2026-02-14T09:49:44,580 ******************************************************************************** 2026-02-14T09:49:44,581 ############################ 2026-02-14T09:49:44,581 # Package would be ignored # 2026-02-14T09:49:44,582 ############################ 2026-02-14T09:49:44,582 Python recognizes 'rna_tools.tools.rna_calc_rmsd.test_data' as an importable package[^1], 2026-02-14T09:49:44,583 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,584 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,584 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.test_data' is explicitly added 2026-02-14T09:49:44,584 to the `packages` configuration field. 2026-02-14T09:49:44,585 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,586 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,586 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,587 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,588 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,589 If you don't want 'rna_tools.tools.rna_calc_rmsd.test_data' to be distributed and are 2026-02-14T09:49:44,589 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.test_data' via 2026-02-14T09:49:44,590 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,590 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,591 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,592 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,593 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,595 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,596 even if it does not contain any `.py` files. 2026-02-14T09:49:44,596 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,597 directory, all directories are treated like packages. 2026-02-14T09:49:44,597 ******************************************************************************** 2026-02-14T09:49:44,599 !! 2026-02-14T09:49:44,599 check.warn(importable) 2026-02-14T09:49:44,600 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.test_data.crops' is absent from the `packages` configuration. 2026-02-14T09:49:44,601 !! 2026-02-14T09:49:44,602 ******************************************************************************** 2026-02-14T09:49:44,602 ############################ 2026-02-14T09:49:44,603 # Package would be ignored # 2026-02-14T09:49:44,603 ############################ 2026-02-14T09:49:44,604 Python recognizes 'rna_tools.tools.rna_calc_rmsd.test_data.crops' as an importable package[^1], 2026-02-14T09:49:44,605 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,606 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,606 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.test_data.crops' is explicitly added 2026-02-14T09:49:44,607 to the `packages` configuration field. 2026-02-14T09:49:44,608 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,609 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,609 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,611 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,612 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,613 If you don't want 'rna_tools.tools.rna_calc_rmsd.test_data.crops' to be distributed and are 2026-02-14T09:49:44,614 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.test_data.crops' via 2026-02-14T09:49:44,614 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,614 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,615 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,616 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,616 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,617 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,618 even if it does not contain any `.py` files. 2026-02-14T09:49:44,618 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,618 directory, all directories are treated like packages. 2026-02-14T09:49:44,619 ******************************************************************************** 2026-02-14T09:49:44,620 !! 2026-02-14T09:49:44,620 check.warn(importable) 2026-02-14T09:49:44,620 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.test_data.pistol' is absent from the `packages` configuration. 2026-02-14T09:49:44,621 !! 2026-02-14T09:49:44,622 ******************************************************************************** 2026-02-14T09:49:44,622 ############################ 2026-02-14T09:49:44,623 # Package would be ignored # 2026-02-14T09:49:44,623 ############################ 2026-02-14T09:49:44,624 Python recognizes 'rna_tools.tools.rna_calc_rmsd.test_data.pistol' as an importable package[^1], 2026-02-14T09:49:44,624 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,625 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,626 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.test_data.pistol' is explicitly added 2026-02-14T09:49:44,626 to the `packages` configuration field. 2026-02-14T09:49:44,627 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,628 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,628 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,629 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,630 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,631 If you don't want 'rna_tools.tools.rna_calc_rmsd.test_data.pistol' to be distributed and are 2026-02-14T09:49:44,632 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.test_data.pistol' via 2026-02-14T09:49:44,632 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,633 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,633 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,634 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,635 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,637 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,638 even if it does not contain any `.py` files. 2026-02-14T09:49:44,638 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,639 directory, all directories are treated like packages. 2026-02-14T09:49:44,639 ******************************************************************************** 2026-02-14T09:49:44,640 !! 2026-02-14T09:49:44,640 check.warn(importable) 2026-02-14T09:49:44,641 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.test_data.pistol.clusters' is absent from the `packages` configuration. 2026-02-14T09:49:44,641 !! 2026-02-14T09:49:44,642 ******************************************************************************** 2026-02-14T09:49:44,642 ############################ 2026-02-14T09:49:44,643 # Package would be ignored # 2026-02-14T09:49:44,643 ############################ 2026-02-14T09:49:44,643 Python recognizes 'rna_tools.tools.rna_calc_rmsd.test_data.pistol.clusters' as an importable package[^1], 2026-02-14T09:49:44,644 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,644 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,645 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.test_data.pistol.clusters' is explicitly added 2026-02-14T09:49:44,645 to the `packages` configuration field. 2026-02-14T09:49:44,646 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,646 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,647 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,648 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,649 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,650 If you don't want 'rna_tools.tools.rna_calc_rmsd.test_data.pistol.clusters' to be distributed and are 2026-02-14T09:49:44,650 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.test_data.pistol.clusters' via 2026-02-14T09:49:44,651 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,651 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,652 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,653 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,654 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,655 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,656 even if it does not contain any `.py` files. 2026-02-14T09:49:44,656 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,657 directory, all directories are treated like packages. 2026-02-14T09:49:44,657 ******************************************************************************** 2026-02-14T09:49:44,658 !! 2026-02-14T09:49:44,658 check.warn(importable) 2026-02-14T09:49:44,659 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.test_data.ways' is absent from the `packages` configuration. 2026-02-14T09:49:44,659 !! 2026-02-14T09:49:44,660 ******************************************************************************** 2026-02-14T09:49:44,661 ############################ 2026-02-14T09:49:44,661 # Package would be ignored # 2026-02-14T09:49:44,662 ############################ 2026-02-14T09:49:44,662 Python recognizes 'rna_tools.tools.rna_calc_rmsd.test_data.ways' as an importable package[^1], 2026-02-14T09:49:44,663 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,664 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,664 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.test_data.ways' is explicitly added 2026-02-14T09:49:44,665 to the `packages` configuration field. 2026-02-14T09:49:44,665 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,666 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,666 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,667 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,667 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,668 If you don't want 'rna_tools.tools.rna_calc_rmsd.test_data.ways' to be distributed and are 2026-02-14T09:49:44,668 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.test_data.ways' via 2026-02-14T09:49:44,669 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,669 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,669 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,670 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,671 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,672 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,673 even if it does not contain any `.py` files. 2026-02-14T09:49:44,673 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,673 directory, all directories are treated like packages. 2026-02-14T09:49:44,674 ******************************************************************************** 2026-02-14T09:49:44,675 !! 2026-02-14T09:49:44,676 check.warn(importable) 2026-02-14T09:49:44,676 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_calc_rmsd.test_output' is absent from the `packages` configuration. 2026-02-14T09:49:44,677 !! 2026-02-14T09:49:44,678 ******************************************************************************** 2026-02-14T09:49:44,678 ############################ 2026-02-14T09:49:44,679 # Package would be ignored # 2026-02-14T09:49:44,679 ############################ 2026-02-14T09:49:44,680 Python recognizes 'rna_tools.tools.rna_calc_rmsd.test_output' as an importable package[^1], 2026-02-14T09:49:44,680 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,681 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,681 package, please make sure that 'rna_tools.tools.rna_calc_rmsd.test_output' is explicitly added 2026-02-14T09:49:44,682 to the `packages` configuration field. 2026-02-14T09:49:44,683 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,683 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,684 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,685 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,686 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,687 If you don't want 'rna_tools.tools.rna_calc_rmsd.test_output' to be distributed and are 2026-02-14T09:49:44,688 already explicitly excluding 'rna_tools.tools.rna_calc_rmsd.test_output' via 2026-02-14T09:49:44,688 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,689 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,689 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,690 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,690 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,691 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,692 even if it does not contain any `.py` files. 2026-02-14T09:49:44,692 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,692 directory, all directories are treated like packages. 2026-02-14T09:49:44,693 ******************************************************************************** 2026-02-14T09:49:44,693 !! 2026-02-14T09:49:44,694 check.warn(importable) 2026-02-14T09:49:44,694 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_convert_pseudoknot_formats.doc' is absent from the `packages` configuration. 2026-02-14T09:49:44,695 !! 2026-02-14T09:49:44,695 ******************************************************************************** 2026-02-14T09:49:44,696 ############################ 2026-02-14T09:49:44,696 # Package would be ignored # 2026-02-14T09:49:44,697 ############################ 2026-02-14T09:49:44,697 Python recognizes 'rna_tools.tools.rna_convert_pseudoknot_formats.doc' as an importable package[^1], 2026-02-14T09:49:44,697 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,699 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,699 package, please make sure that 'rna_tools.tools.rna_convert_pseudoknot_formats.doc' is explicitly added 2026-02-14T09:49:44,700 to the `packages` configuration field. 2026-02-14T09:49:44,701 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,701 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,702 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,703 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,704 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,705 If you don't want 'rna_tools.tools.rna_convert_pseudoknot_formats.doc' to be distributed and are 2026-02-14T09:49:44,706 already explicitly excluding 'rna_tools.tools.rna_convert_pseudoknot_formats.doc' via 2026-02-14T09:49:44,706 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,706 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,707 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,708 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,709 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,710 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,711 even if it does not contain any `.py` files. 2026-02-14T09:49:44,711 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,712 directory, all directories are treated like packages. 2026-02-14T09:49:44,712 ******************************************************************************** 2026-02-14T09:49:44,713 !! 2026-02-14T09:49:44,714 check.warn(importable) 2026-02-14T09:49:44,714 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_convert_pseudoknot_formats.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,714 !! 2026-02-14T09:49:44,715 ******************************************************************************** 2026-02-14T09:49:44,716 ############################ 2026-02-14T09:49:44,716 # Package would be ignored # 2026-02-14T09:49:44,716 ############################ 2026-02-14T09:49:44,717 Python recognizes 'rna_tools.tools.rna_convert_pseudoknot_formats.test_data' as an importable package[^1], 2026-02-14T09:49:44,717 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,718 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,718 package, please make sure that 'rna_tools.tools.rna_convert_pseudoknot_formats.test_data' is explicitly added 2026-02-14T09:49:44,719 to the `packages` configuration field. 2026-02-14T09:49:44,719 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,720 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,720 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,721 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,722 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,723 If you don't want 'rna_tools.tools.rna_convert_pseudoknot_formats.test_data' to be distributed and are 2026-02-14T09:49:44,723 already explicitly excluding 'rna_tools.tools.rna_convert_pseudoknot_formats.test_data' via 2026-02-14T09:49:44,724 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,724 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,725 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,725 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,727 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,728 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,729 even if it does not contain any `.py` files. 2026-02-14T09:49:44,729 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,730 directory, all directories are treated like packages. 2026-02-14T09:49:44,730 ******************************************************************************** 2026-02-14T09:49:44,731 !! 2026-02-14T09:49:44,731 check.warn(importable) 2026-02-14T09:49:44,732 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_filter.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,732 !! 2026-02-14T09:49:44,733 ******************************************************************************** 2026-02-14T09:49:44,734 ############################ 2026-02-14T09:49:44,734 # Package would be ignored # 2026-02-14T09:49:44,735 ############################ 2026-02-14T09:49:44,735 Python recognizes 'rna_tools.tools.rna_filter.test_data' as an importable package[^1], 2026-02-14T09:49:44,736 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,737 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,737 package, please make sure that 'rna_tools.tools.rna_filter.test_data' is explicitly added 2026-02-14T09:49:44,738 to the `packages` configuration field. 2026-02-14T09:49:44,739 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,739 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,739 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,740 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,741 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,741 If you don't want 'rna_tools.tools.rna_filter.test_data' to be distributed and are 2026-02-14T09:49:44,742 already explicitly excluding 'rna_tools.tools.rna_filter.test_data' via 2026-02-14T09:49:44,742 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,742 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,743 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,744 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,744 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,746 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,746 even if it does not contain any `.py` files. 2026-02-14T09:49:44,746 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,747 directory, all directories are treated like packages. 2026-02-14T09:49:44,747 ******************************************************************************** 2026-02-14T09:49:44,748 !! 2026-02-14T09:49:44,748 check.warn(importable) 2026-02-14T09:49:44,749 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_get_restraints' is absent from the `packages` configuration. 2026-02-14T09:49:44,749 !! 2026-02-14T09:49:44,750 ******************************************************************************** 2026-02-14T09:49:44,751 ############################ 2026-02-14T09:49:44,751 # Package would be ignored # 2026-02-14T09:49:44,752 ############################ 2026-02-14T09:49:44,752 Python recognizes 'rna_tools.tools.rna_get_restraints' as an importable package[^1], 2026-02-14T09:49:44,753 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,754 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,754 package, please make sure that 'rna_tools.tools.rna_get_restraints' is explicitly added 2026-02-14T09:49:44,755 to the `packages` configuration field. 2026-02-14T09:49:44,756 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,756 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,757 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,757 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,758 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,759 If you don't want 'rna_tools.tools.rna_get_restraints' to be distributed and are 2026-02-14T09:49:44,760 already explicitly excluding 'rna_tools.tools.rna_get_restraints' via 2026-02-14T09:49:44,760 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,761 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,762 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,763 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,763 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,764 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,764 even if it does not contain any `.py` files. 2026-02-14T09:49:44,765 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,765 directory, all directories are treated like packages. 2026-02-14T09:49:44,765 ******************************************************************************** 2026-02-14T09:49:44,766 !! 2026-02-14T09:49:44,766 check.warn(importable) 2026-02-14T09:49:44,767 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_helix_vis.doc' is absent from the `packages` configuration. 2026-02-14T09:49:44,767 !! 2026-02-14T09:49:44,768 ******************************************************************************** 2026-02-14T09:49:44,768 ############################ 2026-02-14T09:49:44,769 # Package would be ignored # 2026-02-14T09:49:44,769 ############################ 2026-02-14T09:49:44,769 Python recognizes 'rna_tools.tools.rna_helix_vis.doc' as an importable package[^1], 2026-02-14T09:49:44,770 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,771 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,771 package, please make sure that 'rna_tools.tools.rna_helix_vis.doc' is explicitly added 2026-02-14T09:49:44,771 to the `packages` configuration field. 2026-02-14T09:49:44,772 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,773 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,773 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,774 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,775 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,776 If you don't want 'rna_tools.tools.rna_helix_vis.doc' to be distributed and are 2026-02-14T09:49:44,777 already explicitly excluding 'rna_tools.tools.rna_helix_vis.doc' via 2026-02-14T09:49:44,777 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,778 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,778 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,779 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,780 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,781 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,782 even if it does not contain any `.py` files. 2026-02-14T09:49:44,782 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,783 directory, all directories are treated like packages. 2026-02-14T09:49:44,783 ******************************************************************************** 2026-02-14T09:49:44,785 !! 2026-02-14T09:49:44,785 check.warn(importable) 2026-02-14T09:49:44,786 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_helix_vis.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,786 !! 2026-02-14T09:49:44,788 ******************************************************************************** 2026-02-14T09:49:44,788 ############################ 2026-02-14T09:49:44,788 # Package would be ignored # 2026-02-14T09:49:44,788 ############################ 2026-02-14T09:49:44,789 Python recognizes 'rna_tools.tools.rna_helix_vis.test_data' as an importable package[^1], 2026-02-14T09:49:44,789 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,790 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,790 package, please make sure that 'rna_tools.tools.rna_helix_vis.test_data' is explicitly added 2026-02-14T09:49:44,790 to the `packages` configuration field. 2026-02-14T09:49:44,791 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,791 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,792 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,793 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,793 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,794 If you don't want 'rna_tools.tools.rna_helix_vis.test_data' to be distributed and are 2026-02-14T09:49:44,794 already explicitly excluding 'rna_tools.tools.rna_helix_vis.test_data' via 2026-02-14T09:49:44,795 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,795 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,796 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,796 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,798 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,799 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,800 even if it does not contain any `.py` files. 2026-02-14T09:49:44,800 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,801 directory, all directories are treated like packages. 2026-02-14T09:49:44,801 ******************************************************************************** 2026-02-14T09:49:44,803 !! 2026-02-14T09:49:44,803 check.warn(importable) 2026-02-14T09:49:44,804 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_multimodels' is absent from the `packages` configuration. 2026-02-14T09:49:44,804 !! 2026-02-14T09:49:44,805 ******************************************************************************** 2026-02-14T09:49:44,806 ############################ 2026-02-14T09:49:44,806 # Package would be ignored # 2026-02-14T09:49:44,807 ############################ 2026-02-14T09:49:44,807 Python recognizes 'rna_tools.tools.rna_multimodels' as an importable package[^1], 2026-02-14T09:49:44,807 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,808 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,809 package, please make sure that 'rna_tools.tools.rna_multimodels' is explicitly added 2026-02-14T09:49:44,809 to the `packages` configuration field. 2026-02-14T09:49:44,810 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,811 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,811 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,813 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,814 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,815 If you don't want 'rna_tools.tools.rna_multimodels' to be distributed and are 2026-02-14T09:49:44,815 already explicitly excluding 'rna_tools.tools.rna_multimodels' via 2026-02-14T09:49:44,815 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,816 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,816 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,817 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,817 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,818 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,819 even if it does not contain any `.py` files. 2026-02-14T09:49:44,819 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,819 directory, all directories are treated like packages. 2026-02-14T09:49:44,820 ******************************************************************************** 2026-02-14T09:49:44,820 !! 2026-02-14T09:49:44,821 check.warn(importable) 2026-02-14T09:49:44,821 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_multimodels.data' is absent from the `packages` configuration. 2026-02-14T09:49:44,822 !! 2026-02-14T09:49:44,822 ******************************************************************************** 2026-02-14T09:49:44,823 ############################ 2026-02-14T09:49:44,824 # Package would be ignored # 2026-02-14T09:49:44,824 ############################ 2026-02-14T09:49:44,825 Python recognizes 'rna_tools.tools.rna_multimodels.data' as an importable package[^1], 2026-02-14T09:49:44,825 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,826 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,827 package, please make sure that 'rna_tools.tools.rna_multimodels.data' is explicitly added 2026-02-14T09:49:44,827 to the `packages` configuration field. 2026-02-14T09:49:44,828 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,828 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,829 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,830 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,831 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,832 If you don't want 'rna_tools.tools.rna_multimodels.data' to be distributed and are 2026-02-14T09:49:44,832 already explicitly excluding 'rna_tools.tools.rna_multimodels.data' via 2026-02-14T09:49:44,833 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,833 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,834 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,835 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,836 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,837 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,838 even if it does not contain any `.py` files. 2026-02-14T09:49:44,838 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,839 directory, all directories are treated like packages. 2026-02-14T09:49:44,839 ******************************************************************************** 2026-02-14T09:49:44,840 !! 2026-02-14T09:49:44,840 check.warn(importable) 2026-02-14T09:49:44,841 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_multimodels.test_in' is absent from the `packages` configuration. 2026-02-14T09:49:44,841 !! 2026-02-14T09:49:44,842 ******************************************************************************** 2026-02-14T09:49:44,842 ############################ 2026-02-14T09:49:44,842 # Package would be ignored # 2026-02-14T09:49:44,843 ############################ 2026-02-14T09:49:44,843 Python recognizes 'rna_tools.tools.rna_multimodels.test_in' as an importable package[^1], 2026-02-14T09:49:44,844 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,844 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,845 package, please make sure that 'rna_tools.tools.rna_multimodels.test_in' is explicitly added 2026-02-14T09:49:44,845 to the `packages` configuration field. 2026-02-14T09:49:44,846 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,846 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,846 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,848 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,849 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,850 If you don't want 'rna_tools.tools.rna_multimodels.test_in' to be distributed and are 2026-02-14T09:49:44,850 already explicitly excluding 'rna_tools.tools.rna_multimodels.test_in' via 2026-02-14T09:49:44,851 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,851 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,852 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,853 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,855 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,856 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,857 even if it does not contain any `.py` files. 2026-02-14T09:49:44,857 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,858 directory, all directories are treated like packages. 2026-02-14T09:49:44,858 ******************************************************************************** 2026-02-14T09:49:44,859 !! 2026-02-14T09:49:44,860 check.warn(importable) 2026-02-14T09:49:44,860 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_multimodels.test_out' is absent from the `packages` configuration. 2026-02-14T09:49:44,860 !! 2026-02-14T09:49:44,861 ******************************************************************************** 2026-02-14T09:49:44,862 ############################ 2026-02-14T09:49:44,862 # Package would be ignored # 2026-02-14T09:49:44,863 ############################ 2026-02-14T09:49:44,863 Python recognizes 'rna_tools.tools.rna_multimodels.test_out' as an importable package[^1], 2026-02-14T09:49:44,864 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,865 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,866 package, please make sure that 'rna_tools.tools.rna_multimodels.test_out' is explicitly added 2026-02-14T09:49:44,866 to the `packages` configuration field. 2026-02-14T09:49:44,867 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,867 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,867 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,868 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,869 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,869 If you don't want 'rna_tools.tools.rna_multimodels.test_out' to be distributed and are 2026-02-14T09:49:44,870 already explicitly excluding 'rna_tools.tools.rna_multimodels.test_out' via 2026-02-14T09:49:44,870 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,870 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,871 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,871 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,872 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,874 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,874 even if it does not contain any `.py` files. 2026-02-14T09:49:44,875 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,876 directory, all directories are treated like packages. 2026-02-14T09:49:44,877 ******************************************************************************** 2026-02-14T09:49:44,878 !! 2026-02-14T09:49:44,879 check.warn(importable) 2026-02-14T09:49:44,880 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_pdb_edit_occupancy_bfactor.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,880 !! 2026-02-14T09:49:44,882 ******************************************************************************** 2026-02-14T09:49:44,883 ############################ 2026-02-14T09:49:44,884 # Package would be ignored # 2026-02-14T09:49:44,885 ############################ 2026-02-14T09:49:44,886 Python recognizes 'rna_tools.tools.rna_pdb_edit_occupancy_bfactor.test_data' as an importable package[^1], 2026-02-14T09:49:44,887 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,889 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,890 package, please make sure that 'rna_tools.tools.rna_pdb_edit_occupancy_bfactor.test_data' is explicitly added 2026-02-14T09:49:44,891 to the `packages` configuration field. 2026-02-14T09:49:44,893 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,894 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,895 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,897 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,899 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,901 If you don't want 'rna_tools.tools.rna_pdb_edit_occupancy_bfactor.test_data' to be distributed and are 2026-02-14T09:49:44,902 already explicitly excluding 'rna_tools.tools.rna_pdb_edit_occupancy_bfactor.test_data' via 2026-02-14T09:49:44,903 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,904 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,904 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,905 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,905 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,906 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,907 even if it does not contain any `.py` files. 2026-02-14T09:49:44,907 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,907 directory, all directories are treated like packages. 2026-02-14T09:49:44,908 ******************************************************************************** 2026-02-14T09:49:44,909 !! 2026-02-14T09:49:44,909 check.warn(importable) 2026-02-14T09:49:44,909 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_pdb_merge_structure_with_fragments.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,910 !! 2026-02-14T09:49:44,910 ******************************************************************************** 2026-02-14T09:49:44,911 ############################ 2026-02-14T09:49:44,911 # Package would be ignored # 2026-02-14T09:49:44,912 ############################ 2026-02-14T09:49:44,912 Python recognizes 'rna_tools.tools.rna_pdb_merge_structure_with_fragments.test_data' as an importable package[^1], 2026-02-14T09:49:44,913 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,914 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,914 package, please make sure that 'rna_tools.tools.rna_pdb_merge_structure_with_fragments.test_data' is explicitly added 2026-02-14T09:49:44,915 to the `packages` configuration field. 2026-02-14T09:49:44,916 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,917 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,917 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,918 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,919 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,920 If you don't want 'rna_tools.tools.rna_pdb_merge_structure_with_fragments.test_data' to be distributed and are 2026-02-14T09:49:44,921 already explicitly excluding 'rna_tools.tools.rna_pdb_merge_structure_with_fragments.test_data' via 2026-02-14T09:49:44,921 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,922 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,922 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,923 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,924 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,925 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,926 even if it does not contain any `.py` files. 2026-02-14T09:49:44,926 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,927 directory, all directories are treated like packages. 2026-02-14T09:49:44,927 ******************************************************************************** 2026-02-14T09:49:44,929 !! 2026-02-14T09:49:44,929 check.warn(importable) 2026-02-14T09:49:44,929 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_prediction_significance.opt' is absent from the `packages` configuration. 2026-02-14T09:49:44,930 !! 2026-02-14T09:49:44,930 ******************************************************************************** 2026-02-14T09:49:44,931 ############################ 2026-02-14T09:49:44,931 # Package would be ignored # 2026-02-14T09:49:44,931 ############################ 2026-02-14T09:49:44,932 Python recognizes 'rna_tools.tools.rna_prediction_significance.opt' as an importable package[^1], 2026-02-14T09:49:44,932 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,933 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,933 package, please make sure that 'rna_tools.tools.rna_prediction_significance.opt' is explicitly added 2026-02-14T09:49:44,934 to the `packages` configuration field. 2026-02-14T09:49:44,934 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,935 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,935 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,936 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,937 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,938 If you don't want 'rna_tools.tools.rna_prediction_significance.opt' to be distributed and are 2026-02-14T09:49:44,939 already explicitly excluding 'rna_tools.tools.rna_prediction_significance.opt' via 2026-02-14T09:49:44,939 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,940 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,940 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,942 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,943 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,944 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,945 even if it does not contain any `.py` files. 2026-02-14T09:49:44,945 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,946 directory, all directories are treated like packages. 2026-02-14T09:49:44,946 ******************************************************************************** 2026-02-14T09:49:44,947 !! 2026-02-14T09:49:44,948 check.warn(importable) 2026-02-14T09:49:44,948 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_refinement.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,949 !! 2026-02-14T09:49:44,949 ******************************************************************************** 2026-02-14T09:49:44,950 ############################ 2026-02-14T09:49:44,950 # Package would be ignored # 2026-02-14T09:49:44,951 ############################ 2026-02-14T09:49:44,951 Python recognizes 'rna_tools.tools.rna_refinement.test_data' as an importable package[^1], 2026-02-14T09:49:44,952 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,953 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,953 package, please make sure that 'rna_tools.tools.rna_refinement.test_data' is explicitly added 2026-02-14T09:49:44,954 to the `packages` configuration field. 2026-02-14T09:49:44,955 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,955 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,956 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,956 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,957 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,958 If you don't want 'rna_tools.tools.rna_refinement.test_data' to be distributed and are 2026-02-14T09:49:44,958 already explicitly excluding 'rna_tools.tools.rna_refinement.test_data' via 2026-02-14T09:49:44,958 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,959 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,959 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,960 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,961 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,962 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,962 even if it does not contain any `.py` files. 2026-02-14T09:49:44,962 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,963 directory, all directories are treated like packages. 2026-02-14T09:49:44,963 ******************************************************************************** 2026-02-14T09:49:44,965 !! 2026-02-14T09:49:44,965 check.warn(importable) 2026-02-14T09:49:44,966 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_rfam' is absent from the `packages` configuration. 2026-02-14T09:49:44,966 !! 2026-02-14T09:49:44,967 ******************************************************************************** 2026-02-14T09:49:44,968 ############################ 2026-02-14T09:49:44,968 # Package would be ignored # 2026-02-14T09:49:44,969 ############################ 2026-02-14T09:49:44,969 Python recognizes 'rna_tools.tools.rna_rfam' as an importable package[^1], 2026-02-14T09:49:44,970 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,971 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,971 package, please make sure that 'rna_tools.tools.rna_rfam' is explicitly added 2026-02-14T09:49:44,972 to the `packages` configuration field. 2026-02-14T09:49:44,973 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,973 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,974 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,975 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,975 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,976 If you don't want 'rna_tools.tools.rna_rfam' to be distributed and are 2026-02-14T09:49:44,977 already explicitly excluding 'rna_tools.tools.rna_rfam' via 2026-02-14T09:49:44,978 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:44,978 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:44,979 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:44,981 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:44,982 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:44,984 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:44,985 even if it does not contain any `.py` files. 2026-02-14T09:49:44,985 On the other hand, currently there is no concept of package data 2026-02-14T09:49:44,986 directory, all directories are treated like packages. 2026-02-14T09:49:44,986 ******************************************************************************** 2026-02-14T09:49:44,987 !! 2026-02-14T09:49:44,987 check.warn(importable) 2026-02-14T09:49:44,988 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_rosetta.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:44,988 !! 2026-02-14T09:49:44,989 ******************************************************************************** 2026-02-14T09:49:44,990 ############################ 2026-02-14T09:49:44,990 # Package would be ignored # 2026-02-14T09:49:44,991 ############################ 2026-02-14T09:49:44,991 Python recognizes 'rna_tools.tools.rna_rosetta.test_data' as an importable package[^1], 2026-02-14T09:49:44,991 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:44,992 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:44,993 package, please make sure that 'rna_tools.tools.rna_rosetta.test_data' is explicitly added 2026-02-14T09:49:44,993 to the `packages` configuration field. 2026-02-14T09:49:44,995 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:44,995 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:44,996 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:44,997 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:44,998 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:44,999 If you don't want 'rna_tools.tools.rna_rosetta.test_data' to be distributed and are 2026-02-14T09:49:45,000 already explicitly excluding 'rna_tools.tools.rna_rosetta.test_data' via 2026-02-14T09:49:45,001 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,001 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,002 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,003 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,004 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,006 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,007 even if it does not contain any `.py` files. 2026-02-14T09:49:45,008 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,008 directory, all directories are treated like packages. 2026-02-14T09:49:45,009 ******************************************************************************** 2026-02-14T09:49:45,011 !! 2026-02-14T09:49:45,012 check.warn(importable) 2026-02-14T09:49:45,012 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_rosetta.test_data.tl' is absent from the `packages` configuration. 2026-02-14T09:49:45,013 !! 2026-02-14T09:49:45,015 ******************************************************************************** 2026-02-14T09:49:45,016 ############################ 2026-02-14T09:49:45,018 # Package would be ignored # 2026-02-14T09:49:45,019 ############################ 2026-02-14T09:49:45,019 Python recognizes 'rna_tools.tools.rna_rosetta.test_data.tl' as an importable package[^1], 2026-02-14T09:49:45,020 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,022 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,022 package, please make sure that 'rna_tools.tools.rna_rosetta.test_data.tl' is explicitly added 2026-02-14T09:49:45,023 to the `packages` configuration field. 2026-02-14T09:49:45,024 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,025 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,025 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,026 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,027 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,028 If you don't want 'rna_tools.tools.rna_rosetta.test_data.tl' to be distributed and are 2026-02-14T09:49:45,029 already explicitly excluding 'rna_tools.tools.rna_rosetta.test_data.tl' via 2026-02-14T09:49:45,029 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,030 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,030 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,032 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,033 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,036 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,037 even if it does not contain any `.py` files. 2026-02-14T09:49:45,038 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,038 directory, all directories are treated like packages. 2026-02-14T09:49:45,039 ******************************************************************************** 2026-02-14T09:49:45,042 !! 2026-02-14T09:49:45,043 check.warn(importable) 2026-02-14T09:49:45,045 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_sali2dotbracket.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:45,047 !! 2026-02-14T09:49:45,050 ******************************************************************************** 2026-02-14T09:49:45,051 ############################ 2026-02-14T09:49:45,052 # Package would be ignored # 2026-02-14T09:49:45,054 ############################ 2026-02-14T09:49:45,055 Python recognizes 'rna_tools.tools.rna_sali2dotbracket.test_data' as an importable package[^1], 2026-02-14T09:49:45,055 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,056 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,057 package, please make sure that 'rna_tools.tools.rna_sali2dotbracket.test_data' is explicitly added 2026-02-14T09:49:45,057 to the `packages` configuration field. 2026-02-14T09:49:45,058 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,059 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,059 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,061 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,062 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,063 If you don't want 'rna_tools.tools.rna_sali2dotbracket.test_data' to be distributed and are 2026-02-14T09:49:45,063 already explicitly excluding 'rna_tools.tools.rna_sali2dotbracket.test_data' via 2026-02-14T09:49:45,064 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,064 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,064 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,065 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,066 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,067 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,067 even if it does not contain any `.py` files. 2026-02-14T09:49:45,068 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,068 directory, all directories are treated like packages. 2026-02-14T09:49:45,069 ******************************************************************************** 2026-02-14T09:49:45,070 !! 2026-02-14T09:49:45,071 check.warn(importable) 2026-02-14T09:49:45,071 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_seq_identity' is absent from the `packages` configuration. 2026-02-14T09:49:45,072 !! 2026-02-14T09:49:45,073 ******************************************************************************** 2026-02-14T09:49:45,074 ############################ 2026-02-14T09:49:45,075 # Package would be ignored # 2026-02-14T09:49:45,076 ############################ 2026-02-14T09:49:45,076 Python recognizes 'rna_tools.tools.rna_seq_identity' as an importable package[^1], 2026-02-14T09:49:45,077 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,079 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,080 package, please make sure that 'rna_tools.tools.rna_seq_identity' is explicitly added 2026-02-14T09:49:45,081 to the `packages` configuration field. 2026-02-14T09:49:45,082 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,083 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,084 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,086 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,087 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,089 If you don't want 'rna_tools.tools.rna_seq_identity' to be distributed and are 2026-02-14T09:49:45,089 already explicitly excluding 'rna_tools.tools.rna_seq_identity' via 2026-02-14T09:49:45,090 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,091 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,092 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,093 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,095 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,097 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,098 even if it does not contain any `.py` files. 2026-02-14T09:49:45,099 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,100 directory, all directories are treated like packages. 2026-02-14T09:49:45,101 ******************************************************************************** 2026-02-14T09:49:45,102 !! 2026-02-14T09:49:45,103 check.warn(importable) 2026-02-14T09:49:45,104 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rna_x3dna.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:45,104 !! 2026-02-14T09:49:45,106 ******************************************************************************** 2026-02-14T09:49:45,106 ############################ 2026-02-14T09:49:45,107 # Package would be ignored # 2026-02-14T09:49:45,108 ############################ 2026-02-14T09:49:45,108 Python recognizes 'rna_tools.tools.rna_x3dna.test_data' as an importable package[^1], 2026-02-14T09:49:45,109 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,111 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,111 package, please make sure that 'rna_tools.tools.rna_x3dna.test_data' is explicitly added 2026-02-14T09:49:45,112 to the `packages` configuration field. 2026-02-14T09:49:45,113 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,114 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,115 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,116 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,118 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,120 If you don't want 'rna_tools.tools.rna_x3dna.test_data' to be distributed and are 2026-02-14T09:49:45,120 already explicitly excluding 'rna_tools.tools.rna_x3dna.test_data' via 2026-02-14T09:49:45,121 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,122 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,123 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,124 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,126 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,128 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,134 even if it does not contain any `.py` files. 2026-02-14T09:49:45,135 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,136 directory, all directories are treated like packages. 2026-02-14T09:49:45,137 ******************************************************************************** 2026-02-14T09:49:45,138 !! 2026-02-14T09:49:45,139 check.warn(importable) 2026-02-14T09:49:45,140 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rnapuzzle_sender' is absent from the `packages` configuration. 2026-02-14T09:49:45,141 !! 2026-02-14T09:49:45,143 ******************************************************************************** 2026-02-14T09:49:45,143 ############################ 2026-02-14T09:49:45,144 # Package would be ignored # 2026-02-14T09:49:45,145 ############################ 2026-02-14T09:49:45,146 Python recognizes 'rna_tools.tools.rnapuzzle_sender' as an importable package[^1], 2026-02-14T09:49:45,147 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,150 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,151 package, please make sure that 'rna_tools.tools.rnapuzzle_sender' is explicitly added 2026-02-14T09:49:45,152 to the `packages` configuration field. 2026-02-14T09:49:45,153 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,154 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,155 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,157 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,158 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,160 If you don't want 'rna_tools.tools.rnapuzzle_sender' to be distributed and are 2026-02-14T09:49:45,160 already explicitly excluding 'rna_tools.tools.rnapuzzle_sender' via 2026-02-14T09:49:45,161 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,161 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,162 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,163 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,165 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,167 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,168 even if it does not contain any `.py` files. 2026-02-14T09:49:45,169 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,170 directory, all directories are treated like packages. 2026-02-14T09:49:45,171 ******************************************************************************** 2026-02-14T09:49:45,173 !! 2026-02-14T09:49:45,174 check.warn(importable) 2026-02-14T09:49:45,175 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rnapuzzle_sender.files' is absent from the `packages` configuration. 2026-02-14T09:49:45,176 !! 2026-02-14T09:49:45,178 ******************************************************************************** 2026-02-14T09:49:45,179 ############################ 2026-02-14T09:49:45,180 # Package would be ignored # 2026-02-14T09:49:45,181 ############################ 2026-02-14T09:49:45,182 Python recognizes 'rna_tools.tools.rnapuzzle_sender.files' as an importable package[^1], 2026-02-14T09:49:45,183 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,185 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,186 package, please make sure that 'rna_tools.tools.rnapuzzle_sender.files' is explicitly added 2026-02-14T09:49:45,187 to the `packages` configuration field. 2026-02-14T09:49:45,189 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,190 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,191 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,192 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,195 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,197 If you don't want 'rna_tools.tools.rnapuzzle_sender.files' to be distributed and are 2026-02-14T09:49:45,198 already explicitly excluding 'rna_tools.tools.rnapuzzle_sender.files' via 2026-02-14T09:49:45,199 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,200 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,202 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,203 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,205 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,207 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,208 even if it does not contain any `.py` files. 2026-02-14T09:49:45,208 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,209 directory, all directories are treated like packages. 2026-02-14T09:49:45,210 ******************************************************************************** 2026-02-14T09:49:45,211 !! 2026-02-14T09:49:45,211 check.warn(importable) 2026-02-14T09:49:45,212 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rnapuzzle_sender.test_of_email_content' is absent from the `packages` configuration. 2026-02-14T09:49:45,213 !! 2026-02-14T09:49:45,214 ******************************************************************************** 2026-02-14T09:49:45,215 ############################ 2026-02-14T09:49:45,215 # Package would be ignored # 2026-02-14T09:49:45,216 ############################ 2026-02-14T09:49:45,216 Python recognizes 'rna_tools.tools.rnapuzzle_sender.test_of_email_content' as an importable package[^1], 2026-02-14T09:49:45,217 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,218 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,219 package, please make sure that 'rna_tools.tools.rnapuzzle_sender.test_of_email_content' is explicitly added 2026-02-14T09:49:45,220 to the `packages` configuration field. 2026-02-14T09:49:45,222 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,223 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,223 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,225 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,227 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,229 If you don't want 'rna_tools.tools.rnapuzzle_sender.test_of_email_content' to be distributed and are 2026-02-14T09:49:45,229 already explicitly excluding 'rna_tools.tools.rnapuzzle_sender.test_of_email_content' via 2026-02-14T09:49:45,230 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,231 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,232 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,234 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,235 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,238 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,239 even if it does not contain any `.py` files. 2026-02-14T09:49:45,240 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,241 directory, all directories are treated like packages. 2026-02-14T09:49:45,243 ******************************************************************************** 2026-02-14T09:49:45,245 !! 2026-02-14T09:49:45,247 check.warn(importable) 2026-02-14T09:49:45,248 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rnashape2ascii' is absent from the `packages` configuration. 2026-02-14T09:49:45,250 !! 2026-02-14T09:49:45,253 ******************************************************************************** 2026-02-14T09:49:45,254 ############################ 2026-02-14T09:49:45,255 # Package would be ignored # 2026-02-14T09:49:45,256 ############################ 2026-02-14T09:49:45,257 Python recognizes 'rna_tools.tools.rnashape2ascii' as an importable package[^1], 2026-02-14T09:49:45,258 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,260 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,261 package, please make sure that 'rna_tools.tools.rnashape2ascii' is explicitly added 2026-02-14T09:49:45,262 to the `packages` configuration field. 2026-02-14T09:49:45,264 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,264 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,265 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,267 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,269 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,271 If you don't want 'rna_tools.tools.rnashape2ascii' to be distributed and are 2026-02-14T09:49:45,272 already explicitly excluding 'rna_tools.tools.rnashape2ascii' via 2026-02-14T09:49:45,273 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,274 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,275 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,276 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,278 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,279 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,280 even if it does not contain any `.py` files. 2026-02-14T09:49:45,280 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,281 directory, all directories are treated like packages. 2026-02-14T09:49:45,281 ******************************************************************************** 2026-02-14T09:49:45,283 !! 2026-02-14T09:49:45,283 check.warn(importable) 2026-02-14T09:49:45,284 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.rnashape2ascii.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:45,284 !! 2026-02-14T09:49:45,285 ******************************************************************************** 2026-02-14T09:49:45,286 ############################ 2026-02-14T09:49:45,286 # Package would be ignored # 2026-02-14T09:49:45,287 ############################ 2026-02-14T09:49:45,288 Python recognizes 'rna_tools.tools.rnashape2ascii.test_data' as an importable package[^1], 2026-02-14T09:49:45,288 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,289 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,290 package, please make sure that 'rna_tools.tools.rnashape2ascii.test_data' is explicitly added 2026-02-14T09:49:45,290 to the `packages` configuration field. 2026-02-14T09:49:45,291 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,292 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,293 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,294 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,294 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,295 If you don't want 'rna_tools.tools.rnashape2ascii.test_data' to be distributed and are 2026-02-14T09:49:45,295 already explicitly excluding 'rna_tools.tools.rnashape2ascii.test_data' via 2026-02-14T09:49:45,296 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,296 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,296 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,297 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,298 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,299 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,300 even if it does not contain any `.py` files. 2026-02-14T09:49:45,300 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,301 directory, all directories are treated like packages. 2026-02-14T09:49:45,301 ******************************************************************************** 2026-02-14T09:49:45,302 !! 2026-02-14T09:49:45,303 check.warn(importable) 2026-02-14T09:49:45,304 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.sandbox.rna_compare' is absent from the `packages` configuration. 2026-02-14T09:49:45,304 !! 2026-02-14T09:49:45,306 ******************************************************************************** 2026-02-14T09:49:45,307 ############################ 2026-02-14T09:49:45,308 # Package would be ignored # 2026-02-14T09:49:45,309 ############################ 2026-02-14T09:49:45,309 Python recognizes 'rna_tools.tools.sandbox.rna_compare' as an importable package[^1], 2026-02-14T09:49:45,310 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,312 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,313 package, please make sure that 'rna_tools.tools.sandbox.rna_compare' is explicitly added 2026-02-14T09:49:45,314 to the `packages` configuration field. 2026-02-14T09:49:45,316 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,316 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,317 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,319 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,321 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,323 If you don't want 'rna_tools.tools.sandbox.rna_compare' to be distributed and are 2026-02-14T09:49:45,324 already explicitly excluding 'rna_tools.tools.sandbox.rna_compare' via 2026-02-14T09:49:45,325 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,326 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,327 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,329 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,331 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,335 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,336 even if it does not contain any `.py` files. 2026-02-14T09:49:45,337 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,338 directory, all directories are treated like packages. 2026-02-14T09:49:45,338 ******************************************************************************** 2026-02-14T09:49:45,340 !! 2026-02-14T09:49:45,341 check.warn(importable) 2026-02-14T09:49:45,341 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.sandbox.rna_compare.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:45,342 !! 2026-02-14T09:49:45,343 ******************************************************************************** 2026-02-14T09:49:45,344 ############################ 2026-02-14T09:49:45,345 # Package would be ignored # 2026-02-14T09:49:45,345 ############################ 2026-02-14T09:49:45,346 Python recognizes 'rna_tools.tools.sandbox.rna_compare.test_data' as an importable package[^1], 2026-02-14T09:49:45,347 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,348 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,349 package, please make sure that 'rna_tools.tools.sandbox.rna_compare.test_data' is explicitly added 2026-02-14T09:49:45,349 to the `packages` configuration field. 2026-02-14T09:49:45,350 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,351 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,352 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,353 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,355 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,356 If you don't want 'rna_tools.tools.sandbox.rna_compare.test_data' to be distributed and are 2026-02-14T09:49:45,357 already explicitly excluding 'rna_tools.tools.sandbox.rna_compare.test_data' via 2026-02-14T09:49:45,358 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,358 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,359 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,361 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,362 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,364 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,365 even if it does not contain any `.py` files. 2026-02-14T09:49:45,366 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,367 directory, all directories are treated like packages. 2026-02-14T09:49:45,367 ******************************************************************************** 2026-02-14T09:49:45,369 !! 2026-02-14T09:49:45,370 check.warn(importable) 2026-02-14T09:49:45,371 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.simrna_trajectory.test_data' is absent from the `packages` configuration. 2026-02-14T09:49:45,372 !! 2026-02-14T09:49:45,374 ******************************************************************************** 2026-02-14T09:49:45,375 ############################ 2026-02-14T09:49:45,376 # Package would be ignored # 2026-02-14T09:49:45,377 ############################ 2026-02-14T09:49:45,379 Python recognizes 'rna_tools.tools.simrna_trajectory.test_data' as an importable package[^1], 2026-02-14T09:49:45,380 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,382 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,383 package, please make sure that 'rna_tools.tools.simrna_trajectory.test_data' is explicitly added 2026-02-14T09:49:45,383 to the `packages` configuration field. 2026-02-14T09:49:45,385 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,392 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,393 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,394 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,395 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,396 If you don't want 'rna_tools.tools.simrna_trajectory.test_data' to be distributed and are 2026-02-14T09:49:45,397 already explicitly excluding 'rna_tools.tools.simrna_trajectory.test_data' via 2026-02-14T09:49:45,398 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,398 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,399 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,400 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,401 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,403 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,404 even if it does not contain any `.py` files. 2026-02-14T09:49:45,405 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,405 directory, all directories are treated like packages. 2026-02-14T09:49:45,406 ******************************************************************************** 2026-02-14T09:49:45,408 !! 2026-02-14T09:49:45,408 check.warn(importable) 2026-02-14T09:49:45,409 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.triplexibility' is absent from the `packages` configuration. 2026-02-14T09:49:45,410 !! 2026-02-14T09:49:45,411 ******************************************************************************** 2026-02-14T09:49:45,412 ############################ 2026-02-14T09:49:45,413 # Package would be ignored # 2026-02-14T09:49:45,413 ############################ 2026-02-14T09:49:45,414 Python recognizes 'rna_tools.tools.triplexibility' as an importable package[^1], 2026-02-14T09:49:45,415 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,416 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,417 package, please make sure that 'rna_tools.tools.triplexibility' is explicitly added 2026-02-14T09:49:45,418 to the `packages` configuration field. 2026-02-14T09:49:45,419 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,420 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,421 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,423 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,424 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,426 If you don't want 'rna_tools.tools.triplexibility' to be distributed and are 2026-02-14T09:49:45,427 already explicitly excluding 'rna_tools.tools.triplexibility' via 2026-02-14T09:49:45,428 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,429 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,429 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,431 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,432 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,433 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,434 even if it does not contain any `.py` files. 2026-02-14T09:49:45,434 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,435 directory, all directories are treated like packages. 2026-02-14T09:49:45,435 ******************************************************************************** 2026-02-14T09:49:45,436 !! 2026-02-14T09:49:45,437 check.warn(importable) 2026-02-14T09:49:45,437 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.triplexibility.data' is absent from the `packages` configuration. 2026-02-14T09:49:45,438 !! 2026-02-14T09:49:45,439 ******************************************************************************** 2026-02-14T09:49:45,439 ############################ 2026-02-14T09:49:45,440 # Package would be ignored # 2026-02-14T09:49:45,441 ############################ 2026-02-14T09:49:45,441 Python recognizes 'rna_tools.tools.triplexibility.data' as an importable package[^1], 2026-02-14T09:49:45,442 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,443 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,444 package, please make sure that 'rna_tools.tools.triplexibility.data' is explicitly added 2026-02-14T09:49:45,445 to the `packages` configuration field. 2026-02-14T09:49:45,446 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,447 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,447 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,449 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,450 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,451 If you don't want 'rna_tools.tools.triplexibility.data' to be distributed and are 2026-02-14T09:49:45,452 already explicitly excluding 'rna_tools.tools.triplexibility.data' via 2026-02-14T09:49:45,453 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,453 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,454 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,456 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,457 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,460 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,460 even if it does not contain any `.py` files. 2026-02-14T09:49:45,461 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,462 directory, all directories are treated like packages. 2026-02-14T09:49:45,463 ******************************************************************************** 2026-02-14T09:49:45,466 !! 2026-02-14T09:49:45,467 check.warn(importable) 2026-02-14T09:49:45,467 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.triplexibility.db' is absent from the `packages` configuration. 2026-02-14T09:49:45,468 !! 2026-02-14T09:49:45,469 ******************************************************************************** 2026-02-14T09:49:45,470 ############################ 2026-02-14T09:49:45,470 # Package would be ignored # 2026-02-14T09:49:45,471 ############################ 2026-02-14T09:49:45,472 Python recognizes 'rna_tools.tools.triplexibility.db' as an importable package[^1], 2026-02-14T09:49:45,472 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,474 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,474 package, please make sure that 'rna_tools.tools.triplexibility.db' is explicitly added 2026-02-14T09:49:45,475 to the `packages` configuration field. 2026-02-14T09:49:45,476 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,476 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,477 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,478 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,479 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,480 If you don't want 'rna_tools.tools.triplexibility.db' to be distributed and are 2026-02-14T09:49:45,480 already explicitly excluding 'rna_tools.tools.triplexibility.db' via 2026-02-14T09:49:45,481 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,482 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,482 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,484 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,485 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,487 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,488 even if it does not contain any `.py` files. 2026-02-14T09:49:45,489 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,490 directory, all directories are treated like packages. 2026-02-14T09:49:45,491 ******************************************************************************** 2026-02-14T09:49:45,492 !! 2026-02-14T09:49:45,492 check.warn(importable) 2026-02-14T09:49:45,493 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.admin.css' is absent from the `packages` configuration. 2026-02-14T09:49:45,494 !! 2026-02-14T09:49:45,495 ******************************************************************************** 2026-02-14T09:49:45,496 ############################ 2026-02-14T09:49:45,497 # Package would be ignored # 2026-02-14T09:49:45,499 ############################ 2026-02-14T09:49:45,500 Python recognizes 'rna_tools.tools.webserver-engine.admin.css' as an importable package[^1], 2026-02-14T09:49:45,501 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,503 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,504 package, please make sure that 'rna_tools.tools.webserver-engine.admin.css' is explicitly added 2026-02-14T09:49:45,505 to the `packages` configuration field. 2026-02-14T09:49:45,506 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,507 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,508 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,508 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,509 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,510 If you don't want 'rna_tools.tools.webserver-engine.admin.css' to be distributed and are 2026-02-14T09:49:45,511 already explicitly excluding 'rna_tools.tools.webserver-engine.admin.css' via 2026-02-14T09:49:45,511 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,511 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,512 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,513 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,514 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,515 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,516 even if it does not contain any `.py` files. 2026-02-14T09:49:45,516 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,517 directory, all directories are treated like packages. 2026-02-14T09:49:45,517 ******************************************************************************** 2026-02-14T09:49:45,518 !! 2026-02-14T09:49:45,519 check.warn(importable) 2026-02-14T09:49:45,520 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.admin.img' is absent from the `packages` configuration. 2026-02-14T09:49:45,520 !! 2026-02-14T09:49:45,522 ******************************************************************************** 2026-02-14T09:49:45,522 ############################ 2026-02-14T09:49:45,523 # Package would be ignored # 2026-02-14T09:49:45,524 ############################ 2026-02-14T09:49:45,525 Python recognizes 'rna_tools.tools.webserver-engine.admin.img' as an importable package[^1], 2026-02-14T09:49:45,526 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,527 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,528 package, please make sure that 'rna_tools.tools.webserver-engine.admin.img' is explicitly added 2026-02-14T09:49:45,529 to the `packages` configuration field. 2026-02-14T09:49:45,530 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,531 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,531 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,533 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,534 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,536 If you don't want 'rna_tools.tools.webserver-engine.admin.img' to be distributed and are 2026-02-14T09:49:45,537 already explicitly excluding 'rna_tools.tools.webserver-engine.admin.img' via 2026-02-14T09:49:45,537 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,538 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,539 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,540 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,541 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,543 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,543 even if it does not contain any `.py` files. 2026-02-14T09:49:45,544 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,544 directory, all directories are treated like packages. 2026-02-14T09:49:45,544 ******************************************************************************** 2026-02-14T09:49:45,545 !! 2026-02-14T09:49:45,546 check.warn(importable) 2026-02-14T09:49:45,546 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.admin.img.gis' is absent from the `packages` configuration. 2026-02-14T09:49:45,547 !! 2026-02-14T09:49:45,548 ******************************************************************************** 2026-02-14T09:49:45,548 ############################ 2026-02-14T09:49:45,549 # Package would be ignored # 2026-02-14T09:49:45,549 ############################ 2026-02-14T09:49:45,550 Python recognizes 'rna_tools.tools.webserver-engine.admin.img.gis' as an importable package[^1], 2026-02-14T09:49:45,550 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,551 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,552 package, please make sure that 'rna_tools.tools.webserver-engine.admin.img.gis' is explicitly added 2026-02-14T09:49:45,552 to the `packages` configuration field. 2026-02-14T09:49:45,554 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,555 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,555 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,557 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,558 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,559 If you don't want 'rna_tools.tools.webserver-engine.admin.img.gis' to be distributed and are 2026-02-14T09:49:45,560 already explicitly excluding 'rna_tools.tools.webserver-engine.admin.img.gis' via 2026-02-14T09:49:45,561 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,561 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,562 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,563 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,564 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,566 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,567 even if it does not contain any `.py` files. 2026-02-14T09:49:45,567 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,568 directory, all directories are treated like packages. 2026-02-14T09:49:45,569 ******************************************************************************** 2026-02-14T09:49:45,571 !! 2026-02-14T09:49:45,571 check.warn(importable) 2026-02-14T09:49:45,572 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.admin.js' is absent from the `packages` configuration. 2026-02-14T09:49:45,573 !! 2026-02-14T09:49:45,578 ******************************************************************************** 2026-02-14T09:49:45,579 ############################ 2026-02-14T09:49:45,580 # Package would be ignored # 2026-02-14T09:49:45,580 ############################ 2026-02-14T09:49:45,581 Python recognizes 'rna_tools.tools.webserver-engine.admin.js' as an importable package[^1], 2026-02-14T09:49:45,581 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,582 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,583 package, please make sure that 'rna_tools.tools.webserver-engine.admin.js' is explicitly added 2026-02-14T09:49:45,583 to the `packages` configuration field. 2026-02-14T09:49:45,584 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,584 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,585 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,586 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,587 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,588 If you don't want 'rna_tools.tools.webserver-engine.admin.js' to be distributed and are 2026-02-14T09:49:45,588 already explicitly excluding 'rna_tools.tools.webserver-engine.admin.js' via 2026-02-14T09:49:45,589 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,589 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,590 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,591 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,593 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,595 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,595 even if it does not contain any `.py` files. 2026-02-14T09:49:45,596 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,597 directory, all directories are treated like packages. 2026-02-14T09:49:45,598 ******************************************************************************** 2026-02-14T09:49:45,599 !! 2026-02-14T09:49:45,600 check.warn(importable) 2026-02-14T09:49:45,601 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.admin.js.admin' is absent from the `packages` configuration. 2026-02-14T09:49:45,602 !! 2026-02-14T09:49:45,603 ******************************************************************************** 2026-02-14T09:49:45,604 ############################ 2026-02-14T09:49:45,605 # Package would be ignored # 2026-02-14T09:49:45,606 ############################ 2026-02-14T09:49:45,607 Python recognizes 'rna_tools.tools.webserver-engine.admin.js.admin' as an importable package[^1], 2026-02-14T09:49:45,608 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,610 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,610 package, please make sure that 'rna_tools.tools.webserver-engine.admin.js.admin' is explicitly added 2026-02-14T09:49:45,611 to the `packages` configuration field. 2026-02-14T09:49:45,613 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,613 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,614 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,616 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,617 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,618 If you don't want 'rna_tools.tools.webserver-engine.admin.js.admin' to be distributed and are 2026-02-14T09:49:45,618 already explicitly excluding 'rna_tools.tools.webserver-engine.admin.js.admin' via 2026-02-14T09:49:45,619 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,619 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,620 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,621 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,622 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,624 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,625 even if it does not contain any `.py` files. 2026-02-14T09:49:45,625 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,626 directory, all directories are treated like packages. 2026-02-14T09:49:45,627 ******************************************************************************** 2026-02-14T09:49:45,628 !! 2026-02-14T09:49:45,628 check.warn(importable) 2026-02-14T09:49:45,629 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app' is absent from the `packages` configuration. 2026-02-14T09:49:45,630 !! 2026-02-14T09:49:45,631 ******************************************************************************** 2026-02-14T09:49:45,632 ############################ 2026-02-14T09:49:45,633 # Package would be ignored # 2026-02-14T09:49:45,633 ############################ 2026-02-14T09:49:45,634 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app' as an importable package[^1], 2026-02-14T09:49:45,635 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,637 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,637 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app' is explicitly added 2026-02-14T09:49:45,638 to the `packages` configuration field. 2026-02-14T09:49:45,639 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,640 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,641 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,642 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,644 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,645 If you don't want 'rna_tools.tools.webserver-engine.app.static.app' to be distributed and are 2026-02-14T09:49:45,646 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app' via 2026-02-14T09:49:45,646 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,647 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,648 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,649 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,651 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,653 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,654 even if it does not contain any `.py` files. 2026-02-14T09:49:45,655 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,656 directory, all directories are treated like packages. 2026-02-14T09:49:45,657 ******************************************************************************** 2026-02-14T09:49:45,658 !! 2026-02-14T09:49:45,659 check.warn(importable) 2026-02-14T09:49:45,660 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.css' is absent from the `packages` configuration. 2026-02-14T09:49:45,660 !! 2026-02-14T09:49:45,662 ******************************************************************************** 2026-02-14T09:49:45,662 ############################ 2026-02-14T09:49:45,663 # Package would be ignored # 2026-02-14T09:49:45,664 ############################ 2026-02-14T09:49:45,664 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.css' as an importable package[^1], 2026-02-14T09:49:45,665 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,666 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,667 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.css' is explicitly added 2026-02-14T09:49:45,668 to the `packages` configuration field. 2026-02-14T09:49:45,669 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,670 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,671 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,672 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,673 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,675 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.css' to be distributed and are 2026-02-14T09:49:45,676 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.css' via 2026-02-14T09:49:45,677 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,678 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,678 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,680 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,682 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,685 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,686 even if it does not contain any `.py` files. 2026-02-14T09:49:45,687 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,688 directory, all directories are treated like packages. 2026-02-14T09:49:45,689 ******************************************************************************** 2026-02-14T09:49:45,692 !! 2026-02-14T09:49:45,693 check.warn(importable) 2026-02-14T09:49:45,694 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.img' is absent from the `packages` configuration. 2026-02-14T09:49:45,695 !! 2026-02-14T09:49:45,697 ******************************************************************************** 2026-02-14T09:49:45,697 ############################ 2026-02-14T09:49:45,698 # Package would be ignored # 2026-02-14T09:49:45,699 ############################ 2026-02-14T09:49:45,699 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.img' as an importable package[^1], 2026-02-14T09:49:45,700 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,701 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,701 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.img' is explicitly added 2026-02-14T09:49:45,702 to the `packages` configuration field. 2026-02-14T09:49:45,703 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,703 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,704 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,705 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,706 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,707 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.img' to be distributed and are 2026-02-14T09:49:45,708 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.img' via 2026-02-14T09:49:45,708 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,709 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,710 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,711 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,713 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,715 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,716 even if it does not contain any `.py` files. 2026-02-14T09:49:45,717 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,718 directory, all directories are treated like packages. 2026-02-14T09:49:45,719 ******************************************************************************** 2026-02-14T09:49:45,721 !! 2026-02-14T09:49:45,722 check.warn(importable) 2026-02-14T09:49:45,723 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.js' is absent from the `packages` configuration. 2026-02-14T09:49:45,724 !! 2026-02-14T09:49:45,725 ******************************************************************************** 2026-02-14T09:49:45,726 ############################ 2026-02-14T09:49:45,727 # Package would be ignored # 2026-02-14T09:49:45,728 ############################ 2026-02-14T09:49:45,729 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.js' as an importable package[^1], 2026-02-14T09:49:45,730 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,731 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,732 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.js' is explicitly added 2026-02-14T09:49:45,733 to the `packages` configuration field. 2026-02-14T09:49:45,735 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,737 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,738 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,739 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,740 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,741 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.js' to be distributed and are 2026-02-14T09:49:45,741 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.bootstrap.js' via 2026-02-14T09:49:45,742 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,742 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,743 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,743 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,744 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,746 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,746 even if it does not contain any `.py` files. 2026-02-14T09:49:45,746 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,747 directory, all directories are treated like packages. 2026-02-14T09:49:45,747 ******************************************************************************** 2026-02-14T09:49:45,748 !! 2026-02-14T09:49:45,749 check.warn(importable) 2026-02-14T09:49:45,749 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.demo' is absent from the `packages` configuration. 2026-02-14T09:49:45,750 !! 2026-02-14T09:49:45,751 ******************************************************************************** 2026-02-14T09:49:45,751 ############################ 2026-02-14T09:49:45,752 # Package would be ignored # 2026-02-14T09:49:45,753 ############################ 2026-02-14T09:49:45,754 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.demo' as an importable package[^1], 2026-02-14T09:49:45,755 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,757 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,758 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.demo' is explicitly added 2026-02-14T09:49:45,758 to the `packages` configuration field. 2026-02-14T09:49:45,759 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,759 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,760 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,761 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,762 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,763 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.demo' to be distributed and are 2026-02-14T09:49:45,763 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.demo' via 2026-02-14T09:49:45,764 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,764 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,765 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,766 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,767 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,769 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,770 even if it does not contain any `.py` files. 2026-02-14T09:49:45,770 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,771 directory, all directories are treated like packages. 2026-02-14T09:49:45,771 ******************************************************************************** 2026-02-14T09:49:45,772 !! 2026-02-14T09:49:45,772 check.warn(importable) 2026-02-14T09:49:45,773 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.dropzone' is absent from the `packages` configuration. 2026-02-14T09:49:45,773 !! 2026-02-14T09:49:45,774 ******************************************************************************** 2026-02-14T09:49:45,774 ############################ 2026-02-14T09:49:45,775 # Package would be ignored # 2026-02-14T09:49:45,775 ############################ 2026-02-14T09:49:45,776 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.dropzone' as an importable package[^1], 2026-02-14T09:49:45,776 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,777 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,777 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.dropzone' is explicitly added 2026-02-14T09:49:45,778 to the `packages` configuration field. 2026-02-14T09:49:45,778 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,779 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,779 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,780 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,781 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,782 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.dropzone' to be distributed and are 2026-02-14T09:49:45,783 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.dropzone' via 2026-02-14T09:49:45,783 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,784 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,784 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,785 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,786 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,787 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,788 even if it does not contain any `.py` files. 2026-02-14T09:49:45,788 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,789 directory, all directories are treated like packages. 2026-02-14T09:49:45,789 ******************************************************************************** 2026-02-14T09:49:45,790 !! 2026-02-14T09:49:45,791 check.warn(importable) 2026-02-14T09:49:45,791 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.help' is absent from the `packages` configuration. 2026-02-14T09:49:45,792 !! 2026-02-14T09:49:45,793 ******************************************************************************** 2026-02-14T09:49:45,793 ############################ 2026-02-14T09:49:45,794 # Package would be ignored # 2026-02-14T09:49:45,794 ############################ 2026-02-14T09:49:45,795 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.help' as an importable package[^1], 2026-02-14T09:49:45,795 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,796 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,796 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.help' is explicitly added 2026-02-14T09:49:45,797 to the `packages` configuration field. 2026-02-14T09:49:45,798 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,798 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,798 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,799 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,800 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,801 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.help' to be distributed and are 2026-02-14T09:49:45,801 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.help' via 2026-02-14T09:49:45,802 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,802 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,802 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,803 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,804 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,806 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,806 even if it does not contain any `.py` files. 2026-02-14T09:49:45,806 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,807 directory, all directories are treated like packages. 2026-02-14T09:49:45,807 ******************************************************************************** 2026-02-14T09:49:45,808 !! 2026-02-14T09:49:45,809 check.warn(importable) 2026-02-14T09:49:45,809 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.static.app.img' is absent from the `packages` configuration. 2026-02-14T09:49:45,810 !! 2026-02-14T09:49:45,811 ******************************************************************************** 2026-02-14T09:49:45,811 ############################ 2026-02-14T09:49:45,812 # Package would be ignored # 2026-02-14T09:49:45,812 ############################ 2026-02-14T09:49:45,813 Python recognizes 'rna_tools.tools.webserver-engine.app.static.app.img' as an importable package[^1], 2026-02-14T09:49:45,813 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,814 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,814 package, please make sure that 'rna_tools.tools.webserver-engine.app.static.app.img' is explicitly added 2026-02-14T09:49:45,815 to the `packages` configuration field. 2026-02-14T09:49:45,816 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,817 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,817 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,819 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,820 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,822 If you don't want 'rna_tools.tools.webserver-engine.app.static.app.img' to be distributed and are 2026-02-14T09:49:45,822 already explicitly excluding 'rna_tools.tools.webserver-engine.app.static.app.img' via 2026-02-14T09:49:45,823 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,823 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,824 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,824 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,825 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,826 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,827 even if it does not contain any `.py` files. 2026-02-14T09:49:45,827 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,828 directory, all directories are treated like packages. 2026-02-14T09:49:45,828 ******************************************************************************** 2026-02-14T09:49:45,829 !! 2026-02-14T09:49:45,829 check.warn(importable) 2026-02-14T09:49:45,830 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.templates' is absent from the `packages` configuration. 2026-02-14T09:49:45,830 !! 2026-02-14T09:49:45,831 ******************************************************************************** 2026-02-14T09:49:45,831 ############################ 2026-02-14T09:49:45,832 # Package would be ignored # 2026-02-14T09:49:45,832 ############################ 2026-02-14T09:49:45,833 Python recognizes 'rna_tools.tools.webserver-engine.app.templates' as an importable package[^1], 2026-02-14T09:49:45,833 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,834 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,834 package, please make sure that 'rna_tools.tools.webserver-engine.app.templates' is explicitly added 2026-02-14T09:49:45,835 to the `packages` configuration field. 2026-02-14T09:49:45,836 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,836 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,837 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,838 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,839 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,840 If you don't want 'rna_tools.tools.webserver-engine.app.templates' to be distributed and are 2026-02-14T09:49:45,840 already explicitly excluding 'rna_tools.tools.webserver-engine.app.templates' via 2026-02-14T09:49:45,840 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,841 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,841 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,842 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,843 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,845 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,845 even if it does not contain any `.py` files. 2026-02-14T09:49:45,846 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,847 directory, all directories are treated like packages. 2026-02-14T09:49:45,847 ******************************************************************************** 2026-02-14T09:49:45,848 !! 2026-02-14T09:49:45,849 check.warn(importable) 2026-02-14T09:49:45,849 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.app.templates.archive' is absent from the `packages` configuration. 2026-02-14T09:49:45,849 !! 2026-02-14T09:49:45,850 ******************************************************************************** 2026-02-14T09:49:45,850 ############################ 2026-02-14T09:49:45,851 # Package would be ignored # 2026-02-14T09:49:45,851 ############################ 2026-02-14T09:49:45,852 Python recognizes 'rna_tools.tools.webserver-engine.app.templates.archive' as an importable package[^1], 2026-02-14T09:49:45,852 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,853 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,853 package, please make sure that 'rna_tools.tools.webserver-engine.app.templates.archive' is explicitly added 2026-02-14T09:49:45,854 to the `packages` configuration field. 2026-02-14T09:49:45,855 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,855 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,855 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,856 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,857 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,858 If you don't want 'rna_tools.tools.webserver-engine.app.templates.archive' to be distributed and are 2026-02-14T09:49:45,859 already explicitly excluding 'rna_tools.tools.webserver-engine.app.templates.archive' via 2026-02-14T09:49:45,859 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,860 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,860 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,861 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,862 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,863 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,864 even if it does not contain any `.py` files. 2026-02-14T09:49:45,864 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,865 directory, all directories are treated like packages. 2026-02-14T09:49:45,865 ******************************************************************************** 2026-02-14T09:49:45,866 !! 2026-02-14T09:49:45,867 check.warn(importable) 2026-02-14T09:49:45,868 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.django_extensions.css' is absent from the `packages` configuration. 2026-02-14T09:49:45,868 !! 2026-02-14T09:49:45,869 ******************************************************************************** 2026-02-14T09:49:45,870 ############################ 2026-02-14T09:49:45,870 # Package would be ignored # 2026-02-14T09:49:45,871 ############################ 2026-02-14T09:49:45,871 Python recognizes 'rna_tools.tools.webserver-engine.django_extensions.css' as an importable package[^1], 2026-02-14T09:49:45,872 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,873 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,874 package, please make sure that 'rna_tools.tools.webserver-engine.django_extensions.css' is explicitly added 2026-02-14T09:49:45,874 to the `packages` configuration field. 2026-02-14T09:49:45,875 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,876 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,876 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,877 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,877 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,878 If you don't want 'rna_tools.tools.webserver-engine.django_extensions.css' to be distributed and are 2026-02-14T09:49:45,879 already explicitly excluding 'rna_tools.tools.webserver-engine.django_extensions.css' via 2026-02-14T09:49:45,879 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,880 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,880 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,881 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,882 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,883 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,884 even if it does not contain any `.py` files. 2026-02-14T09:49:45,884 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,885 directory, all directories are treated like packages. 2026-02-14T09:49:45,885 ******************************************************************************** 2026-02-14T09:49:45,886 !! 2026-02-14T09:49:45,887 check.warn(importable) 2026-02-14T09:49:45,887 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.django_extensions.img' is absent from the `packages` configuration. 2026-02-14T09:49:45,888 !! 2026-02-14T09:49:45,889 ******************************************************************************** 2026-02-14T09:49:45,889 ############################ 2026-02-14T09:49:45,890 # Package would be ignored # 2026-02-14T09:49:45,890 ############################ 2026-02-14T09:49:45,891 Python recognizes 'rna_tools.tools.webserver-engine.django_extensions.img' as an importable package[^1], 2026-02-14T09:49:45,891 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,892 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,893 package, please make sure that 'rna_tools.tools.webserver-engine.django_extensions.img' is explicitly added 2026-02-14T09:49:45,893 to the `packages` configuration field. 2026-02-14T09:49:45,894 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,895 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,895 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,896 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,897 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,898 If you don't want 'rna_tools.tools.webserver-engine.django_extensions.img' to be distributed and are 2026-02-14T09:49:45,899 already explicitly excluding 'rna_tools.tools.webserver-engine.django_extensions.img' via 2026-02-14T09:49:45,899 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,900 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,901 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,902 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,903 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,904 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,905 even if it does not contain any `.py` files. 2026-02-14T09:49:45,905 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,906 directory, all directories are treated like packages. 2026-02-14T09:49:45,906 ******************************************************************************** 2026-02-14T09:49:45,907 !! 2026-02-14T09:49:45,907 check.warn(importable) 2026-02-14T09:49:45,908 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.django_extensions.js' is absent from the `packages` configuration. 2026-02-14T09:49:45,908 !! 2026-02-14T09:49:45,909 ******************************************************************************** 2026-02-14T09:49:45,910 ############################ 2026-02-14T09:49:45,910 # Package would be ignored # 2026-02-14T09:49:45,911 ############################ 2026-02-14T09:49:45,911 Python recognizes 'rna_tools.tools.webserver-engine.django_extensions.js' as an importable package[^1], 2026-02-14T09:49:45,912 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,913 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,914 package, please make sure that 'rna_tools.tools.webserver-engine.django_extensions.js' is explicitly added 2026-02-14T09:49:45,915 to the `packages` configuration field. 2026-02-14T09:49:45,916 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,917 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,917 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,919 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,920 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,921 If you don't want 'rna_tools.tools.webserver-engine.django_extensions.js' to be distributed and are 2026-02-14T09:49:45,923 already explicitly excluding 'rna_tools.tools.webserver-engine.django_extensions.js' via 2026-02-14T09:49:45,925 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,935 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,956 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,957 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,958 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,959 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,960 even if it does not contain any `.py` files. 2026-02-14T09:49:45,961 On the other hand, currently there is no concept of package data 2026-02-14T09:49:45,963 directory, all directories are treated like packages. 2026-02-14T09:49:45,964 ******************************************************************************** 2026-02-14T09:49:45,966 !! 2026-02-14T09:49:45,967 check.warn(importable) 2026-02-14T09:49:45,968 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.webserver-engine.docs' is absent from the `packages` configuration. 2026-02-14T09:49:45,969 !! 2026-02-14T09:49:45,970 ******************************************************************************** 2026-02-14T09:49:45,971 ############################ 2026-02-14T09:49:45,971 # Package would be ignored # 2026-02-14T09:49:45,972 ############################ 2026-02-14T09:49:45,973 Python recognizes 'rna_tools.tools.webserver-engine.docs' as an importable package[^1], 2026-02-14T09:49:45,973 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:45,975 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:45,976 package, please make sure that 'rna_tools.tools.webserver-engine.docs' is explicitly added 2026-02-14T09:49:45,976 to the `packages` configuration field. 2026-02-14T09:49:45,977 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:45,978 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:45,979 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:45,981 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:45,982 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:45,984 If you don't want 'rna_tools.tools.webserver-engine.docs' to be distributed and are 2026-02-14T09:49:45,984 already explicitly excluding 'rna_tools.tools.webserver-engine.docs' via 2026-02-14T09:49:45,985 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:45,985 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:45,986 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:45,988 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:45,989 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:45,993 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:45,994 even if it does not contain any `.py` files. 2026-02-14T09:49:45,997 On the other hand, currently there is no concept of package data 2026-02-14T09:49:46,001 directory, all directories are treated like packages. 2026-02-14T09:49:46,007 ******************************************************************************** 2026-02-14T09:49:46,010 !! 2026-02-14T09:49:46,010 check.warn(importable) 2026-02-14T09:49:46,011 /tmp/pip-build-env-3ij4lnu8/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:215: _Warning: Package 'rna_tools.tools.workflow' is absent from the `packages` configuration. 2026-02-14T09:49:46,011 !! 2026-02-14T09:49:46,013 ******************************************************************************** 2026-02-14T09:49:46,013 ############################ 2026-02-14T09:49:46,014 # Package would be ignored # 2026-02-14T09:49:46,014 ############################ 2026-02-14T09:49:46,015 Python recognizes 'rna_tools.tools.workflow' as an importable package[^1], 2026-02-14T09:49:46,016 but it is absent from setuptools' `packages` configuration. 2026-02-14T09:49:46,019 This leads to an ambiguous overall configuration. If you want to distribute this 2026-02-14T09:49:46,023 package, please make sure that 'rna_tools.tools.workflow' is explicitly added 2026-02-14T09:49:46,024 to the `packages` configuration field. 2026-02-14T09:49:46,026 Alternatively, you can also rely on setuptools' discovery methods 2026-02-14T09:49:46,026 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-02-14T09:49:46,027 instead of `find_packages(...)`/`find:`). 2026-02-14T09:49:46,028 You can read more about "package discovery" on setuptools documentation page: 2026-02-14T09:49:46,029 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-02-14T09:49:46,030 If you don't want 'rna_tools.tools.workflow' to be distributed and are 2026-02-14T09:49:46,030 already explicitly excluding 'rna_tools.tools.workflow' via 2026-02-14T09:49:46,031 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-02-14T09:49:46,031 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-02-14T09:49:46,032 combination with a more fine grained `package-data` configuration. 2026-02-14T09:49:46,033 You can read more about "package data files" on setuptools documentation page: 2026-02-14T09:49:46,035 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-02-14T09:49:46,038 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-02-14T09:49:46,038 even if it does not contain any `.py` files. 2026-02-14T09:49:46,039 On the other hand, currently there is no concept of package data 2026-02-14T09:49:46,040 directory, all directories are treated like packages. 2026-02-14T09:49:46,040 ******************************************************************************** 2026-02-14T09:49:46,042 !! 2026-02-14T09:49:46,043 check.warn(importable) 2026-02-14T09:49:46,044 Failed to load config from /tmp/pip-wheel-tzv8lopx/rna-tools_fd954e53ba8c4bccb3255b89be0b9998/pyproject.toml: 'tool' 2026-02-14T09:49:46,044 Try to load it from setup.cfg 2026-02-14T09:49:46,045 copying rna_tools/pytest.ini -> build/lib/rna_tools 2026-02-14T09:49:46,045 copying rna_tools/rchie.png -> build/lib/rna_tools 2026-02-14T09:49:46,046 copying rna_tools/shell_rc.sh -> build/lib/rna_tools 2026-02-14T09:49:46,046 copying rna_tools/test.sh -> build/lib/rna_tools 2026-02-14T09:49:46,047 creating build/lib/rna_tools/data 2026-02-14T09:49:46,047 copying rna_tools/data/260c8ff6-f24e-4eff-9760-1831407fc770_ALL_thrs5.30A_clust01-000001_AA.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,048 copying rna_tools/data/A.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,048 copying rna_tools/data/ACGU.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,049 copying rna_tools/data/C.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,050 copying rna_tools/data/G.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,050 copying rna_tools/data/PO3_inner.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,051 copying rna_tools/data/U.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,052 copying rna_tools/data/o2prim.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,052 copying rna_tools/data/op4.pdb -> build/lib/rna_tools/data 2026-02-14T09:49:46,053 copying rna_tools/data/pdb_ids.txt -> build/lib/rna_tools/data 2026-02-14T09:49:46,053 copying rna_tools/data/rna_pdb_errors.csv -> build/lib/rna_tools/data 2026-02-14T09:49:46,054 copying rna_tools/data/shape.txt -> build/lib/rna_tools/data 2026-02-14T09:49:46,054 creating build/lib/rna_tools/tests 2026-02-14T09:49:46,055 copying rna_tools/tests/test_eval.py -> build/lib/rna_tools/tests 2026-02-14T09:49:46,055 copying rna_tools/tests/test_rna_ss_pred.sh -> build/lib/rna_tools/tests 2026-02-14T09:49:46,056 copying rna_tools/tests/test_rnafold.py -> build/lib/rna_tools/tests 2026-02-14T09:49:46,057 copying rna_tools/tests/test_seq_cyclefold.py -> build/lib/rna_tools/tests 2026-02-14T09:49:46,058 copying rna_tools/tests/test_seq_mcfold.py -> build/lib/rna_tools/tests 2026-02-14T09:49:46,059 copying rna_tools/tests/test_seq_mcfold2.py -> build/lib/rna_tools/tests 2026-02-14T09:49:46,059 creating build/lib/rna_tools/tests/test_import_module 2026-02-14T09:49:46,060 copying rna_tools/tests/test_import_module/rchie.png -> build/lib/rna_tools/tests/test_import_module 2026-02-14T09:49:46,061 copying rna_tools/tests/test_import_module/test_import_rna_tools.py -> build/lib/rna_tools/tests/test_import_module 2026-02-14T09:49:46,062 creating build/lib/rna_tools/tests/test_import_module/test_data 2026-02-14T09:49:46,062 copying rna_tools/tests/test_import_module/test_data/RF00167.stockholm.sto -> build/lib/rna_tools/tests/test_import_module/test_data 2026-02-14T09:49:46,063 creating build/lib/rna_tools/tools/df 2026-02-14T09:49:46,064 copying rna_tools/tools/df/rna_df_concat.py -> build/lib/rna_tools/tools/df 2026-02-14T09:49:46,064 copying rna_tools/tools/df/rna_df_csv_sort.py -> build/lib/rna_tools/tools/df 2026-02-14T09:49:46,065 copying rna_tools/tools/df/rna_df_merge.py -> build/lib/rna_tools/tools/df 2026-02-14T09:49:46,065 copying rna_tools/tools/df/rna_df_merge_on.py -> build/lib/rna_tools/tools/df 2026-02-14T09:49:46,066 copying rna_tools/tools/df/rna_df_merge_two.py -> build/lib/rna_tools/tools/df 2026-02-14T09:49:46,066 copying rna_tools/tools/df/test.sh -> build/lib/rna_tools/tools/df 2026-02-14T09:49:46,066 creating build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,067 copying rna_tools/tools/df/test_data/cga_rmsd.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,068 copying rna_tools/tools/df/test_data/cgc_rmsd.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,069 copying rna_tools/tools/df/test_data/d3.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,070 copying rna_tools/tools/df/test_data/d8.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,071 copying rna_tools/tools/df/test_data/min_2.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,071 copying rna_tools/tools/df/test_data/min_3.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,072 copying rna_tools/tools/df/test_data/min_4.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,073 copying rna_tools/tools/df/test_data/rna_df_concat.py -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,074 copying rna_tools/tools/df/test_data/rna_df_merge.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,074 copying rna_tools/tools/df/test_data/rna_df_merge_on.csv -> build/lib/rna_tools/tools/df/test_data 2026-02-14T09:49:46,075 creating build/lib/rna_tools/tools/proteins 2026-02-14T09:49:46,076 copying rna_tools/tools/proteins/1djf.pdb -> build/lib/rna_tools/tools/proteins 2026-02-14T09:49:46,077 copying rna_tools/tools/proteins/calc_distances.py -> build/lib/rna_tools/tools/proteins 2026-02-14T09:49:46,077 copying rna_tools/tools/proteins/test.sh -> build/lib/rna_tools/tools/proteins 2026-02-14T09:49:46,078 copying rna_tools/tools/proteins/u2-u6-cwc15-trim2_proteinOnly.pdb -> build/lib/rna_tools/tools/proteins 2026-02-14T09:49:46,079 creating build/lib/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:46,079 copying rna_tools/tools/pymol_color_by_conserv/conserv_to_csv.py -> build/lib/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:46,080 copying rna_tools/tools/pymol_color_by_conserv/pymol_color_by_conserv.py -> build/lib/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:46,081 copying rna_tools/tools/pymol_color_by_conserv/readme.md -> build/lib/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:46,082 copying rna_tools/tools/pymol_color_by_conserv/test.sh -> build/lib/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:46,082 creating build/lib/rna_tools/tools/pymol_color_by_conserv/data 2026-02-14T09:49:46,083 creating build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:46,083 copying rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15.pml -> build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:46,084 copying rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15_consensus.csv -> build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:46,085 copying rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15_conserv.csv -> build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:46,085 copying rna_tools/tools/pymol_color_by_conserv/data/cwc15/psiblast_8183496.aln -> build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:46,086 creating build/lib/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:46,086 copying rna_tools/tools/pymol_color_by_conserv/docs/consensus-file.png -> build/lib/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:46,086 copying rna_tools/tools/pymol_color_by_conserv/docs/cwc15.png -> build/lib/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:46,087 copying rna_tools/tools/pymol_color_by_conserv/docs/jalview.png -> build/lib/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:46,087 creating build/lib/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:46,088 copying rna_tools/tools/pymol_preview_generator/pymol_preview_generator.py -> build/lib/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:46,088 copying rna_tools/tools/pymol_preview_generator/pymol_preview_install.py -> build/lib/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:46,089 copying rna_tools/tools/pymol_preview_generator/readme.md -> build/lib/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:46,089 creating build/lib/rna_tools/tools/pymol_preview_generator/bash 2026-02-14T09:49:46,090 creating build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow 2026-02-14T09:49:46,090 creating build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents 2026-02-14T09:49:46,091 copying rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/Info.plist -> build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents 2026-02-14T09:49:46,091 copying rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/document.wflow -> build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents 2026-02-14T09:49:46,092 creating build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:46,092 copying rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook/Thumbnail.png -> build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:46,093 creating build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,093 copying rna_tools/tools/pymol_preview_generator/docs/demo.gif -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,094 copying rna_tools/tools/pymol_preview_generator/docs/demo.png -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,095 copying rna_tools/tools/pymol_preview_generator/docs/linux.png -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,095 copying rna_tools/tools/pymol_preview_generator/docs/popup-ok.png -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,096 copying rna_tools/tools/pymol_preview_generator/docs/popup-progress.png -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,096 copying rna_tools/tools/pymol_preview_generator/docs/preview.png -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,097 copying rna_tools/tools/pymol_preview_generator/docs/preview_2021-10-24_at_11.29.15.png -> build/lib/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:46,097 creating build/lib/rna_tools/tools/pymol_preview_generator/zsh 2026-02-14T09:49:46,098 creating build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow 2026-02-14T09:49:46,098 creating build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents 2026-02-14T09:49:46,099 copying rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/Info.plist -> build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents 2026-02-14T09:49:46,100 copying rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/document.wflow -> build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents 2026-02-14T09:49:46,100 creating build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:46,101 copying rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook/Thumbnail.png -> build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:46,101 creating build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,102 copying rna_tools/tools/rna_binding_affinity/rna_dG2kd.py -> build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,102 copying rna_tools/tools/rna_binding_affinity/rna_kd2dG.py -> build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,103 copying rna_tools/tools/rna_binding_affinity/rna_kd2pkd.py -> build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,104 copying rna_tools/tools/rna_binding_affinity/rna_pkd2dG.py -> build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,106 copying rna_tools/tools/rna_binding_affinity/rna_pkd2kd.py -> build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,108 copying rna_tools/tools/rna_binding_affinity/test.sh -> build/lib/rna_tools/tools/rna_binding_affinity 2026-02-14T09:49:46,110 creating build/lib/rna_tools/tools/rna_calc_gdt 2026-02-14T09:49:46,110 copying rna_tools/tools/rna_calc_gdt/rna_calc_gdt.py -> build/lib/rna_tools/tools/rna_calc_gdt 2026-02-14T09:49:46,113 copying rna_tools/tools/rna_calc_gdt/test.sh -> build/lib/rna_tools/tools/rna_calc_gdt 2026-02-14T09:49:46,115 creating build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,116 copying rna_tools/tools/rna_calc_hbonds/mdanalysis_hbonds.py -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,118 copying rna_tools/tools/rna_calc_hbonds/mdtraj_hbonds.py -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,120 copying rna_tools/tools/rna_calc_hbonds/pymol_list_hbonds.py -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,122 copying rna_tools/tools/rna_calc_hbonds/pytraj_hbond.py -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,124 copying rna_tools/tools/rna_calc_hbonds/readme.md -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,126 copying rna_tools/tools/rna_calc_hbonds/rna_calc_hbonds.py -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,128 copying rna_tools/tools/rna_calc_hbonds/test.sh -> build/lib/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:46,130 creating build/lib/rna_tools/tools/rna_calc_hbonds/docs 2026-02-14T09:49:46,131 copying rna_tools/tools/rna_calc_hbonds/docs/hbonds_pymol.jpg -> build/lib/rna_tools/tools/rna_calc_hbonds/docs 2026-02-14T09:49:46,137 creating build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,138 copying rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA.csv -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,141 copying rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,143 copying rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA_ha.csv -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,145 copying rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA_ha.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,147 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,150 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr.pse -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,153 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,156 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera_onlyBases.csv -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,158 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera_onlyBases.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,160 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addh.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,163 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_bases_only.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,165 copying rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_bases_only_addhpymol.pdb -> build/lib/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:46,167 creating build/lib/rna_tools/tools/rna_get_restraints 2026-02-14T09:49:46,168 copying rna_tools/tools/rna_get_restraints/.gitignore -> build/lib/rna_tools/tools/rna_get_restraints 2026-02-14T09:49:46,170 copying rna_tools/tools/rna_get_restraints/README.md -> build/lib/rna_tools/tools/rna_get_restraints 2026-02-14T09:49:46,172 copying rna_tools/tools/rna_get_restraints/rna_farna_get_restraints_vs_all.py -> build/lib/rna_tools/tools/rna_get_restraints 2026-02-14T09:49:46,174 copying rna_tools/tools/rna_get_restraints/rna_simrna_get_restraints_vs_all.py -> build/lib/rna_tools/tools/rna_get_restraints 2026-02-14T09:49:46,176 copying rna_tools/tools/rna_get_restraints/test.sh -> build/lib/rna_tools/tools/rna_get_restraints 2026-02-14T09:49:46,178 creating build/lib/rna_tools/tools/rna_multimodels 2026-02-14T09:49:46,179 copying rna_tools/tools/rna_multimodels/check.sh -> build/lib/rna_tools/tools/rna_multimodels 2026-02-14T09:49:46,181 copying rna_tools/tools/rna_multimodels/readme.md -> build/lib/rna_tools/tools/rna_multimodels 2026-02-14T09:49:46,183 copying rna_tools/tools/rna_multimodels/rna_pdb_merge_into_one.py -> build/lib/rna_tools/tools/rna_multimodels 2026-02-14T09:49:46,186 copying rna_tools/tools/rna_multimodels/test_util.py -> build/lib/rna_tools/tools/rna_multimodels 2026-02-14T09:49:46,188 creating build/lib/rna_tools/tools/rna_multimodels/data 2026-02-14T09:49:46,189 copying rna_tools/tools/rna_multimodels/data/rp17_n3_ideal.pdb -> build/lib/rna_tools/tools/rna_multimodels/data 2026-02-14T09:49:46,199 copying rna_tools/tools/rna_multimodels/data/seq.fa -> build/lib/rna_tools/tools/rna_multimodels/data 2026-02-14T09:49:46,201 creating build/lib/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:46,202 copying rna_tools/tools/rna_multimodels/test_in/17_Adamiak_1_rpr.pdb -> build/lib/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:46,207 copying rna_tools/tools/rna_multimodels/test_in/17_Bujnicki_1_rpr.pdb -> build/lib/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:46,211 copying rna_tools/tools/rna_multimodels/test_in/17_Chen_1_rpr.pdb -> build/lib/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:46,215 creating build/lib/rna_tools/tools/rna_multimodels/test_out 2026-02-14T09:49:46,216 copying rna_tools/tools/rna_multimodels/test_out/rp17.pdb -> build/lib/rna_tools/tools/rna_multimodels/test_out 2026-02-14T09:49:46,224 creating build/lib/rna_tools/tools/rna_rfam 2026-02-14T09:49:46,225 copying rna_tools/tools/rna_rfam/list.txt -> build/lib/rna_tools/tools/rna_rfam 2026-02-14T09:49:46,229 copying rna_tools/tools/rna_rfam/rna_download_rfam.py -> build/lib/rna_tools/tools/rna_rfam 2026-02-14T09:49:46,231 copying rna_tools/tools/rna_rfam/test.sh -> build/lib/rna_tools/tools/rna_rfam 2026-02-14T09:49:46,233 creating build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,234 copying rna_tools/tools/rna_seq_identity/RF03167.cm -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,237 copying rna_tools/tools/rna_seq_identity/output.sto -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,239 copying rna_tools/tools/rna_seq_identity/pairwase.py -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,241 copying rna_tools/tools/rna_seq_identity/readme.md -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,243 copying rna_tools/tools/rna_seq_identity/seq1.fa -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,245 copying rna_tools/tools/rna_seq_identity/seq12.fa -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,247 copying rna_tools/tools/rna_seq_identity/seq2.fa -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,249 copying rna_tools/tools/rna_seq_identity/test.sh -> build/lib/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:46,251 creating build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6 2026-02-14T09:49:46,252 copying rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/select_seq_fromBLAStn_6outfm.py -> build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6 2026-02-14T09:49:46,254 copying rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test.sh -> build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6 2026-02-14T09:49:46,256 creating build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:46,257 copying rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/db_nt.fasta -> build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:46,259 copying rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/db_nt_out.fasta -> build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:46,261 copying rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/output_55 -> build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:46,263 creating build/lib/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:46,264 copying rna_tools/tools/rnapuzzle_sender/.gitignore -> build/lib/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:46,266 copying rna_tools/tools/rnapuzzle_sender/rnapuzzle_sender.py -> build/lib/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:46,268 copying rna_tools/tools/rnapuzzle_sender/test.sh -> build/lib/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:46,270 creating build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,271 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank1.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,276 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank10.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,280 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank2.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,285 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank3.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,289 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank4.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,294 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank5.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,300 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank6.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,305 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank7.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,310 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank8.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,315 copying rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank9.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:46,320 creating build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:46,320 copying rna_tools/tools/rnapuzzle_sender/test_of_email_content/model1.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:46,327 copying rna_tools/tools/rnapuzzle_sender/test_of_email_content/test.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:46,365 copying rna_tools/tools/rnapuzzle_sender/test_of_email_content/test.txt -> build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:46,452 copying rna_tools/tools/rnapuzzle_sender/test_of_email_content/test02.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:46,476 copying rna_tools/tools/rnapuzzle_sender/test_of_email_content/test3.pdb -> build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:46,499 creating build/lib/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:46,503 copying rna_tools/tools/rnashape2ascii/LICENSE -> build/lib/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:46,514 copying rna_tools/tools/rnashape2ascii/README.md -> build/lib/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:46,528 copying rna_tools/tools/rnashape2ascii/rnashape2ascii.py -> build/lib/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:46,539 copying rna_tools/tools/rnashape2ascii/test.sh -> build/lib/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:46,546 creating build/lib/rna_tools/tools/rnashape2ascii/test_data 2026-02-14T09:49:46,547 copying rna_tools/tools/rnashape2ascii/test_data/RNAPZ12_1M7_0000.rdat -> build/lib/rna_tools/tools/rnashape2ascii/test_data 2026-02-14T09:49:46,550 copying rna_tools/tools/rnashape2ascii/test_data/r1_raw.txt -> build/lib/rna_tools/tools/rnashape2ascii/test_data 2026-02-14T09:49:46,554 creating build/lib/rna_tools/tools/sandbox 2026-02-14T09:49:46,555 creating build/lib/rna_tools/tools/sandbox/rna_compare 2026-02-14T09:49:46,559 copying rna_tools/tools/sandbox/rna_compare/rmsds.csv -> build/lib/rna_tools/tools/sandbox/rna_compare 2026-02-14T09:49:46,564 copying rna_tools/tools/sandbox/rna_compare/rna_compare.py -> build/lib/rna_tools/tools/sandbox/rna_compare 2026-02-14T09:49:46,572 creating build/lib/rna_tools/tools/sandbox/rna_compare/test_data 2026-02-14T09:49:46,575 copying rna_tools/tools/sandbox/rna_compare/test_data/1y26_clean.pdb -> build/lib/rna_tools/tools/sandbox/rna_compare/test_data 2026-02-14T09:49:46,583 copying rna_tools/tools/sandbox/rna_compare/test_data/ade_pk_82a6_100low-000006_AA.pdb -> build/lib/rna_tools/tools/sandbox/rna_compare/test_data 2026-02-14T09:49:46,590 creating build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,592 copying rna_tools/tools/triplexibility/.gitignore -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,601 copying rna_tools/tools/triplexibility/download-all-pdbs.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,610 copying rna_tools/tools/triplexibility/download-all-triples.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,623 copying rna_tools/tools/triplexibility/download-all.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,625 copying rna_tools/tools/triplexibility/lib.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,628 copying rna_tools/tools/triplexibility/process_triple.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,630 copying rna_tools/tools/triplexibility/readme.md -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,632 copying rna_tools/tools/triplexibility/splix.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,635 copying rna_tools/tools/triplexibility/test.sh -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,637 copying rna_tools/tools/triplexibility/test_all.sh -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,639 copying rna_tools/tools/triplexibility/triple-db.csv -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,648 copying rna_tools/tools/triplexibility/triplexibility.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,651 copying rna_tools/tools/triplexibility/triplexibility2.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,653 copying rna_tools/tools/triplexibility/trx-mutget-t1-1.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,655 copying rna_tools/tools/triplexibility/trx-mutget-t1-2.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,657 copying rna_tools/tools/triplexibility/trx.ipynb -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,659 copying rna_tools/tools/triplexibility/trx.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,661 copying rna_tools/tools/triplexibility/trx_analysis.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,663 copying rna_tools/tools/triplexibility/trx_analysis.txt -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,665 copying rna_tools/tools/triplexibility/trx_mutagen.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,667 copying rna_tools/tools/triplexibility/trx_mutagen_allvsall.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,669 copying rna_tools/tools/triplexibility/trx_score.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,671 copying rna_tools/tools/triplexibility/trx_score_allvsall.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,673 copying rna_tools/tools/triplexibility/trx_score_growth.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,675 copying rna_tools/tools/triplexibility/trx_score_onCol.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,677 copying rna_tools/tools/triplexibility/trx_score_onCol_allvsall.py -> build/lib/rna_tools/tools/triplexibility 2026-02-14T09:49:46,680 creating build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,681 copying rna_tools/tools/triplexibility/data/XcWWX.csv -> build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,683 copying rna_tools/tools/triplexibility/data/cWW_cHS_GCU.csv -> build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,684 copying rna_tools/tools/triplexibility/data/db.csv -> build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,686 copying rna_tools/tools/triplexibility/data/db_trx2.csv -> build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,690 copying rna_tools/tools/triplexibility/data/t1-1-Triple_cWW_cHS_GCU_exemplar_rpr_fx.csv -> build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,692 copying rna_tools/tools/triplexibility/data/t1-1-Triple_cWW_cHS_GCU_exemplar_rpr_fx.pdb -> build/lib/rna_tools/tools/triplexibility/data 2026-02-14T09:49:46,694 creating build/lib/rna_tools/tools/triplexibility/db 2026-02-14T09:49:46,695 copying rna_tools/tools/triplexibility/db/gendb.py -> build/lib/rna_tools/tools/triplexibility/db 2026-02-14T09:49:46,697 creating build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,698 copying rna_tools/tools/workflow/README.md -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,700 copying rna_tools/tools/workflow/after_peyote_clean.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,702 copying rna_tools/tools/workflow/automatix.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,705 copying rna_tools/tools/workflow/chunker.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,707 copying rna_tools/tools/workflow/clean.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,709 copying rna_tools/tools/workflow/evox.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,711 copying rna_tools/tools/workflow/inf_all.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,713 copying rna_tools/tools/workflow/mass_inf.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,715 copying rna_tools/tools/workflow/mqaprna_massive_destruction.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,717 copying rna_tools/tools/workflow/mqaprna_run copy.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,739 copying rna_tools/tools/workflow/mqaprna_run.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,764 copying rna_tools/tools/workflow/pdb_list.txt -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,772 copying rna_tools/tools/workflow/rm_csvs_smaller_than_2k.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,776 copying rna_tools/tools/workflow/rm_less_2k.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,778 copying rna_tools/tools/workflow/rna_workflow.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,780 copying rna_tools/tools/workflow/rp13_automatix.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,782 copying rna_tools/tools/workflow/run -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,785 copying rna_tools/tools/workflow/run.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,787 copying rna_tools/tools/workflow/run_1 -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,790 copying rna_tools/tools/workflow/test.sh -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,792 copying rna_tools/tools/workflow/xxdownload_job_and_process.py -> build/lib/rna_tools/tools/workflow 2026-02-14T09:49:46,794 copying rna_tools/tools/rna_calc_rmsd/README.md -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:46,796 copying rna_tools/tools/rna_calc_rmsd/test.sh -> build/lib/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:46,798 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,799 copying rna_tools/tools/rna_calc_rmsd/test_data/21_solution_0_ChainA.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,801 copying rna_tools/tools/rna_calc_rmsd/test_data/21_solution_0_ChainB.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,803 copying rna_tools/tools/rna_calc_rmsd/test_data/21_solution_1_ChainA.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,805 copying rna_tools/tools/rna_calc_rmsd/test_data/21_solution_1_ChainB.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,807 copying rna_tools/tools/rna_calc_rmsd/test_data/21_solution_2.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,809 copying rna_tools/tools/rna_calc_rmsd/test_data/plot.ipynb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,813 copying rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir.tsv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,815 copying rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target.tsv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,817 copying rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target_align.tsv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,820 copying rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target_fit.tsv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,822 copying rna_tools/tools/rna_calc_rmsd/test_data/rna_calc_rmsd_multi_targets_output.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,825 copying rna_tools/tools/rna_calc_rmsd/test_data/struc1.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,834 copying rna_tools/tools/rna_calc_rmsd/test_data/struc2.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,846 copying rna_tools/tools/rna_calc_rmsd/test_data/struc3.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,859 copying rna_tools/tools/rna_calc_rmsd/test_data/struc4.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:46,873 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:46,876 copying rna_tools/tools/rna_calc_rmsd/test_data/crops/3jbv_A.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:46,953 copying rna_tools/tools/rna_calc_rmsd/test_data/crops/3jbv_A_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:47,030 copying rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_250.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:47,048 copying rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_250_3.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:47,066 copying rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_294.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:47,088 copying rna_tools/tools/rna_calc_rmsd/test_data/crops/seqs.fasta -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:47,097 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets 2026-02-14T09:49:47,099 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:47,103 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_3dRNA_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:47,108 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_Adamiak_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:47,115 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_ChenHighLig_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:47,126 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_Das_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:47,142 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:47,147 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_0_ChainA.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:47,166 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_0_ChainB.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:47,174 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_1_ChainA.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:47,184 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_1_ChainB.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:47,198 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_2.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:47,215 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:47,220 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7.aln -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:47,235 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7_solution_0.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:47,260 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7_solution_1.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:47,281 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models 2026-02-14T09:49:47,285 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models/7_Ding_1.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models 2026-02-14T09:49:47,308 copying rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models/7_Major_1.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models 2026-02-14T09:49:47,343 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol 2026-02-14T09:49:47,345 copying rna_tools/tools/rna_calc_rmsd/test_data/pistol/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol 2026-02-14T09:49:47,356 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:47,358 copying rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:47,370 copying rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust01-000001_AA.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:47,379 copying rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust02-000001_AA.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:47,391 copying rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust03-000001_AA.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:47,412 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,418 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/backbone+sugar.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,423 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,425 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_all.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,428 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_bases.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,430 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_c1p.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,433 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_addh_MD_100.pdb_rpr.pdb_fixChains.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,440 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_addh_MD_1_rpr_rchain.pdb_fixChains.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,446 copying rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_onlyTriplex_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:47,450 creating build/lib/rna_tools/tools/rna_calc_rmsd/test_output 2026-02-14T09:49:47,451 copying rna_tools/tools/rna_calc_rmsd/test_output/pistol_rmsd.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_output 2026-02-14T09:49:47,454 copying rna_tools/tools/rna_calc_rmsd/test_output/pistol_rmsd_name-rmsd-column.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/test_output 2026-02-14T09:49:47,457 copying rna_tools/tools/rna_calc_evo_rmsd/evoclust_rmsd.csv -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:47,460 copying rna_tools/tools/rna_calc_evo_rmsd/evoclust_rmsd.png -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:47,463 copying rna_tools/tools/rna_calc_evo_rmsd/output.txt -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:47,467 copying rna_tools/tools/rna_calc_evo_rmsd/readme.md -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:47,470 copying rna_tools/tools/rna_calc_evo_rmsd/test.sh -> build/lib/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:47,472 creating build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,474 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/1ehz_std.pdb -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,482 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/4qk8_cl.pdb -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,493 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/4qlm_cl.pdb -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,503 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/6Y2L_2_std.pdb -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,512 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/aln.sto -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,515 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/aln_nox.sto -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,518 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/mapping.txt -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,521 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/test.sh -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,523 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/trna.sto -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,526 copying rna_tools/tools/rna_calc_evo_rmsd/test_data/trna_no_selector.sto -> build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:47,530 copying rna_tools/tools/rna_alignment/rna_alignment.ipynb -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:47,656 copying rna_tools/tools/rna_alignment/rna_alignment_IA1.ipynb -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:47,665 copying rna_tools/tools/rna_alignment/rna_alignment_IE2.ipynb -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:47,679 copying rna_tools/tools/rna_alignment/test.sh -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:47,681 copying rna_tools/tools/rna_alignment/test_rchie.sh -> build/lib/rna_tools/tools/rna_alignment 2026-02-14T09:49:47,683 creating build/lib/rna_tools/tools/rna_alignment/pngs 2026-02-14T09:49:47,684 copying rna_tools/tools/rna_alignment/pngs/rchie.png -> build/lib/rna_tools/tools/rna_alignment/pngs 2026-02-14T09:49:47,688 copying rna_tools/tools/rna_alignment/pngs/rscape.png -> build/lib/rna_tools/tools/rna_alignment/pngs 2026-02-14T09:49:47,691 creating build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,692 copying rna_tools/tools/rna_alignment/test_data/4lvv.seq -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,694 copying rna_tools/tools/rna_alignment/test_data/4lvv_RF01831_cmalign.txt -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,696 copying rna_tools/tools/rna_alignment/test_data/4lvv_cmalign.txt -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,698 copying rna_tools/tools/rna_alignment/test_data/IA1.gissd.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,703 copying rna_tools/tools/rna_alignment/test_data/IE2.gissd.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,706 copying rna_tools/tools/rna_alignment/test_data/RF00001.blocked.stk -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,713 copying rna_tools/tools/rna_alignment/test_data/RF00002.stockholm.stk -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,716 copying rna_tools/tools/rna_alignment/test_data/RF00167.stockholm.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,719 copying rna_tools/tools/rna_alignment/test_data/RF00379.cm -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,723 copying rna_tools/tools/rna_alignment/test_data/RF00379.stockholm.stk -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,726 copying rna_tools/tools/rna_alignment/test_data/RF01831.cm -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,730 copying rna_tools/tools/rna_alignment/test_data/RF01831.short.stk -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,732 copying rna_tools/tools/rna_alignment/test_data/RF01831.stockholm.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,735 copying rna_tools/tools/rna_alignment/test_data/RF02221.stockholm.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,738 copying rna_tools/tools/rna_alignment/test_data/ade.fa -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,740 copying rna_tools/tools/rna_alignment/test_data/ade_gapped.fa -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,741 copying rna_tools/tools/rna_alignment/test_data/af27.fa -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,743 copying rna_tools/tools/rna_alignment/test_data/aln1.fasta -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,745 copying rna_tools/tools/rna_alignment/test_data/aln1_out.fasta -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,747 copying rna_tools/tools/rna_alignment/test_data/fasta.fasta -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,749 copying rna_tools/tools/rna_alignment/test_data/fasta_out.fasta -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,751 copying rna_tools/tools/rna_alignment/test_data/gmp.csv -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,753 copying rna_tools/tools/rna_alignment/test_data/gmp.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,755 copying rna_tools/tools/rna_alignment/test_data/rfam_hit.txt -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,757 copying rna_tools/tools/rna_alignment/test_data/target.seq -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,759 copying rna_tools/tools/rna_alignment/test_data/u6_isl_rfam.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,763 copying rna_tools/tools/rna_alignment/test_data/xrrna_rfam.sto -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,766 copying rna_tools/tools/rna_alignment/test_data/xx.fa -> build/lib/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:47,768 creating build/lib/rna_tools/tools/rna_alignment/test_data/foldability 2026-02-14T09:49:47,769 copying rna_tools/tools/rna_alignment/test_data/foldability/rp17_foldability.png -> build/lib/rna_tools/tools/rna_alignment/test_data/foldability 2026-02-14T09:49:47,781 creating build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:47,781 copying rna_tools/tools/rna_alignment/test_data/rchie_test_files/bpseq.txt -> build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:47,784 copying rna_tools/tools/rna_alignment/test_data/rchie_test_files/connect.txt -> build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:47,786 copying rna_tools/tools/rna_alignment/test_data/rchie_test_files/fasta.txt -> build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:47,788 copying rna_tools/tools/rna_alignment/test_data/rchie_test_files/helix.txt -> build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:47,790 copying rna_tools/tools/rna_alignment/test_data/rchie_test_files/vienna.txt -> build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:47,792 creating build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,793 copying rna_tools/tools/rna_alignment/test_output/RF00167_subset.sto -> build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,795 copying rna_tools/tools/rna_alignment/test_output/ade_gapped.fa -> build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,797 copying rna_tools/tools/rna_alignment/test_output/mini.sto -> build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,799 copying rna_tools/tools/rna_alignment/test_output/out.sto -> build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,801 copying rna_tools/tools/rna_alignment/test_output/plot.png -> build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,805 copying rna_tools/tools/rna_alignment/test_output/subset.sto -> build/lib/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:47,807 copying rna_tools/tools/mini_moderna3/.coveragerc -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,809 copying rna_tools/tools/mini_moderna3/.gitignore -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,811 copying rna_tools/tools/mini_moderna3/.travis.yml -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,812 copying rna_tools/tools/mini_moderna3/AUTHORS.rst -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,814 copying rna_tools/tools/mini_moderna3/COPYING -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,817 copying rna_tools/tools/mini_moderna3/MANIFEST.in -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,819 copying rna_tools/tools/mini_moderna3/README.md -> build/lib/rna_tools/tools/mini_moderna3 2026-02-14T09:49:47,822 copying rna_tools/tools/pdbs_measure_atom_dists/test.sh -> build/lib/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:47,823 creating build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:47,824 copying rna_tools/tools/pdbs_measure_atom_dists/test_data/ALN_OBJ1_OBJ2.fa -> build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:47,826 copying rna_tools/tools/pdbs_measure_atom_dists/test_data/obj01.pdb -> build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:47,829 copying rna_tools/tools/pdbs_measure_atom_dists/test_data/obj02.pdb -> build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:47,832 copying rna_tools/tools/rna_pdb_merge_structure_with_fragments/README.md -> build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:47,834 creating build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:47,835 copying rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/1xjr_root.pdb -> build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:47,838 copying rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/1xjr_simrna_nstep_1.pdb -> build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:47,842 copying rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/rna_sq_renumber.pdb -> build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:47,846 copying rna_tools/tools/misc/rna_ok -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:47,848 copying rna_tools/tools/misc/test.sh -> build/lib/rna_tools/tools/misc 2026-02-14T09:49:47,850 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/README.md -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:47,852 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test.sh -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:47,854 creating build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:47,855 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel.pdb -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:47,860 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel_out.pdb -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:47,867 copying rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel_select_atoms_out.pdb -> build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:47,872 copying rna_tools/tools/ClashCalc/.gitignore -> build/lib/rna_tools/tools/ClashCalc 2026-02-14T09:49:47,874 copying rna_tools/tools/ClashCalc/README.md -> build/lib/rna_tools/tools/ClashCalc 2026-02-14T09:49:47,876 creating build/lib/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:47,877 copying rna_tools/tools/ClashCalc/test_data/no_clash.pdb -> build/lib/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:47,922 copying rna_tools/tools/ClashCalc/test_data/prot-na_2392.pdb -> build/lib/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:47,940 copying rna_tools/tools/ClashCalc/test_data/super_clash.pdb -> build/lib/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:47,952 copying rna_tools/tools/rna_x3dna/readme.rst -> build/lib/rna_tools/tools/rna_x3dna 2026-02-14T09:49:47,954 copying rna_tools/tools/rna_x3dna/test.sh -> build/lib/rna_tools/tools/rna_x3dna 2026-02-14T09:49:47,956 creating build/lib/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:47,957 copying rna_tools/tools/rna_x3dna/test_data/1xjr.pdb -> build/lib/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:47,961 copying rna_tools/tools/rna_x3dna/test_data/1xjr_output.pdb -> build/lib/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:47,964 copying rna_tools/tools/rna_x3dna/test_data/6TNA.pdb -> build/lib/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:47,970 copying rna_tools/tools/rna_x3dna/test_data/CG.pdb -> build/lib/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:47,972 copying rna_tools/tools/rna_x3dna/test_data/rp2_bujnicki_1_rpr.pdb -> build/lib/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:47,978 copying rna_tools/tools/webserver-engine/.gitignore -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,980 copying rna_tools/tools/webserver-engine/README.md -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,983 copying rna_tools/tools/webserver-engine/ac -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,985 copying rna_tools/tools/webserver-engine/checker.sh -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,987 copying rna_tools/tools/webserver-engine/daemon.sh -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,990 copying rna_tools/tools/webserver-engine/ddev.sh -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,992 copying rna_tools/tools/webserver-engine/install.txt -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,994 copying rna_tools/tools/webserver-engine/notes.md -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,996 copying rna_tools/tools/webserver-engine/runme_dev.sh -> build/lib/rna_tools/tools/webserver-engine 2026-02-14T09:49:47,999 creating build/lib/rna_tools/tools/webserver-engine/admin 2026-02-14T09:49:48,000 creating build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,001 copying rna_tools/tools/webserver-engine/admin/css/base.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,004 copying rna_tools/tools/webserver-engine/admin/css/changelists.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,007 copying rna_tools/tools/webserver-engine/admin/css/dashboard.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,010 copying rna_tools/tools/webserver-engine/admin/css/forms.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,012 copying rna_tools/tools/webserver-engine/admin/css/ie.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,015 copying rna_tools/tools/webserver-engine/admin/css/rtl.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,017 copying rna_tools/tools/webserver-engine/admin/css/widgets.css -> build/lib/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:48,020 creating build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,021 copying rna_tools/tools/webserver-engine/admin/img/changelist-bg.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,024 copying rna_tools/tools/webserver-engine/admin/img/changelist-bg_rtl.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,026 copying rna_tools/tools/webserver-engine/admin/img/chooser-bg.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,029 copying rna_tools/tools/webserver-engine/admin/img/chooser_stacked-bg.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,031 copying rna_tools/tools/webserver-engine/admin/img/default-bg-reverse.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,033 copying rna_tools/tools/webserver-engine/admin/img/default-bg.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,036 copying rna_tools/tools/webserver-engine/admin/img/deleted-overlay.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,038 copying rna_tools/tools/webserver-engine/admin/img/icon-no.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,040 copying rna_tools/tools/webserver-engine/admin/img/icon-unknown.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,043 copying rna_tools/tools/webserver-engine/admin/img/icon-yes.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,045 copying rna_tools/tools/webserver-engine/admin/img/icon_addlink.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,048 copying rna_tools/tools/webserver-engine/admin/img/icon_alert.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,050 copying rna_tools/tools/webserver-engine/admin/img/icon_calendar.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,052 copying rna_tools/tools/webserver-engine/admin/img/icon_changelink.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,055 copying rna_tools/tools/webserver-engine/admin/img/icon_clock.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,057 copying rna_tools/tools/webserver-engine/admin/img/icon_deletelink.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,060 copying rna_tools/tools/webserver-engine/admin/img/icon_error.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,062 copying rna_tools/tools/webserver-engine/admin/img/icon_searchbox.png -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,065 copying rna_tools/tools/webserver-engine/admin/img/icon_success.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,067 copying rna_tools/tools/webserver-engine/admin/img/inline-delete-8bit.png -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,069 copying rna_tools/tools/webserver-engine/admin/img/inline-delete.png -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,072 copying rna_tools/tools/webserver-engine/admin/img/inline-restore-8bit.png -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,075 copying rna_tools/tools/webserver-engine/admin/img/inline-restore.png -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,077 copying rna_tools/tools/webserver-engine/admin/img/inline-splitter-bg.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,079 copying rna_tools/tools/webserver-engine/admin/img/nav-bg-grabber.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,082 copying rna_tools/tools/webserver-engine/admin/img/nav-bg-reverse.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,084 copying rna_tools/tools/webserver-engine/admin/img/nav-bg-selected.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,087 copying rna_tools/tools/webserver-engine/admin/img/nav-bg.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,089 copying rna_tools/tools/webserver-engine/admin/img/selector-icons.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,092 copying rna_tools/tools/webserver-engine/admin/img/selector-search.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,094 copying rna_tools/tools/webserver-engine/admin/img/sorting-icons.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,097 copying rna_tools/tools/webserver-engine/admin/img/tool-left.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,099 copying rna_tools/tools/webserver-engine/admin/img/tool-left_over.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,102 copying rna_tools/tools/webserver-engine/admin/img/tool-right.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,104 copying rna_tools/tools/webserver-engine/admin/img/tool-right_over.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,106 copying rna_tools/tools/webserver-engine/admin/img/tooltag-add.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,109 copying rna_tools/tools/webserver-engine/admin/img/tooltag-add_over.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,111 copying rna_tools/tools/webserver-engine/admin/img/tooltag-arrowright.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,113 copying rna_tools/tools/webserver-engine/admin/img/tooltag-arrowright_over.gif -> build/lib/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:48,115 creating build/lib/rna_tools/tools/webserver-engine/admin/img/gis 2026-02-14T09:49:48,116 copying rna_tools/tools/webserver-engine/admin/img/gis/move_vertex_on.png -> build/lib/rna_tools/tools/webserver-engine/admin/img/gis 2026-02-14T09:49:48,119 creating build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,120 copying rna_tools/tools/webserver-engine/admin/js/LICENSE-JQUERY.txt -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,122 copying rna_tools/tools/webserver-engine/admin/js/SelectBox.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,125 copying rna_tools/tools/webserver-engine/admin/js/SelectFilter2.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,128 copying rna_tools/tools/webserver-engine/admin/js/actions.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,130 copying rna_tools/tools/webserver-engine/admin/js/actions.min.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,132 copying rna_tools/tools/webserver-engine/admin/js/calendar.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,135 copying rna_tools/tools/webserver-engine/admin/js/collapse.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,137 copying rna_tools/tools/webserver-engine/admin/js/collapse.min.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,140 copying rna_tools/tools/webserver-engine/admin/js/compress.py -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,142 copying rna_tools/tools/webserver-engine/admin/js/core.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,145 copying rna_tools/tools/webserver-engine/admin/js/getElementsBySelector.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,148 copying rna_tools/tools/webserver-engine/admin/js/inlines.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,150 copying rna_tools/tools/webserver-engine/admin/js/inlines.min.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,152 copying rna_tools/tools/webserver-engine/admin/js/jquery.init.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,155 copying rna_tools/tools/webserver-engine/admin/js/jquery.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,160 copying rna_tools/tools/webserver-engine/admin/js/jquery.min.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,164 copying rna_tools/tools/webserver-engine/admin/js/prepopulate.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,166 copying rna_tools/tools/webserver-engine/admin/js/prepopulate.min.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,168 copying rna_tools/tools/webserver-engine/admin/js/timeparse.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,171 copying rna_tools/tools/webserver-engine/admin/js/urlify.js -> build/lib/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:48,173 creating build/lib/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:48,174 copying rna_tools/tools/webserver-engine/admin/js/admin/DateTimeShortcuts.js -> build/lib/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:48,177 copying rna_tools/tools/webserver-engine/admin/js/admin/RelatedObjectLookups.js -> build/lib/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:48,179 copying rna_tools/tools/webserver-engine/admin/js/admin/ordering.js -> build/lib/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:48,182 creating build/lib/rna_tools/tools/webserver-engine/docs 2026-02-14T09:49:48,183 copying rna_tools/tools/webserver-engine/docs/admin.png -> build/lib/rna_tools/tools/webserver-engine/docs 2026-02-14T09:49:48,211 copying rna_tools/tools/webserver-engine/docs/demo.png -> build/lib/rna_tools/tools/webserver-engine/docs 2026-02-14T09:49:48,228 copying rna_tools/tools/simrna_trajectory/.gitignore -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:48,230 copying rna_tools/tools/simrna_trajectory/subset.trafl -> build/lib/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:48,243 creating build/lib/rna_tools/tools/simrna_trajectory/test_data 2026-02-14T09:49:48,245 copying rna_tools/tools/simrna_trajectory/test_data/mini.trafl -> build/lib/rna_tools/tools/simrna_trajectory/test_data 2026-02-14T09:49:48,249 copying rna_tools/tools/renum_pdb_to_aln/test.sh -> build/lib/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:48,252 creating build/lib/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:48,253 copying rna_tools/tools/renum_pdb_to_aln/test_data/ALN_OBJ1_OBJ2.fa -> build/lib/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:48,256 copying rna_tools/tools/renum_pdb_to_aln/test_data/obj01.pdb -> build/lib/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:48,259 copying rna_tools/tools/renum_pdb_to_aln/test_data/obj01_out.pdb -> build/lib/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:48,263 copying rna_tools/tools/rna_calc_inf/readme.md -> build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:48,266 copying rna_tools/tools/rna_calc_inf/test.sh -> build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:48,269 copying rna_tools/tools/rna_calc_inf/test_dinf.sh -> build/lib/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:48,271 creating build/lib/rna_tools/tools/rna_calc_inf/doc 2026-02-14T09:49:48,272 copying rna_tools/tools/rna_calc_inf/doc/1y26_dinf.png -> build/lib/rna_tools/tools/rna_calc_inf/doc 2026-02-14T09:49:48,279 copying rna_tools/tools/rna_calc_inf/doc/1y26_dinf2.png -> build/lib/rna_tools/tools/rna_calc_inf/doc 2026-02-14T09:49:48,292 creating build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,293 copying rna_tools/tools/rna_calc_inf/test_data/13_0_solution_4XW7_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,299 copying rna_tools/tools/rna_calc_inf/test_data/13_Bujnicki_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,306 copying rna_tools/tools/rna_calc_inf/test_data/1Y26.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,312 copying rna_tools/tools/rna_calc_inf/test_data/1Y26_dinf -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,315 copying rna_tools/tools/rna_calc_inf/test_data/1Y26_dinf_comparison.txt -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,319 copying rna_tools/tools/rna_calc_inf/test_data/1prot.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,327 copying rna_tools/tools/rna_calc_inf/test_data/1y26X_M451.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,334 copying rna_tools/tools/rna_calc_inf/test_data/1y26X_M451_dinf -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,336 copying rna_tools/tools/rna_calc_inf/test_data/pistol.fa -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,338 copying rna_tools/tools/rna_calc_inf/test_data/pistol_inf_from_SeqSS.csv -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,340 copying rna_tools/tools/rna_calc_inf/test_data/pistol_inf_m1.csv -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,342 copying rna_tools/tools/rna_calc_inf/test_data/pistol_inf_m10.csv -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,343 copying rna_tools/tools/rna_calc_inf/test_data/pistol_inf_selection.csv -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,345 copying rna_tools/tools/rna_calc_inf/test_data/pistol_inf_stacking.csv -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,348 copying rna_tools/tools/rna_calc_inf/test_data/test.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:48,350 creating build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,351 copying rna_tools/tools/rna_calc_inf/test_data/rp13/13_0_solution_4XW7_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,355 copying rna_tools/tools/rna_calc_inf/test_data/rp13/13_0_solution_4XW7_rpr_del46-56.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,359 copying rna_tools/tools/rna_calc_inf/test_data/rp13/13_Adamiak_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,363 copying rna_tools/tools/rna_calc_inf/test_data/rp13/13_Adamiak_1_rpr_del46-56.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,366 copying rna_tools/tools/rna_calc_inf/test_data/rp13/13_Bujnicki_1_rpr.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,371 copying rna_tools/tools/rna_calc_inf/test_data/rp13/13_Bujnicki_1_rpr_del46-56.pdb -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,375 copying rna_tools/tools/rna_calc_inf/test_data/rp13/del.inf -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,377 copying rna_tools/tools/rna_calc_inf/test_data/rp13/inf.csv -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,379 copying rna_tools/tools/rna_calc_inf/test_data/rp13/orignal.inf -> build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:48,381 copying rna_tools/tools/rna_refinement/.gitignore -> build/lib/rna_tools/tools/rna_refinement 2026-02-14T09:49:48,383 copying rna_tools/tools/rna_refinement/test.sh -> build/lib/rna_tools/tools/rna_refinement 2026-02-14T09:49:48,385 creating build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,387 copying rna_tools/tools/rna_refinement/test_data/179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,391 copying rna_tools/tools/rna_refinement/test_data/19_Bujnicki_Human_4_rpr_n0-000001.pdb_thrs0.50A_clust99-000001_AA.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,395 copying rna_tools/tools/rna_refinement/test_data/19_Bujnicki_Human_4_rpr_n0-000001_refx.pdb_thrs0.50A_clust99-000001_AA_refx.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,400 copying rna_tools/tools/rna_refinement/test_data/input.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,403 copying rna_tools/tools/rna_refinement/test_data/input_refx.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,410 copying rna_tools/tools/rna_refinement/test_data/output.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,415 copying rna_tools/tools/rna_refinement/test_data/rp17_179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA._refx.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,420 copying rna_tools/tools/rna_refinement/test_data/rp17_179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA._refx_refx.pdb -> build/lib/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:48,424 copying rna_tools/tools/cluster_load/README.md -> build/lib/rna_tools/tools/cluster_load 2026-02-14T09:49:48,426 copying rna_tools/tools/cluster_load/load -> build/lib/rna_tools/tools/cluster_load 2026-02-14T09:49:48,428 copying rna_tools/tools/rna_convert_pseudoknot_formats/readme.md -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:48,430 copying rna_tools/tools/rna_convert_pseudoknot_formats/test.sh -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:48,432 creating build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/doc 2026-02-14T09:49:48,433 copying rna_tools/tools/rna_convert_pseudoknot_formats/doc/varna_2pk.png -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/doc 2026-02-14T09:49:48,437 creating build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:48,438 copying rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna.ss -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:48,440 copying rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna3.ss -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:48,442 copying rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna_2chains.ss -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:48,444 copying rna_tools/tools/rna_convert_pseudoknot_formats/test_data/ss_with_pk.ss -> build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:48,446 copying rna_tools/tools/rna_filter/.gitignore -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:48,448 copying rna_tools/tools/rna_filter/README.md -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:48,451 copying rna_tools/tools/rna_filter/test.sh -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:48,453 copying rna_tools/tools/rna_filter/test_dca.sh -> build/lib/rna_tools/tools/rna_filter 2026-02-14T09:49:48,456 creating build/lib/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:48,457 copying rna_tools/tools/rna_filter/test_data/CG.pdb -> build/lib/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:48,459 copying rna_tools/tools/rna_filter/test_data/CG.trafl -> build/lib/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:48,462 copying rna_tools/tools/rna_filter/test_data/restraints.txt -> build/lib/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:48,464 copying rna_tools/tools/rna_filter/test_data/rna_filter.txt -> build/lib/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:48,466 copying rna_tools/tools/plotting/test.sh -> build/lib/rna_tools/tools/plotting 2026-02-14T09:49:48,468 creating build/lib/rna_tools/tools/plotting/test_data 2026-02-14T09:49:48,469 copying rna_tools/tools/plotting/test_data/rmsds.csv -> build/lib/rna_tools/tools/plotting/test_data 2026-02-14T09:49:48,472 copying rna_tools/tools/plotting/test_data/rmsds_dens.png -> build/lib/rna_tools/tools/plotting/test_data 2026-02-14T09:49:48,475 copying rna_tools/tools/plotting/test_data/rmsds_hist.png -> build/lib/rna_tools/tools/plotting/test_data 2026-02-14T09:49:48,477 copying rna_tools/tools/md/.gitignore -> build/lib/rna_tools/tools/md 2026-02-14T09:49:48,479 copying rna_tools/tools/md/README.md -> build/lib/rna_tools/tools/md 2026-02-14T09:49:48,482 copying rna_tools/tools/md/out.txt -> build/lib/rna_tools/tools/md 2026-02-14T09:49:48,484 copying rna_tools/tools/md/test.sh -> build/lib/rna_tools/tools/md 2026-02-14T09:49:48,485 creating build/lib/rna_tools/tools/md/data 2026-02-14T09:49:48,486 copying rna_tools/tools/md/data/rnakb_all.txt -> build/lib/rna_tools/tools/md/data 2026-02-14T09:49:48,489 creating build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,490 copying rna_tools/tools/md/test_data/1duq -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,492 copying rna_tools/tools/md/test_data/1duq.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,495 copying rna_tools/tools/md/test_data/1duq_rpr.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,498 copying rna_tools/tools/md/test_data/1msy_output4_01-000001_AA.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,501 copying rna_tools/tools/md/test_data/3nt.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,504 copying rna_tools/tools/md/test_data/3nt_edited.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,506 copying rna_tools/tools/md/test_data/RA5_G.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,508 copying rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,511 copying rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx_rmPO.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,513 copying rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_noC.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,516 copying rna_tools/tools/md/test_data/decoy0165_amb_clx.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,520 copying rna_tools/tools/md/test_data/groups.txt -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,522 copying rna_tools/tools/md/test_data/temp.pdb -> build/lib/rna_tools/tools/md/test_data 2026-02-14T09:49:48,524 creating build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,525 copying rna_tools/tools/md/test_output/1duq_rnakb_ready.pdb -> build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,529 copying rna_tools/tools/md/test_output/1duq_rpr_rnakb_ready.pdb -> build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,532 copying rna_tools/tools/md/test_output/1msy_output4_01-000001_AA_rnakb_ready.pdb -> build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,535 copying rna_tools/tools/md/test_output/3nt_edited_rnakb_ready.pdb -> build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,537 copying rna_tools/tools/md/test_output/RA5_G.pdb -> build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,540 copying rna_tools/tools/md/test_output/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx_rnakb_ready.pdb -> build/lib/rna_tools/tools/md/test_output 2026-02-14T09:49:48,543 copying rna_tools/tools/clarna_app/readme.md -> build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:48,545 copying rna_tools/tools/clarna_app/test.sh -> build/lib/rna_tools/tools/clarna_app 2026-02-14T09:49:48,547 creating build/lib/rna_tools/tools/clarna_app/data 2026-02-14T09:49:48,548 copying rna_tools/tools/clarna_app/data/cl.txt -> build/lib/rna_tools/tools/clarna_app/data 2026-02-14T09:49:48,551 copying rna_tools/tools/clarna_app/data/cl_full.csv -> build/lib/rna_tools/tools/clarna_app/data 2026-02-14T09:49:48,553 copying rna_tools/tools/clarna_app/data/cl_short.csv -> build/lib/rna_tools/tools/clarna_app/data 2026-02-14T09:49:48,555 copying rna_tools/tools/clarna_play/readme.md -> build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:48,557 copying rna_tools/tools/clarna_play/test.sh -> build/lib/rna_tools/tools/clarna_play 2026-02-14T09:49:48,559 creating build/lib/rna_tools/tools/clarna_play/docs 2026-02-14T09:49:48,561 copying rna_tools/tools/clarna_play/docs/clarna_run.png -> build/lib/rna_tools/tools/clarna_play/docs 2026-02-14T09:49:48,564 creating build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,565 copying rna_tools/tools/clarna_play/test_data/1a51_00_A.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,568 copying rna_tools/tools/clarna_play/test_data/1kxk_00_A.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,576 copying rna_tools/tools/clarna_play/test_data/1q9a_00_A.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,579 copying rna_tools/tools/clarna_play/test_data/2a43_00_A.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,582 copying rna_tools/tools/clarna_play/test_data/3e5fA_M15_c.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,588 copying rna_tools/tools/clarna_play/test_data/3e5fA_M500_c.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,592 copying rna_tools/tools/clarna_play/test_data/5k7c.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,602 copying rna_tools/tools/clarna_play/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr_AB.pdb -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,607 copying rna_tools/tools/clarna_play/test_data/ss.fa -> build/lib/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:48,609 creating build/lib/rna_tools/tools/clarna_play/test_output 2026-02-14T09:49:48,610 copying rna_tools/tools/clarna_play/test_output/3e5fA_M15_c.pdb.outCR -> build/lib/rna_tools/tools/clarna_play/test_output 2026-02-14T09:49:48,612 copying rna_tools/tools/clarna_play/test_output/3e5fA_M500_c.pdb.outCR -> build/lib/rna_tools/tools/clarna_play/test_output 2026-02-14T09:49:48,615 creating build/lib/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:48,616 copying rna_tools/tools/clarna_play/tests/1evv_00_A.pdb -> build/lib/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:48,622 copying rna_tools/tools/clarna_play/tests/3e5fA_M15.pdb -> build/lib/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:48,626 copying rna_tools/tools/clarna_play/tests/3e5fA_M500.pdb -> build/lib/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:48,630 copying rna_tools/tools/clanstix/.gitignore -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,632 copying rna_tools/tools/clanstix/LICENSE -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,635 copying rna_tools/tools/clanstix/README.md -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,637 copying rna_tools/tools/clanstix/colors.txt -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,639 copying rna_tools/tools/clanstix/test.sh -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,641 copying rna_tools/tools/clanstix/test2.sh -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,643 copying rna_tools/tools/clanstix/test3.sh -> build/lib/rna_tools/tools/clanstix 2026-02-14T09:49:48,645 creating build/lib/rna_tools/tools/clanstix/doc 2026-02-14T09:49:48,646 copying rna_tools/tools/clanstix/doc/rna_clanstix.png -> build/lib/rna_tools/tools/clanstix/doc 2026-02-14T09:49:48,649 copying rna_tools/tools/clanstix/doc/rp18_clanstix.png -> build/lib/rna_tools/tools/clanstix/doc 2026-02-14T09:49:48,655 copying rna_tools/tools/clanstix/doc/yndSrLTb7l.gif -> build/lib/rna_tools/tools/clanstix/doc 2026-02-14T09:49:48,711 creating build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,712 copying rna_tools/tools/clanstix/test_data/gmp.clans -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,717 copying rna_tools/tools/clanstix/test_data/gmp_color_by_homolog.clans -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,723 copying rna_tools/tools/clanstix/test_data/gmp_color_by_homolog_shape_by_source.clans -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,728 copying rna_tools/tools/clanstix/test_data/gmp_ref_mapping_pk_refX.txt -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,732 copying rna_tools/tools/clanstix/test_data/matrix.txt -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,734 copying rna_tools/tools/clanstix/test_data/rp13_RNAevo_fragments_clans_raw.out -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,749 copying rna_tools/tools/clanstix/test_data/rp18_rmsd.csv -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,752 copying rna_tools/tools/clanstix/test_data/rp18_rmsd.in -> build/lib/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:48,755 creating build/lib/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:48,757 copying rna_tools/tools/clanstix/test_data/rp17_del/clans.input -> build/lib/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:48,765 copying rna_tools/tools/clanstix/test_data/rp17_del/rp17_clans.png -> build/lib/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:48,773 copying rna_tools/tools/clanstix/test_data/rp17_del/rp17_clans_process.png -> build/lib/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:48,901 copying rna_tools/tools/clanstix/test_data/rp17_del/rp17_rmsd.csv -> build/lib/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:48,905 copying rna_tools/tools/clanstix/test_data/rp17_del/run.sh -> build/lib/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:48,908 copying rna_tools/tools/rna_prediction_significance/.gitignore -> build/lib/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:48,910 copying rna_tools/tools/rna_prediction_significance/LICENSE -> build/lib/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:48,913 copying rna_tools/tools/rna_prediction_significance/README.md -> build/lib/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:48,916 creating build/lib/rna_tools/tools/rna_prediction_significance/opt 2026-02-14T09:49:48,917 copying rna_tools/tools/rna_prediction_significance/opt/RNA_PredictionSignificance.cpp -> build/lib/rna_tools/tools/rna_prediction_significance/opt 2026-02-14T09:49:48,919 copying rna_tools/tools/extra_functions/numbering.txt -> build/lib/rna_tools/tools/extra_functions 2026-02-14T09:49:48,922 copying rna_tools/tools/mq/README.md -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:48,924 copying rna_tools/tools/mq/rna_mq_remote.sh -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:48,926 copying rna_tools/tools/mq/test.sh -> build/lib/rna_tools/tools/mq 2026-02-14T09:49:48,929 creating build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,930 copying rna_tools/tools/mq/test/1a9n.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,933 copying rna_tools/tools/mq/test/1msy_output4_01-000001_AA_edited.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,937 copying rna_tools/tools/mq/test/1xjrA.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,942 copying rna_tools/tools/mq/test/1xjrA_M1.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,948 copying rna_tools/tools/mq/test/1xjrA_M500.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,951 copying rna_tools/tools/mq/test/1xjrA_output4_04-000056_AA.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,956 copying rna_tools/tools/mq/test/1y26X_output4_01-000001_AA.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,960 copying rna_tools/tools/mq/test/1zhoH.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,963 copying rna_tools/tools/mq/test/2pcw_1_2chains.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,967 copying rna_tools/tools/mq/test/3e5f_output4_01-000001_AA+ResnShift.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,972 copying rna_tools/tools/mq/test/6TNA.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,979 copying rna_tools/tools/mq/test/all.csv -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,981 copying rna_tools/tools/mq/test/dfire.csv -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,984 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,986 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_2.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,989 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_6.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,992 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChains.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,995 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChainsAB.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:48,998 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChainsOneChain.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:49,000 copying rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_x4chains.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:49,003 copying rna_tools/tools/mq/test/ggg-t1_yCs_5MPS.pdb2-21g-6-61g+80g-rpr.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:49,006 copying rna_tools/tools/mq/test/test.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:49,010 copying rna_tools/tools/mq/test/test2.pdb -> build/lib/rna_tools/tools/mq/test 2026-02-14T09:49:49,013 creating build/lib/rna_tools/tools/mq/tmp 2026-02-14T09:49:49,014 creating build/lib/rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx 2026-02-14T09:49:49,015 copying rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx/configfile.txt -> build/lib/rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx 2026-02-14T09:49:49,017 copying rna_tools/tools/rna_sali2dotbracket/README.MD -> build/lib/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:49:49,019 creating build/lib/rna_tools/tools/rna_sali2dotbracket/test_data 2026-02-14T09:49:49,020 copying rna_tools/tools/rna_sali2dotbracket/test_data/IA1.sali -> build/lib/rna_tools/tools/rna_sali2dotbracket/test_data 2026-02-14T09:49:49,026 copying rna_tools/tools/rna_sali2dotbracket/test_data/IA1_dotbracket.txt -> build/lib/rna_tools/tools/rna_sali2dotbracket/test_data 2026-02-14T09:49:49,033 copying rna_tools/tools/rna_rosetta/.gitignore -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:49,036 copying rna_tools/tools/rna_rosetta/test.sh -> build/lib/rna_tools/tools/rna_rosetta 2026-02-14T09:49:49,038 creating build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,039 copying rna_tools/tools/rna_rosetta/test_data/S_000005_032.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,045 copying rna_tools/tools/rna_rosetta/test_data/S_000020_024.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,052 copying rna_tools/tools/rna_rosetta/test_data/S_000027_058.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,056 copying rna_tools/tools/rna_rosetta/test_data/S_000035_003.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,061 copying rna_tools/tools/rna_rosetta/test_data/a04.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,064 copying rna_tools/tools/rna_rosetta/test_data/a99.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,067 copying rna_tools/tools/rna_rosetta/test_data/ade.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,069 copying rna_tools/tools/rna_rosetta/test_data/selected.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,078 copying rna_tools/tools/rna_rosetta/test_data/selected.out.rand2.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,084 copying rna_tools/tools/rna_rosetta/test_data/selected.out.rand5.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,097 copying rna_tools/tools/rna_rosetta/test_data/silent_sort.out -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,102 copying rna_tools/tools/rna_rosetta/test_data/tetraloop.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:49:49,105 creating build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,106 copying rna_tools/tools/rna_rosetta/test_data/tl/CMDLINES -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,110 copying rna_tools/tools/rna_rosetta/test_data/tl/helix0.fasta -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,113 copying rna_tools/tools/rna_rosetta/test_data/tl/helix0.out -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,136 copying rna_tools/tools/rna_rosetta/test_data/tl/helix0.params -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,139 copying rna_tools/tools/rna_rosetta/test_data/tl/input.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,142 copying rna_tools/tools/rna_rosetta/test_data/tl/qsubMINI -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,145 copying rna_tools/tools/rna_rosetta/test_data/tl/seq.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,148 copying rna_tools/tools/rna_rosetta/test_data/tl/ss.fa -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,152 copying rna_tools/tools/rna_rosetta/test_data/tl/tl.fasta -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,155 copying rna_tools/tools/rna_rosetta/test_data/tl/tl.params -> build/lib/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:49:49,158 copying rna_tools/tools/PyMOL4RNA/README.md -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:49,161 copying rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL-2020.ipynb -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:49,168 copying rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL-2022.ipynb -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:49,178 copying rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.csv -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:49,183 copying rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.ipynb -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:49,194 copying rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.xlsx -> build/lib/rna_tools/tools/PyMOL4RNA 2026-02-14T09:49:49,200 creating build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,201 copying rna_tools/tools/PyMOL4RNA/doc/clarna.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,209 copying rna_tools/tools/PyMOL4RNA/doc/ion.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,218 copying rna_tools/tools/PyMOL4RNA/doc/p.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,227 copying rna_tools/tools/PyMOL4RNA/doc/pdb.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,234 copying rna_tools/tools/PyMOL4RNA/doc/pucker.jpg -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,243 copying rna_tools/tools/PyMOL4RNA/doc/pymol4spliceosome.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,305 copying rna_tools/tools/PyMOL4RNA/doc/rna.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,311 copying rna_tools/tools/PyMOL4RNA/doc/rs.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,316 copying rna_tools/tools/PyMOL4RNA/doc/run.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,366 copying rna_tools/tools/PyMOL4RNA/doc/spl.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,416 copying rna_tools/tools/PyMOL4RNA/doc/ss.png -> build/lib/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:49:49,421 creating build/lib/rna_tools/tools/PyMOL4RNA/test_data 2026-02-14T09:49:49,423 copying rna_tools/tools/PyMOL4RNA/test_data/5k7c_clean.pdb -> build/lib/rna_tools/tools/PyMOL4RNA/test_data 2026-02-14T09:49:49,429 copying rna_tools/tools/rna_helix_vis/README.md -> build/lib/rna_tools/tools/rna_helix_vis 2026-02-14T09:49:49,431 creating build/lib/rna_tools/tools/rna_helix_vis/doc 2026-02-14T09:49:49,432 copying rna_tools/tools/rna_helix_vis/doc/rna_helix_vis.png -> build/lib/rna_tools/tools/rna_helix_vis/doc 2026-02-14T09:49:49,441 creating build/lib/rna_tools/tools/rna_helix_vis/test_data 2026-02-14T09:49:49,443 copying rna_tools/tools/rna_helix_vis/test_data/rp14.ss -> build/lib/rna_tools/tools/rna_helix_vis/test_data 2026-02-14T09:49:49,448 copying rna_tools/tools/rna_helix_vis/test_data/rp14_farna_eloop.out.1.pdb -> build/lib/rna_tools/tools/rna_helix_vis/test_data 2026-02-14T09:49:49,455 copying rna_tools/tools/pdb_formatix/README.md -> build/lib/rna_tools/tools/pdb_formatix 2026-02-14T09:49:49,458 copying rna_tools/tools/pymol_drawing/README.md -> build/lib/rna_tools/tools/pymol_drawing 2026-02-14T09:49:49,460 creating build/lib/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:49:49,461 copying rna_tools/tools/pymol_drawing/docs/draw_circle.png -> build/lib/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:49:49,466 copying rna_tools/tools/pymol_drawing/docs/draw_dist.png -> build/lib/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:49:49,470 copying rna_tools/tools/pymol_drawing/docs/draw_vector.png -> build/lib/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:49:49,473 creating build/lib/rna_tools/tools/pymol_drawing/test_data 2026-02-14T09:49:49,474 copying rna_tools/tools/pymol_drawing/test_data/CG.pdb -> build/lib/rna_tools/tools/pymol_drawing/test_data 2026-02-14T09:49:49,477 copying rna_tools/tools/diffpdb/.gitignore -> build/lib/rna_tools/tools/diffpdb 2026-02-14T09:49:49,479 copying rna_tools/tools/diffpdb/README.md -> build/lib/rna_tools/tools/diffpdb 2026-02-14T09:49:49,481 copying rna_tools/tools/diffpdb/test.sh -> build/lib/rna_tools/tools/diffpdb 2026-02-14T09:49:49,483 creating build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,484 copying rna_tools/tools/diffpdb/doc/atom-variants.png -> build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,486 copying rna_tools/tools/diffpdb/doc/diffpdb_osx_diffmerge.png -> build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,491 copying rna_tools/tools/diffpdb/doc/missing-atoms.png -> build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,496 copying rna_tools/tools/diffpdb/doc/missing-op3.png -> build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,501 copying rna_tools/tools/diffpdb/doc/screenshot.png -> build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,506 copying rna_tools/tools/diffpdb/doc/screenshot2.png -> build/lib/rna_tools/tools/diffpdb/doc 2026-02-14T09:49:49,510 creating build/lib/rna_tools/tools/diffpdb/lib 2026-02-14T09:49:49,511 copying rna_tools/tools/diffpdb/lib/diff2html.py -> build/lib/rna_tools/tools/diffpdb/lib 2026-02-14T09:49:49,514 creating build/lib/rna_tools/tools/diffpdb/output 2026-02-14T09:49:49,515 copying rna_tools/tools/diffpdb/output/2_str1_vs_str2.html -> build/lib/rna_tools/tools/diffpdb/output 2026-02-14T09:49:49,518 creating build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,520 copying rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,524 copying rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb.out -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,527 copying rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr_min.pdb -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,531 copying rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0.pdb -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,535 copying rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0.pdb.out -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,538 copying rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,540 copying rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb.out -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,543 copying rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA.pdb -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,547 copying rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA.pdb.out -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,550 copying rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA_min.pdb -> build/lib/rna_tools/tools/diffpdb/test_data 2026-02-14T09:49:49,554 creating build/lib/rna_tools/tools/diffpdb/test_data/1 2026-02-14T09:49:49,555 copying rna_tools/tools/diffpdb/test_data/1/1kxkA.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/1 2026-02-14T09:49:49,563 copying rna_tools/tools/diffpdb/test_data/1/1kxkA_M1.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/1 2026-02-14T09:49:49,572 creating build/lib/rna_tools/tools/diffpdb/test_data/2 2026-02-14T09:49:49,574 copying rna_tools/tools/diffpdb/test_data/2/str1.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/2 2026-02-14T09:49:49,581 copying rna_tools/tools/diffpdb/test_data/2/str2.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/2 2026-02-14T09:49:49,585 creating build/lib/rna_tools/tools/diffpdb/test_data/3.ident 2026-02-14T09:49:49,586 copying rna_tools/tools/diffpdb/test_data/3.ident/str1.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/3.ident 2026-02-14T09:49:49,588 copying rna_tools/tools/diffpdb/test_data/3.ident/str2.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/3.ident 2026-02-14T09:49:49,590 creating build/lib/rna_tools/tools/diffpdb/test_data/4 2026-02-14T09:49:49,591 copying rna_tools/tools/diffpdb/test_data/4/1duq.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/4 2026-02-14T09:49:49,594 copying rna_tools/tools/diffpdb/test_data/4/1duq_decoy0171_amb_clx.pdb -> build/lib/rna_tools/tools/diffpdb/test_data/4 2026-02-14T09:49:49,598 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/.gitignore -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:49,600 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/LICENSE -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:49,602 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/README.md -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:49,604 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/rmsds.csv -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:49,606 creating build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,607 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/1ypa.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,610 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/3ci2.pdb -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,613 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane.xyz -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,615 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_bond.xyz -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,618 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_mini.xyz -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,620 copying rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_translate.xyz -> build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:49,622 copying rna_tools/tools/rna_alignment/utils/R2R.cpp -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:49,626 copying rna_tools/tools/rna_alignment/utils/R2R.cpp.readme.md -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:49,629 copying rna_tools/tools/rna_alignment/utils/test.sh -> build/lib/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:49,631 creating build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,632 copying rna_tools/tools/rna_alignment/utils/test_data/RF00026_demo.fa -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,634 copying rna_tools/tools/rna_alignment/utils/test_data/mustela.fa -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,636 copying rna_tools/tools/rna_alignment/utils/test_data/mustela_format.fa -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,638 copying rna_tools/tools/rna_alignment/utils/test_data/mutant_list.stk -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,641 copying rna_tools/tools/rna_alignment/utils/test_data/mutant_list.txt -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,643 copying rna_tools/tools/rna_alignment/utils/test_data/pustela.fa -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,645 copying rna_tools/tools/rna_alignment/utils/test_data/u5_rfam_u5only.stk -> build/lib/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:49,647 creating build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,648 copying rna_tools/tools/mini_moderna3/moderna/data/B_DNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,652 copying rna_tools/tools/mini_moderna3/moderna/data/IsostericityMatrices.txt -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,656 copying rna_tools/tools/mini_moderna3/moderna/data/all_atom_names -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,659 copying rna_tools/tools/mini_moderna3/moderna/data/helix.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,665 copying rna_tools/tools/mini_moderna3/moderna/data/modification_names_table -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,668 copying rna_tools/tools/mini_moderna3/moderna/data/modification_topologies.txt -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,671 copying rna_tools/tools/mini_moderna3/moderna/data/modifications -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,673 copying rna_tools/tools/mini_moderna3/moderna/data/pair_fragment.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,676 copying rna_tools/tools/mini_moderna3/moderna/data/phosphate_group.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,678 copying rna_tools/tools/mini_moderna3/moderna/data/rnaDB05_list.txt -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,680 copying rna_tools/tools/mini_moderna3/moderna/data/rnaDB05_list_without_tRNA.txt -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,682 copying rna_tools/tools/mini_moderna3/moderna/data/single_strand.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,685 copying rna_tools/tools/mini_moderna3/moderna/data/suite_clusters.txt -> build/lib/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:49,688 creating build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,689 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/----_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,691 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/Rib_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,694 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/Rib_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,696 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,698 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,701 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,703 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,705 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,707 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,709 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bifa_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,711 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bifa_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,713 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,716 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,718 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,720 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,722 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,724 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,726 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,729 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,731 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,733 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,735 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,738 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,740 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,742 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,744 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,746 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,748 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,751 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,753 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,755 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,757 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,760 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,762 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,764 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSb_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,766 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,768 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,770 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,773 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,775 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,777 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,779 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,781 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,783 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,786 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,788 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,790 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,792 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,794 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,797 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,799 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,801 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,803 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,805 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,808 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,810 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSb_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,812 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,814 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,816 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,818 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,820 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,822 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,824 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,827 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,829 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,831 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,833 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,836 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,838 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,840 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,842 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,844 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,847 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,849 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,851 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,853 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,855 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,858 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,860 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,862 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,864 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,866 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,868 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,871 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,873 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,875 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,877 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,879 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,881 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSb_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,883 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,886 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,888 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,890 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,892 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,894 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,897 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,899 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,901 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,903 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,905 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,908 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,910 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,912 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,914 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,916 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,919 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,921 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,923 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,925 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,927 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,930 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,932 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,934 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,936 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,938 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,941 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,943 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,945 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,947 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,950 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,953 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,956 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,959 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,961 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,964 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,966 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,969 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,972 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,975 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,977 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,980 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,983 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,985 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,988 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,990 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,993 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,995 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:49,998 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,001 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHb_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,003 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHb_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,006 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,009 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,011 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,014 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,017 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,020 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,022 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,025 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,028 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,031 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,033 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,036 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,039 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,042 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSb_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,045 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,047 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,049 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,052 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,054 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,056 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,058 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,060 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,062 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,065 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,067 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,069 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,071 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,074 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,076 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,078 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,080 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,083 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,085 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,087 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,090 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,092 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,094 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,097 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,099 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,101 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,103 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,105 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,107 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,109 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,111 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,114 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,116 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,118 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,120 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,122 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWSa_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,125 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,127 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,129 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,131 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,133 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,136 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,138 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,140 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,142 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,144 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,146 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,149 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,151 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,153 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:50,155 creating build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,156 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,159 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,161 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,163 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,166 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,168 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,170 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,172 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,174 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,177 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,179 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,181 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,183 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,186 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,188 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,190 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,192 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,195 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,197 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,199 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,201 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,203 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,205 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,207 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_CC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,210 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_CU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,212 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_GG.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,214 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_GU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,216 copying rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_UU.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:50,218 creating build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,219 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/1wts_N1C6C5_N6_mm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,221 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,223 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,225 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,227 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_r_P.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,229 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_rp.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,231 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_D.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,234 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,236 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_m5D.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,238 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N3C4_acp.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,240 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N3C4_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,242 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_C7.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,244 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_Y.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,246 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_f.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,248 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,250 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m1Y.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,252 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m1acp3Y.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,254 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m3Y.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,256 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mc.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,258 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mcm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,260 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mcn.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,262 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mh.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,265 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mhc.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,267 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mhcm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,269 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mn.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,271 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mnm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,273 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mnmc.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,276 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mt.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,278 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_oh.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,280 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_om.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,282 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_omc.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,284 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_omcm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,286 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_QtRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,288 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_galQtRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,291 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_gluQtRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,293 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_manQtRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,295 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_oQtRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,297 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_preQ0tRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,299 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_preQ1tRNA.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,301 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C5C7C8_arch.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,303 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C5N7C8_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,305 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C6N7C8_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,307 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_i.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,309 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_mi.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,312 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_o2yW.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,314 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_ohyW.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,316 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_ohyW_star.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,318 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_yW.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,321 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_N2_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,323 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_N2_mm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,325 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_k.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,327 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,329 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_s.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,331 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_se.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,334 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_sm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,336 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_g.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,338 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_hn.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,341 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_i.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,343 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_io.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,345 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,347 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_m_t.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,349 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_mm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,351 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_t.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,353 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_O.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,356 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_ac.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,358 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_ac.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,360 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_m.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,362 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_mm.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,364 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_s.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,366 copying rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/ribose_C.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:50,368 creating build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:50,369 copying rna_tools/tools/mini_moderna3/moderna/data/standard_bases/A.ent -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:50,372 copying rna_tools/tools/mini_moderna3/moderna/data/standard_bases/C.ent -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:50,374 copying rna_tools/tools/mini_moderna3/moderna/data/standard_bases/G.ent -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:50,377 copying rna_tools/tools/mini_moderna3/moderna/data/standard_bases/P_atom.ent -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:50,379 copying rna_tools/tools/mini_moderna3/moderna/data/standard_bases/U.ent -> build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:50,381 creating build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,382 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/SuiteCalculator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,385 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/dihedral_bins.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,387 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,390 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite2.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,393 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite_clusters.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,395 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/suitename.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,398 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_SuiteCalculator.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,401 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_suite.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,403 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_suitename.py -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:50,406 creating build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:50,407 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/1JZC.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:50,410 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/1WTS.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:50,413 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/ah0001Ha.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:50,416 copying rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/arhb90H.pdb -> build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:50,419 creating build/lib/rna_tools/tools/webserver-engine/django_extensions/css 2026-02-14T09:49:50,421 copying rna_tools/tools/webserver-engine/django_extensions/css/jquery.autocomplete.css -> build/lib/rna_tools/tools/webserver-engine/django_extensions/css 2026-02-14T09:49:50,423 creating build/lib/rna_tools/tools/webserver-engine/django_extensions/img 2026-02-14T09:49:50,424 copying rna_tools/tools/webserver-engine/django_extensions/img/indicator.gif -> build/lib/rna_tools/tools/webserver-engine/django_extensions/img 2026-02-14T09:49:50,426 creating build/lib/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:50,427 copying rna_tools/tools/webserver-engine/django_extensions/js/jquery.ajaxQueue.js -> build/lib/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:50,430 copying rna_tools/tools/webserver-engine/django_extensions/js/jquery.autocomplete.js -> build/lib/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:50,433 copying rna_tools/tools/webserver-engine/django_extensions/js/jquery.bgiframe.min.js -> build/lib/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:50,435 copying rna_tools/tools/webserver-engine/django_extensions/js/jquery.js -> build/lib/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:50,439 creating build/lib/rna_tools/tools/webserver-engine/app/static 2026-02-14T09:49:50,440 creating build/lib/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:50,441 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-acknowledgeinput.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:50,444 copying rna_tools/tools/webserver-engine/app/static/app/jsmol.zip -> build/lib/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:50,500 copying rna_tools/tools/webserver-engine/app/static/app/rto.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:50,502 copying rna_tools/tools/webserver-engine/app/static/app/rto.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:50,504 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:50,505 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/README.md -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:50,507 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/extra.html -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:50,510 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/index.html -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:50,514 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/old_index.html -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:50,517 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets 2026-02-14T09:49:50,523 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:50,525 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/bootstrap.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:50,529 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/docs.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:50,537 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font-awesome-ie7.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:50,545 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font-awesome.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:50,548 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:50,549 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/FontAwesome.otf -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:50,552 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.eot -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:50,559 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.svg -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:50,590 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.ttf -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:50,597 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.woff -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:50,603 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,606 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-114-precomposed.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,615 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-144-precomposed.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,619 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-57-precomposed.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,622 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-72-precomposed.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,624 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/favicon.ico -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,626 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/favicon.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:50,629 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img 2026-02-14T09:49:50,630 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img/bs-docs-masthead-pattern.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img 2026-02-14T09:49:50,632 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,633 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/bootstrap.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,636 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/demo.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,639 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/docs.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,641 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-1.8.3.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,645 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-1.9.0.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,650 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-ui-1.10.0.custom.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:50,656 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify 2026-02-14T09:49:50,657 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify/prettify.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify 2026-02-14T09:49:50,659 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify/prettify.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify 2026-02-14T09:49:50,662 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css 2026-02-14T09:49:50,663 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/demo.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css 2026-02-14T09:49:50,665 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:50,666 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery-ui-1.10.0.custom.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:50,670 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery-ui-1.9.2.custom.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:50,673 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery.ui.1.10.0.ie.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:50,675 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery.ui.1.9.2.ie.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:50,677 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,678 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_flat_0_aaaaaa_40x100.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,680 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_55_fbf9ee_1x400.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,683 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_65_ffffff_1x400.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,685 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_dadada_1x400.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,687 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_e6e6e6_1x400.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,689 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_ffffff_1x400.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,691 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_highlight-soft_75_cccccc_1x100.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,694 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_inset-soft_95_fef1ec_1x100.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,696 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_222222_256x240.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,698 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_2e83ff_256x240.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,701 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_454545_256x240.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,703 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_888888_256x240.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,706 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_cd0a0a_256x240.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,708 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_f6cf3b_256x240.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:50,711 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:50,712 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/demo.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:50,715 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/jquery-1.8.3.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:50,723 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/jquery-ui-1.9.2.custom.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:50,738 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party 2026-02-14T09:49:50,739 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker 2026-02-14T09:49:50,743 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/index.html -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker 2026-02-14T09:49:50,750 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css 2026-02-14T09:49:50,753 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css/ui.daterangepicker.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css 2026-02-14T09:49:50,761 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:50,764 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/date.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:50,774 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/daterangepicker.jQuery.compressed.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:50,778 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/daterangepicker.jQuery.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:50,782 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput 2026-02-14T09:49:50,782 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css 2026-02-14T09:49:50,784 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css/enhanced.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css 2026-02-14T09:49:50,787 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:50,788 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-generic.gif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:50,791 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-image.gif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:50,794 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-media.gif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:50,823 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-zip.gif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:50,826 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js 2026-02-14T09:49:50,828 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js/enhance.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js 2026-02-14T09:49:50,831 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js/fileinput.jquery.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js 2026-02-14T09:49:50,834 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:50,835 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.bgiframe-2.1.3-pre.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:50,838 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.mousewheel.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:50,841 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.wijmo-open.1.5.0.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:50,845 copying rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.wijmo-open.1.5.0.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:50,853 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle 2026-02-14T09:49:50,855 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/LICENSE-MIT -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle 2026-02-14T09:49:50,859 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/README.md -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle 2026-02-14T09:49:50,862 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src 2026-02-14T09:49:50,863 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src/bootstrap-filestyle.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src 2026-02-14T09:49:50,867 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src/bootstrap-filestyle.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src 2026-02-14T09:49:50,871 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test 2026-02-14T09:49:50,872 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/index.html -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test 2026-02-14T09:49:50,876 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload.php -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test 2026-02-14T09:49:50,879 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css 2026-02-14T09:49:50,882 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css/bootstrap.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css 2026-02-14T09:49:50,890 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img 2026-02-14T09:49:50,892 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img/glyphicons-halflings-white.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img 2026-02-14T09:49:50,896 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img/glyphicons-halflings.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img 2026-02-14T09:49:50,901 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js 2026-02-14T09:49:50,903 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js/aplication.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js 2026-02-14T09:49:50,906 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js/bootstrap.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js 2026-02-14T09:49:50,910 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload 2026-02-14T09:49:50,912 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload/.folder -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload 2026-02-14T09:49:50,915 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:50,916 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:50,920 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:50,923 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:50,926 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:50,929 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap 2026-02-14T09:49:50,930 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:50,932 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap-responsive.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:50,937 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap-responsive.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:50,940 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:50,951 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:50,963 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img 2026-02-14T09:49:50,964 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/img/glyphicons-halflings-white.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img 2026-02-14T09:49:50,968 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/img/glyphicons-halflings.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img 2026-02-14T09:49:50,971 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:50,972 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/bootstrap.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:50,976 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/bootstrap.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:50,980 copying rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/jquery.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:50,985 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:50,986 copying rna_tools/tools/webserver-engine/app/static/app/demo/1EHZ.cif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:50,995 copying rna_tools/tools/webserver-engine/app/static/app/demo/1EHZ.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,003 copying rna_tools/tools/webserver-engine/app/static/app/demo/1l2x_restraints.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,005 copying rna_tools/tools/webserver-engine/app/static/app/demo/1l2x_rna_clust0.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,008 copying rna_tools/tools/webserver-engine/app/static/app/demo/1xjr.cif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,014 copying rna_tools/tools/webserver-engine/app/static/app/demo/1xjr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,019 copying rna_tools/tools/webserver-engine/app/static/app/demo/21_3dRNA_1_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,023 copying rna_tools/tools/webserver-engine/app/static/app/demo/21_Adamiak_1_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,028 copying rna_tools/tools/webserver-engine/app/static/app/demo/21_ChenHighLig_1_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,032 copying rna_tools/tools/webserver-engine/app/static/app/demo/21_Das_1_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,037 copying rna_tools/tools/webserver-engine/app/static/app/demo/21_solution_2_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,041 copying rna_tools/tools/webserver-engine/app/static/app/demo/2gdi.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,047 copying rna_tools/tools/webserver-engine/app/static/app/demo/2gdi.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,050 copying rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_pred.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,052 copying rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_rnafold.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,055 copying rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_s.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,057 copying rna_tools/tools/webserver-engine/app/static/app/demo/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,062 copying rna_tools/tools/webserver-engine/app/static/app/demo/5k7c_clean_onechain_renumber_as_puzzle_srr_min.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,065 copying rna_tools/tools/webserver-engine/app/static/app/demo/MissingAtomsAdded_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,068 copying rna_tools/tools/webserver-engine/app/static/app/demo/gtp.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,070 copying rna_tools/tools/webserver-engine/app/static/app/demo/missing_op1op2_r43OK.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,073 copying rna_tools/tools/webserver-engine/app/static/app/demo/pistol_thrs0.50A_clust272-000001_AA_min.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,076 copying rna_tools/tools/webserver-engine/app/static/app/demo/rp21.zip -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,080 copying rna_tools/tools/webserver-engine/app/static/app/demo/tRNA.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,082 copying rna_tools/tools/webserver-engine/app/static/app/demo/tRNA_saxs.dat -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,085 copying rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,088 copying rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop_helix.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,092 copying rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop_mdr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,095 copying rna_tools/tools/webserver-engine/app/static/app/demo/to-replace.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,099 copying rna_tools/tools/webserver-engine/app/static/app/demo/triple-ACA.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,104 copying rna_tools/tools/webserver-engine/app/static/app/demo/unmodified_tRNAPhe_restraints.txt -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,108 copying rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_CWC2_C.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,122 copying rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Cwc2_Exon_Intron.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,140 copying rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_C.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,150 copying rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_Intron.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,157 copying rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_Intron_rpr.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,161 copying rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Intron_C.pdb -> build/lib/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:51,164 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/dropzone 2026-02-14T09:49:51,165 copying rna_tools/tools/webserver-engine/app/static/app/dropzone/dropzone.min.css -> build/lib/rna_tools/tools/webserver-engine/app/static/app/dropzone 2026-02-14T09:49:51,168 copying rna_tools/tools/webserver-engine/app/static/app/dropzone/dropzone.min.js -> build/lib/rna_tools/tools/webserver-engine/app/static/app/dropzone 2026-02-14T09:49:51,174 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/help 2026-02-14T09:49:51,176 copying rna_tools/tools/webserver-engine/app/static/app/help/1evv-ss-w11rst2_A.rest -> build/lib/rna_tools/tools/webserver-engine/app/static/app/help 2026-02-14T09:49:51,178 copying rna_tools/tools/webserver-engine/app/static/app/help/submit_seq_w_ss_restraints.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/help 2026-02-14T09:49:51,181 creating build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,182 copying rna_tools/tools/webserver-engine/app/static/app/img/01.jpg -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,186 copying rna_tools/tools/webserver-engine/app/static/app/img/01.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,191 copying rna_tools/tools/webserver-engine/app/static/app/img/01b.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,195 copying rna_tools/tools/webserver-engine/app/static/app/img/01c.jpg -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,199 copying rna_tools/tools/webserver-engine/app/static/app/img/02.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,204 copying rna_tools/tools/webserver-engine/app/static/app/img/02x.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,211 copying rna_tools/tools/webserver-engine/app/static/app/img/03.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,217 copying rna_tools/tools/webserver-engine/app/static/app/img/diffpdb.jpg -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,223 copying rna_tools/tools/webserver-engine/app/static/app/img/folder.gif -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,225 copying rna_tools/tools/webserver-engine/app/static/app/img/qrnas.png -> build/lib/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:51,229 creating build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,230 copying rna_tools/tools/webserver-engine/app/templates/about.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,232 copying rna_tools/tools/webserver-engine/app/templates/analysis.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,234 copying rna_tools/tools/webserver-engine/app/templates/assess.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,237 copying rna_tools/tools/webserver-engine/app/templates/base.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,239 copying rna_tools/tools/webserver-engine/app/templates/calc-inf.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,242 copying rna_tools/tools/webserver-engine/app/templates/calc-rmsd.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,244 copying rna_tools/tools/webserver-engine/app/templates/cat.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,247 copying rna_tools/tools/webserver-engine/app/templates/clarna.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,249 copying rna_tools/tools/webserver-engine/app/templates/contact.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,251 copying rna_tools/tools/webserver-engine/app/templates/delete.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,254 copying rna_tools/tools/webserver-engine/app/templates/diffpdb.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,256 copying rna_tools/tools/webserver-engine/app/templates/dont_exits.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,259 copying rna_tools/tools/webserver-engine/app/templates/edit.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,261 copying rna_tools/tools/webserver-engine/app/templates/errors.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,263 copying rna_tools/tools/webserver-engine/app/templates/extract.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,266 copying rna_tools/tools/webserver-engine/app/templates/h2a.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,268 copying rna_tools/tools/webserver-engine/app/templates/help.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,272 copying rna_tools/tools/webserver-engine/app/templates/home.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,274 copying rna_tools/tools/webserver-engine/app/templates/mdr.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,277 copying rna_tools/tools/webserver-engine/app/templates/min.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,280 copying rna_tools/tools/webserver-engine/app/templates/mutate.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,283 copying rna_tools/tools/webserver-engine/app/templates/notebase.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,286 copying rna_tools/tools/webserver-engine/app/templates/notes.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,289 copying rna_tools/tools/webserver-engine/app/templates/qrnas.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,292 copying rna_tools/tools/webserver-engine/app/templates/rpl.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,296 copying rna_tools/tools/webserver-engine/app/templates/rpr.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,299 copying rna_tools/tools/webserver-engine/app/templates/seq.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,301 copying rna_tools/tools/webserver-engine/app/templates/ss.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,304 copying rna_tools/tools/webserver-engine/app/templates/swap.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,307 copying rna_tools/tools/webserver-engine/app/templates/tocif.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,311 copying rna_tools/tools/webserver-engine/app/templates/tools.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,316 copying rna_tools/tools/webserver-engine/app/templates/topdb.html -> build/lib/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:51,319 creating build/lib/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:51,320 copying rna_tools/tools/webserver-engine/app/templates/archive/progress.html -> build/lib/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:51,326 copying rna_tools/tools/webserver-engine/app/templates/archive/result.html -> build/lib/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:51,329 copying rna_tools/tools/webserver-engine/app/templates/archive/secondary-structure.html -> build/lib/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:51,332 copying rna_tools/tools/webserver-engine/app/templates/archive/sequence-search.html -> build/lib/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:51,334 copying rna_tools/tools/webserver-engine/app/templates/archive/submit.html -> build/lib/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:51,337 copying rna_tools/tools/clarna_play/ClaRNAlib/.gitignore -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:51,340 copying rna_tools/tools/clarna_play/ClaRNAlib/README.md -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:51,342 copying rna_tools/tools/clarna_play/ClaRNAlib/descriptions-dict.json -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:51,345 creating build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,346 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.base-phosphate.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,393 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.base-ribose.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,431 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.bp.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,552 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,565 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other2.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,568 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other3.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,572 copying rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.stacking.json.gz -> build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:51,670 creating build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:51,672 copying rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/ClaRNAwd_output_parser.cpp -> build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:51,676 copying rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/ClaRNAwd_output_parser.h -> build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:51,679 copying rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/Makefile -> build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:51,683 copying rna_tools/tools/mq/RASP/test.sh -> build/lib/rna_tools/tools/mq/RASP 2026-02-14T09:49:51,686 copying rna_tools/tools/mq/FARNA/test.sh -> build/lib/rna_tools/tools/mq/FARNA 2026-02-14T09:49:51,689 creating build/lib/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:51,690 copying rna_tools/tools/mq/FARNA/test_output/1xjrA_rna_mq_collect_FARNA_hires.csv -> build/lib/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:51,694 copying rna_tools/tools/mq/FARNA/test_output/1y26X_output4_01-000001_AA.pdb_rna_mq_collect_FARNA_lores.csv -> build/lib/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:51,698 copying rna_tools/tools/mq/FARNA/test_output/1y26X_output4_01-000001_AA.pdb_rna_mq_farna_lores.csv -> build/lib/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:51,701 copying rna_tools/tools/mq/FARFAR2/test.sh -> build/lib/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:51,705 creating build/lib/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:51,707 copying rna_tools/tools/mq/FARFAR2/test_output/.python-version -> build/lib/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:51,712 copying rna_tools/tools/mq/FARFAR2/test_output/ff2.csv -> build/lib/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:51,716 copying rna_tools/tools/mq/FARFAR2/test_output/ff2_hires.csv -> build/lib/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:51,720 copying rna_tools/tools/mq/FARFAR2/test_output/ff2_hires_rna_mq_collect.csv -> build/lib/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:51,724 copying rna_tools/tools/mq/FARFAR2/test_output/ff2_rna_mq_collect.csv -> build/lib/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:51,727 copying rna_tools/tools/mq/rsRNASP/test.sh -> build/lib/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:51,730 copying rna_tools/tools/mq/RNAkb/test.sh -> build/lib/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:51,734 creating build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,736 copying rna_tools/tools/mq/RNAkb/test_data/1dqf.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,746 copying rna_tools/tools/mq/RNAkb/test_data/1dqf_noCA+ResnShift.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,755 copying rna_tools/tools/mq/RNAkb/test_data/1dqf_noCA.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,764 copying rna_tools/tools/mq/RNAkb/test_data/1duq.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,768 copying rna_tools/tools/mq/RNAkb/test_data/1msy_nt1.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,772 copying rna_tools/tools/mq/RNAkb/test_data/1msy_output4_01-000001_AA.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,777 copying rna_tools/tools/mq/RNAkb/test_data/1ykq.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,782 copying rna_tools/tools/mq/RNAkb/test_data/1z58.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,879 copying rna_tools/tools/mq/RNAkb/test_data/333d.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,883 copying rna_tools/tools/mq/RNAkb/test_data/434d.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,887 copying rna_tools/tools/mq/RNAkb/test_data/C.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,890 copying rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,893 copying rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,896 copying rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,899 copying rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_noC.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,902 copying rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb -> build/lib/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:51,905 copying rna_tools/tools/mq/eSCORE/test.sh -> build/lib/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:51,907 creating build/lib/rna_tools/tools/mq/eSCORE/test 2026-02-14T09:49:51,908 copying rna_tools/tools/mq/eSCORE/test/escore.txt -> build/lib/rna_tools/tools/mq/eSCORE/test 2026-02-14T09:49:51,911 copying rna_tools/tools/mq/ClashScore/test.sh -> build/lib/rna_tools/tools/mq/ClashScore 2026-02-14T09:49:51,913 copying rna_tools/tools/mq/QRNAS/test.sh -> build/lib/rna_tools/tools/mq/QRNAS 2026-02-14T09:49:51,916 copying rna_tools/tools/mq/Dfire/test.output -> build/lib/rna_tools/tools/mq/Dfire 2026-02-14T09:49:51,918 copying rna_tools/tools/mq/Dfire/test.sh -> build/lib/rna_tools/tools/mq/Dfire 2026-02-14T09:49:51,921 copying rna_tools/tools/mq/AnalyzeGeometry/test.sh -> build/lib/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:49:51,924 copying rna_tools/tools/mq/SimRNA/test.sh -> build/lib/rna_tools/tools/mq/SimRNA 2026-02-14T09:49:51,927 creating build/lib/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:49:51,928 copying rna_tools/tools/mq/SimRNA/test/1duq_clx_decoy4_clx.pdb -> build/lib/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:49:51,935 copying rna_tools/tools/mq/SimRNA/test/output.csv -> build/lib/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:49:51,939 copying rna_tools/tools/mq/SimRNA/test/test.py -> build/lib/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:49:51,941 copying rna_tools/tools/mq/RNA3DCNN/test.output -> build/lib/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:49:51,943 copying rna_tools/tools/mq/RNA3DCNN/test.sh -> build/lib/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:49:51,945 copying rna_tools/tools/mq/RASP/test/17_Bujnicki_7_rpr.pdb -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:51,950 copying rna_tools/tools/mq/RASP/test/17_Das_1_rpr.pdb -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:51,954 copying rna_tools/tools/mq/RASP/test/17_Das_4_rpr.pdb -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:51,960 copying rna_tools/tools/mq/RASP/test/mq.csv -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:51,962 copying rna_tools/tools/mq/RASP/test/test.csv -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:51,965 copying rna_tools/tools/mq/RASP/test/test_sorted_rasp_all.csv -> build/lib/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:51,967 copying rna_tools/tools/mq/QRNAS/test/1a9n.pdb -> build/lib/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:49:51,973 copying rna_tools/tools/mq/QRNAS/test/test.output -> build/lib/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:49:51,979 copying rna_tools/tools/mq/QRNAS/test/unmod_Val3_tRNA_model_si.pdb -> build/lib/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:49:51,992 copying rna_tools/tools/mq/lib/wrappers/README.md -> build/lib/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:49:52,001 copying rna_tools/tools/mq/lib/timex/.gitignore -> build/lib/rna_tools/tools/mq/lib/timex 2026-02-14T09:49:52,009 copying rna_tools/tools/mq/lib/timex/LICENSE -> build/lib/rna_tools/tools/mq/lib/timex 2026-02-14T09:49:52,020 copying rna_tools/tools/mq/lib/timex/README.md -> build/lib/rna_tools/tools/mq/lib/timex 2026-02-14T09:49:52,025 copying rna_tools/tools/mq/lib/shellgraphics/LICENSE -> build/lib/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:49:52,028 copying rna_tools/tools/mq/lib/shellgraphics/README.md -> build/lib/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:49:52,030 copying rna_tools/tools/mq/lib/shellgraphics/output.txt -> build/lib/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:49:52,033 copying rna_tools/tools/pdb_formatix/test/1kxkA_rasp.native.pdb -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,038 copying rna_tools/tools/pdb_formatix/test/1xjrA_M1+ter.pdb -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,042 copying rna_tools/tools/pdb_formatix/test/1xjrA_M1.pdb -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,046 copying rna_tools/tools/pdb_formatix/test/protein.pdb -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,049 copying rna_tools/tools/pdb_formatix/test/sample_for_distance.pdb -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,051 copying rna_tools/tools/pdb_formatix/test/test0.in -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,055 copying rna_tools/tools/pdb_formatix/test/test0.out -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,059 copying rna_tools/tools/pdb_formatix/test/test0_3to1.out -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,063 copying rna_tools/tools/pdb_formatix/test/test1.in -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,066 copying rna_tools/tools/pdb_formatix/test/test1.out -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,068 copying rna_tools/tools/pdb_formatix/test/test_nmr.in -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,077 copying rna_tools/tools/pdb_formatix/test/test_nmr.out -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,080 copying rna_tools/tools/pdb_formatix/test/test_nmr_atom.out -> build/lib/rna_tools/tools/pdb_formatix/test 2026-02-14T09:49:52,128 UPDATING build/lib/rna_tools/_version.py 2026-02-14T09:49:52,128 set build/lib/rna_tools/_version.py to '3.27.post.dev3' 2026-02-14T09:49:52,129 running build_scripts 2026-02-14T09:49:52,129 creating build/scripts-3.11 2026-02-14T09:49:52,130 copying and adjusting rna_tools/rna_pdb_tools.py -> build/scripts-3.11 2026-02-14T09:49:52,134 copying and adjusting rna_tools/rna_calc_fenergy.py -> build/scripts-3.11 2026-02-14T09:49:52,136 copying and adjusting rna_tools/rna_pdb_replace.py -> build/scripts-3.11 2026-02-14T09:49:52,137 copying and adjusting rna_tools/rna_standardize.py -> build/scripts-3.11 2026-02-14T09:49:52,139 copying and adjusting rna_tools/rna_pdb_inspect.py -> build/scripts-3.11 2026-02-14T09:49:52,141 copying and adjusting rna_tools/rna_cif2pdb.py -> build/scripts-3.11 2026-02-14T09:49:52,143 copying and adjusting rna_tools/rna_pdb_fetch.py -> build/scripts-3.11 2026-02-14T09:49:52,145 copying and adjusting rna_tools/rna_pdb_fetch_header.py -> build/scripts-3.11 2026-02-14T09:49:52,147 copying and adjusting rna_tools/tools/misc/rna_tools_which.py -> build/scripts-3.11 2026-02-14T09:49:52,148 copying and adjusting rna_tools/tools/misc/rna_tools_demo.py -> build/scripts-3.11 2026-02-14T09:49:52,149 copying and adjusting rna_tools/tools/workflow/rna_workflow.py -> build/scripts-3.11 2026-02-14T09:49:52,151 copying and adjusting rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd.py -> build/scripts-3.11 2026-02-14T09:49:52,153 copying and adjusting rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_all_vs_all.py -> build/scripts-3.11 2026-02-14T09:49:52,155 copying and adjusting rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_biopython.py -> build/scripts-3.11 2026-02-14T09:49:52,159 copying and adjusting rna_tools/tools/rna_calc_rmsd/rna_plot_alignment_bounds.py -> build/scripts-3.11 2026-02-14T09:49:52,161 copying and adjusting rna_tools/rna_torsions.py -> build/scripts-3.11 2026-02-14T09:49:52,163 copying and adjusting rna_tools/tools/diffpdb/diffpdb.py -> build/scripts-3.11 2026-02-14T09:49:52,165 copying and adjusting rna_tools/tools/clanstix/rna_clanstix.py -> build/scripts-3.11 2026-02-14T09:49:52,168 copying and adjusting rna_tools/rna_dot2ct.py -> build/scripts-3.11 2026-02-14T09:49:52,170 copying and adjusting rna_tools/rna_secondary_structure_prediction.py -> build/scripts-3.11 2026-02-14T09:49:52,171 copying and adjusting rna_tools/tools/rna_prediction_significance/rna_prediction_significance.py -> build/scripts-3.11 2026-02-14T09:49:52,172 copying and adjusting rna_tools/tools/rna_multimodels/rna_pdb_merge_into_one.py -> build/scripts-3.11 2026-02-14T09:49:52,174 copying and adjusting rna_tools/tools/rna_calc_inf/rna_calc_inf.py -> build/scripts-3.11 2026-02-14T09:49:52,176 copying and adjusting rna_tools/tools/rna_convert_pseudoknot_formats/rna_pk_simrna_to_one_line.py -> build/scripts-3.11 2026-02-14T09:49:52,177 copying and adjusting rna_tools/tools/clarna_app/rna_clarna_app.py -> build/scripts-3.11 2026-02-14T09:49:52,179 copying and adjusting rna_tools/tools/rna_helix_vis/rna_helix_vis.py -> build/scripts-3.11 2026-02-14T09:49:52,181 copying and adjusting rna_tools/tools/misc/rna_add_chain.py -> build/scripts-3.11 2026-02-14T09:49:52,183 copying and adjusting rna_tools/tools/misc/rna_dict2fasta.py -> build/scripts-3.11 2026-02-14T09:49:52,185 copying and adjusting rna_tools/tools/rna_sali2dotbracket/rna_sali2dotbracket.py -> build/scripts-3.11 2026-02-14T09:49:52,187 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_run.py -> build/scripts-3.11 2026-02-14T09:49:52,189 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_cluster.py -> build/scripts-3.11 2026-02-14T09:49:52,193 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_min.py -> build/scripts-3.11 2026-02-14T09:49:52,196 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_n.py -> build/scripts-3.11 2026-02-14T09:49:52,198 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_silent_file_sort_and_select.py -> build/scripts-3.11 2026-02-14T09:49:52,200 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_extract_lowscore_decoys.py -> build/scripts-3.11 2026-02-14T09:49:52,201 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_check_progress.py -> build/scripts-3.11 2026-02-14T09:49:52,204 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_head.py -> build/scripts-3.11 2026-02-14T09:49:52,206 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_extract.py -> build/scripts-3.11 2026-02-14T09:49:52,209 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_get_score.py -> build/scripts-3.11 2026-02-14T09:49:52,211 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_silent_file_sort_and_select.py -> build/scripts-3.11 2026-02-14T09:49:52,214 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_silent_random.py -> build/scripts-3.11 2026-02-14T09:49:52,217 copying and adjusting rna_tools/tools/rna_rosetta/rna_rosetta_silent_split.py -> build/scripts-3.11 2026-02-14T09:49:52,220 copying and adjusting rna_tools/tools/simrna_trajectory/rna_simrna_lowest.py -> build/scripts-3.11 2026-02-14T09:49:52,223 copying and adjusting rna_tools/tools/simrna_trajectory/rna_simrna_extract.py -> build/scripts-3.11 2026-02-14T09:49:52,225 copying and adjusting rna_tools/tools/simrna_trajectory/rna_simrna_cluster.py -> build/scripts-3.11 2026-02-14T09:49:52,228 copying and adjusting rna_tools/tools/plotting/rna_plot_hist.py -> build/scripts-3.11 2026-02-14T09:49:52,231 copying and adjusting rna_tools/tools/plotting/rna_plot_density.py -> build/scripts-3.11 2026-02-14T09:49:52,234 copying and adjusting rna_tools/tools/plotting/rna_plot_heatmap.py -> build/scripts-3.11 2026-02-14T09:49:52,238 copying and adjusting rna_tools/tools/plotting/rna_plot_dendogram.py -> build/scripts-3.11 2026-02-14T09:49:52,241 copying and adjusting rna_tools/tools/plotting/rna_plot_boxplotlike.py -> build/scripts-3.11 2026-02-14T09:49:52,244 copying and adjusting rna_tools/tools/simrna_trajectory/rna_simrna_lowest.py -> build/scripts-3.11 2026-02-14T09:49:52,247 copying and adjusting rna_tools/tools/simrna_trajectory/rna_simrna_extract.py -> build/scripts-3.11 2026-02-14T09:49:52,251 copying and adjusting rna_tools/tools/simrna_trajectory/rna_simrna_cluster.py -> build/scripts-3.11 2026-02-14T09:49:52,255 copying and adjusting rna_tools/tools/rna_filter/rna_filter.py -> build/scripts-3.11 2026-02-14T09:49:52,261 copying and adjusting rna_tools/tools/rna_filter/rna_ec2x.py -> build/scripts-3.11 2026-02-14T09:49:52,266 copying and adjusting rna_tools/tools/rna_filter/rna_pairs2SimRNArestrs.py -> build/scripts-3.11 2026-02-14T09:49:52,270 copying and adjusting rna_tools/tools/rna_filter/rna_ss_get_bps.py -> build/scripts-3.11 2026-02-14T09:49:52,275 copying and adjusting rna_tools/tools/rna_filter/rna_pairs_diff.py -> build/scripts-3.11 2026-02-14T09:49:52,279 copying and adjusting rna_tools/tools/rna_rfam/rna_download_rfam.py -> build/scripts-3.11 2026-02-14T09:49:52,283 copying and adjusting rna_tools/tools/rna_alignment/rna_align_coverage.py -> build/scripts-3.11 2026-02-14T09:49:52,287 copying and adjusting rna_tools/tools/rna_alignment/rna_align_seq_to_alignment.py -> build/scripts-3.11 2026-02-14T09:49:52,291 copying and adjusting rna_tools/tools/rna_alignment/rna_align_find_core.py -> build/scripts-3.11 2026-02-14T09:49:52,292 copying and adjusting rna_tools/tools/rna_alignment/rna_align_get_ss_from_stk.py -> build/scripts-3.11 2026-02-14T09:49:52,293 copying and adjusting rna_tools/tools/rna_alignment/rna_align_seq_to_alignment.py -> build/scripts-3.11 2026-02-14T09:49:52,295 copying and adjusting rna_tools/tools/rna_alignment/rna_align_fetch_seed.py -> build/scripts-3.11 2026-02-14T09:49:52,296 copying and adjusting rna_tools/tools/rna_alignment/rna_align_fetch_cm.py -> build/scripts-3.11 2026-02-14T09:49:52,298 copying and adjusting rna_tools/tools/rna_alignment/rna_align_sto2csv.py -> build/scripts-3.11 2026-02-14T09:49:52,299 copying and adjusting rna_tools/tools/rna_alignment/utils/rna_alignment_get_species.py -> build/scripts-3.11 2026-02-14T09:49:52,301 copying and adjusting rna_tools/tools/rna_alignment/utils/rna_alignment_process_id.py -> build/scripts-3.11 2026-02-14T09:49:52,303 copying and adjusting rna_tools/tools/rna_alignment/utils/rna_alignment_r2r.py -> build/scripts-3.11 2026-02-14T09:49:52,305 copying and adjusting rna_tools/tools/rna_alignment/rna_align_find_seq_in_alignment.py -> build/scripts-3.11 2026-02-14T09:49:52,306 copying and adjusting rna_tools/tools/rna_alignment/rna_align_foldability.py -> build/scripts-3.11 2026-02-14T09:49:52,308 copying and adjusting rna_tools/tools/rna_pdb_edit_occupancy_bfactor/rna_pdb_edit_occupancy_bfactor.py -> build/scripts-3.11 2026-02-14T09:49:52,310 copying and adjusting rna_tools/tools/rna_refinement/rna_refinement.py -> build/scripts-3.11 2026-02-14T09:49:52,312 copying and adjusting rna_tools/rna_simrnaweb_download_job.py -> build/scripts-3.11 2026-02-14T09:49:52,315 copying and adjusting rna_tools/tools/rna_calc_evo_rmsd/rna_calc_evo_rmsd.py -> build/scripts-3.11 2026-02-14T09:49:52,317 copying and adjusting rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_multi_targets.py -> build/scripts-3.11 2026-02-14T09:49:52,318 copying and adjusting rna_tools/tools/rna_calc_rmsd_trafl/rna_calc_rmsd_trafl.py -> build/scripts-3.11 2026-02-14T09:49:52,320 copying and adjusting rna_tools/tools/rna_calc_rmsd_trafl/rna_cal_rmsd_trafl_plot.py -> build/scripts-3.11 2026-02-14T09:49:52,322 copying and adjusting rna_tools/tools/rna_x3dna/rna_x3dna.py -> build/scripts-3.11 2026-02-14T09:49:52,324 copying and adjusting rna_tools/tools/renum_pdb_to_aln/renum_pdb_to_aln.py -> build/scripts-3.11 2026-02-14T09:49:52,325 copying and adjusting rna_tools/tools/pdbs_measure_atom_dists/pdbs_measure_atom_dists.py -> build/scripts-3.11 2026-02-14T09:49:52,327 copying and adjusting rna_tools/tools/rna_alignment/random_assignment_of_nucleotides.py -> build/scripts-3.11 2026-02-14T09:49:52,329 copying and adjusting rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/select_seq_fromBLAStn_6outfm.py -> build/scripts-3.11 2026-02-14T09:49:52,331 copying and adjusting rna_tools/tools/misc/translate.py -> build/scripts-3.11 2026-02-14T09:49:52,332 copying and adjusting rna_tools/tools/misc/reverse.py -> build/scripts-3.11 2026-02-14T09:49:52,333 copying and adjusting rna_tools/tools/misc/reverse.py -> build/scripts-3.11 2026-02-14T09:49:52,335 copying and adjusting rna_tools/tools/rna_alignment/utils/rna_align_strip_stk.py -> build/scripts-3.11 2026-02-14T09:49:52,336 copying and adjusting rna_tools/tools/pymol_color_by_conserv/pymol_color_by_conserv.py -> build/scripts-3.11 2026-02-14T09:49:52,338 copying and adjusting rna_tools/tools/pymol_preview_generator/pymol_preview_generator.py -> build/scripts-3.11 2026-02-14T09:49:52,339 copying and adjusting rna_tools/tools/pymol_preview_generator/pymol_preview_install.py -> build/scripts-3.11 2026-02-14T09:49:52,341 copying and adjusting rna_tools/tools/rna_binding_affinity/rna_dG2kd.py -> build/scripts-3.11 2026-02-14T09:49:52,342 copying and adjusting rna_tools/tools/rna_binding_affinity/rna_dG2kd.py -> build/scripts-3.11 2026-02-14T09:49:52,344 copying and adjusting rna_tools/tools/rna_binding_affinity/rna_kd2dG.py -> build/scripts-3.11 2026-02-14T09:49:52,345 copying and adjusting rna_tools/tools/rna_binding_affinity/rna_kd2pkd.py -> build/scripts-3.11 2026-02-14T09:49:52,346 copying and adjusting rna_tools/tools/rna_binding_affinity/rna_pkd2dG.py -> build/scripts-3.11 2026-02-14T09:49:52,348 copying and adjusting rna_tools/tools/rna_binding_affinity/rna_pkd2kd.py -> build/scripts-3.11 2026-02-14T09:49:52,349 copying and adjusting rna_tools/tools/clarna_play/rna_clarna_compare.py -> build/scripts-3.11 2026-02-14T09:49:52,352 copying and adjusting rna_tools/tools/clarna_play/rna_clarna_run.py -> build/scripts-3.11 2026-02-14T09:49:52,356 copying and adjusting rna_tools/tools/clarna_play/ClaRNAlib/clarna.py -> build/scripts-3.11 2026-02-14T09:49:52,359 copying and adjusting rna_tools/tools/mq/rna_mq_score.py -> build/scripts-3.11 2026-02-14T09:49:52,361 copying and adjusting rna_tools/tools/mq/rna_mq_collect.py -> build/scripts-3.11 2026-02-14T09:49:52,364 copying and adjusting rna_tools/tools/mq/rna_mq_exp.py -> build/scripts-3.11 2026-02-14T09:49:52,366 copying and adjusting rna_tools/tools/mq/rna_mq_plot.py -> build/scripts-3.11 2026-02-14T09:49:52,367 copying rna_tools/tools/mq/rna_mq_remote.sh -> build/scripts-3.11 2026-02-14T09:49:52,369 copying and adjusting rna_tools/tools/mq/rna_mq_wx_collect.py -> build/scripts-3.11 2026-02-14T09:49:52,371 copying and adjusting rna_tools/tools/mq/RNA3DCNN/rna_mq_rna3dcnn.py -> build/scripts-3.11 2026-02-14T09:49:52,372 copying and adjusting rna_tools/tools/mq/Dfire/rna_mq_dfire.py -> build/scripts-3.11 2026-02-14T09:49:52,374 copying and adjusting rna_tools/tools/mq/ClashScore/rna_mq_clashscore.py -> build/scripts-3.11 2026-02-14T09:49:52,375 copying and adjusting rna_tools/tools/mq/AnalyzeGeometry/rna_mq_analyzegeometry.py -> build/scripts-3.11 2026-02-14T09:49:52,377 copying and adjusting rna_tools/tools/mq/RNAkb/rna_mq_rnakb.py -> build/scripts-3.11 2026-02-14T09:49:52,378 copying and adjusting rna_tools/tools/mq/rsRNASP/rna_mq_rsRNASP.py -> build/scripts-3.11 2026-02-14T09:49:52,380 copying and adjusting rna_tools/tools/mq/eSCORE/rna_mq_eSCORE.py -> build/scripts-3.11 2026-02-14T09:49:52,381 copying and adjusting rna_tools/tools/mq/FARNA/rna_mq_farna.py -> build/scripts-3.11 2026-02-14T09:49:52,383 copying and adjusting rna_tools/tools/mq/FARFAR2/rna_mq_farfar2.py -> build/scripts-3.11 2026-02-14T09:49:52,385 copying and adjusting rna_tools/tools/mq/SimRNA/rna_mq_simrna.py -> build/scripts-3.11 2026-02-14T09:49:52,387 copying and adjusting rna_tools/tools/mq/RASP/rna_mq_rasp.py -> build/scripts-3.11 2026-02-14T09:49:52,388 copying and adjusting rna_tools/tools/md/rna_gromacs_ready.py -> build/scripts-3.11 2026-02-14T09:49:52,389 copying and adjusting rna_tools/tools/md/rna_md.py -> build/scripts-3.11 2026-02-14T09:49:52,391 copying and adjusting rna_tools/tools/md/rna_minimize.py -> build/scripts-3.11 2026-02-14T09:49:52,393 copying and adjusting rna_tools/tools/md/rna_traj_n.py -> build/scripts-3.11 2026-02-14T09:49:52,394 copying and adjusting rna_tools/tools/md/rna_traj_range.py -> build/scripts-3.11 2026-02-14T09:49:52,396 copying and adjusting rna_tools/tools/md/rna_traj_nohetm.py -> build/scripts-3.11 2026-02-14T09:49:52,397 copying and adjusting rna_tools/tools/triplexibility/triplexibility.py -> build/scripts-3.11 2026-02-14T09:49:52,400 copying and adjusting rna_tools/tools/triplexibility/triplexibility2.py -> build/scripts-3.11 2026-02-14T09:49:52,402 copying and adjusting rna_tools/tools/triplexibility/trx_mutagen_allvsall.py -> build/scripts-3.11 2026-02-14T09:49:52,404 copying and adjusting rna_tools/tools/triplexibility/trx_mutagen.py -> build/scripts-3.11 2026-02-14T09:49:52,405 copying and adjusting rna_tools/tools/triplexibility/trx_score_allvsall.py -> build/scripts-3.11 2026-02-14T09:49:52,407 copying and adjusting rna_tools/tools/triplexibility/trx_score.py -> build/scripts-3.11 2026-02-14T09:49:52,409 copying and adjusting rna_tools/tools/triplexibility/trx_score_onCol.py -> build/scripts-3.11 2026-02-14T09:49:52,411 copying and adjusting rna_tools/tools/df/rna_df_csv_sort.py -> build/scripts-3.11 2026-02-14T09:49:52,412 copying and adjusting rna_tools/tools/df/rna_df_concat.py -> build/scripts-3.11 2026-02-14T09:49:52,414 copying and adjusting rna_tools/tools/df/rna_df_merge.py -> build/scripts-3.11 2026-02-14T09:49:52,415 copying and adjusting rna_tools/tools/df/rna_df_merge_on.py -> build/scripts-3.11 2026-02-14T09:49:52,417 copying and adjusting rna_tools/tools/df/rna_df_merge_two.py -> build/scripts-3.11 2026-02-14T09:49:52,419 copying and adjusting rna_tools/tools/misc/rna_ok_mail.py -> build/scripts-3.11 2026-02-14T09:49:52,420 copying rna_tools/tools/misc/rna_ok -> build/scripts-3.11 2026-02-14T09:49:52,422 copying and adjusting rna_tools/tools/misc/rna_test_cuda.py -> build/scripts-3.11 2026-02-14T09:49:52,423 copying and adjusting rna_tools/tools/PyMOL4RNA/rna_draw_edges.py -> build/scripts-3.11 2026-02-14T09:49:52,425 copying and adjusting rna_tools/tools/rna_calc_hbonds/rna_calc_hbonds.py -> build/scripts-3.11 2026-02-14T09:49:52,427 copying and adjusting rna_tools/tools/rna_pdb_merge_structure_with_fragments/rna_pdb_merge_structure_with_fragments.py -> build/scripts-3.11 2026-02-14T09:49:52,429 copying and adjusting rna_tools/tools/clarna_app/rna_clarna2graph.py -> build/scripts-3.11 2026-02-14T09:49:52,430 changing mode of build/scripts-3.11/rna_pdb_tools.py from 644 to 755 2026-02-14T09:49:52,430 changing mode of build/scripts-3.11/rna_calc_fenergy.py from 644 to 755 2026-02-14T09:49:52,431 changing mode of build/scripts-3.11/rna_pdb_replace.py from 644 to 755 2026-02-14T09:49:52,431 changing mode of build/scripts-3.11/rna_standardize.py from 644 to 755 2026-02-14T09:49:52,432 changing mode of build/scripts-3.11/rna_pdb_inspect.py from 644 to 755 2026-02-14T09:49:52,432 changing mode of build/scripts-3.11/rna_cif2pdb.py from 644 to 755 2026-02-14T09:49:52,433 changing mode of build/scripts-3.11/rna_pdb_fetch.py from 644 to 755 2026-02-14T09:49:52,433 changing mode of build/scripts-3.11/rna_pdb_fetch_header.py from 644 to 755 2026-02-14T09:49:52,434 changing mode of build/scripts-3.11/rna_tools_which.py from 644 to 755 2026-02-14T09:49:52,435 changing mode of build/scripts-3.11/rna_tools_demo.py from 644 to 755 2026-02-14T09:49:52,435 changing mode of build/scripts-3.11/rna_workflow.py from 644 to 755 2026-02-14T09:49:52,436 changing mode of build/scripts-3.11/rna_calc_rmsd.py from 644 to 755 2026-02-14T09:49:52,436 changing mode of build/scripts-3.11/rna_calc_rmsd_all_vs_all.py from 644 to 755 2026-02-14T09:49:52,437 changing mode of build/scripts-3.11/rna_calc_rmsd_biopython.py from 644 to 755 2026-02-14T09:49:52,437 changing mode of build/scripts-3.11/rna_plot_alignment_bounds.py from 644 to 755 2026-02-14T09:49:52,438 changing mode of build/scripts-3.11/rna_torsions.py from 644 to 755 2026-02-14T09:49:52,438 changing mode of build/scripts-3.11/diffpdb.py from 644 to 755 2026-02-14T09:49:52,439 changing mode of build/scripts-3.11/rna_clanstix.py from 644 to 755 2026-02-14T09:49:52,439 changing mode of build/scripts-3.11/rna_dot2ct.py from 644 to 755 2026-02-14T09:49:52,439 changing mode of build/scripts-3.11/rna_secondary_structure_prediction.py from 644 to 755 2026-02-14T09:49:52,440 changing mode of build/scripts-3.11/rna_prediction_significance.py from 644 to 755 2026-02-14T09:49:52,440 changing mode of build/scripts-3.11/rna_pdb_merge_into_one.py from 644 to 755 2026-02-14T09:49:52,441 changing mode of build/scripts-3.11/rna_calc_inf.py from 644 to 755 2026-02-14T09:49:52,441 changing mode of build/scripts-3.11/rna_pk_simrna_to_one_line.py from 644 to 755 2026-02-14T09:49:52,441 changing mode of build/scripts-3.11/rna_clarna_app.py from 644 to 755 2026-02-14T09:49:52,442 changing mode of build/scripts-3.11/rna_helix_vis.py from 644 to 755 2026-02-14T09:49:52,442 changing mode of build/scripts-3.11/rna_add_chain.py from 644 to 755 2026-02-14T09:49:52,443 changing mode of build/scripts-3.11/rna_dict2fasta.py from 644 to 755 2026-02-14T09:49:52,443 changing mode of build/scripts-3.11/rna_sali2dotbracket.py from 644 to 755 2026-02-14T09:49:52,444 changing mode of build/scripts-3.11/rna_rosetta_run.py from 644 to 755 2026-02-14T09:49:52,444 changing mode of build/scripts-3.11/rna_rosetta_cluster.py from 644 to 755 2026-02-14T09:49:52,445 changing mode of build/scripts-3.11/rna_rosetta_min.py from 644 to 755 2026-02-14T09:49:52,445 changing mode of build/scripts-3.11/rna_rosetta_n.py from 644 to 755 2026-02-14T09:49:52,446 changing mode of build/scripts-3.11/rna_rosetta_silent_file_sort_and_select.py from 644 to 755 2026-02-14T09:49:52,446 changing mode of build/scripts-3.11/rna_rosetta_extract_lowscore_decoys.py from 644 to 755 2026-02-14T09:49:52,447 changing mode of build/scripts-3.11/rna_rosetta_check_progress.py from 644 to 755 2026-02-14T09:49:52,447 changing mode of build/scripts-3.11/rna_rosetta_head.py from 644 to 755 2026-02-14T09:49:52,448 changing mode of build/scripts-3.11/rna_rosetta_extract.py from 644 to 755 2026-02-14T09:49:52,448 changing mode of build/scripts-3.11/rna_rosetta_get_score.py from 644 to 755 2026-02-14T09:49:52,449 changing mode of build/scripts-3.11/rna_rosetta_silent_random.py from 644 to 755 2026-02-14T09:49:52,449 changing mode of build/scripts-3.11/rna_rosetta_silent_split.py from 644 to 755 2026-02-14T09:49:52,450 changing mode of build/scripts-3.11/rna_simrna_lowest.py from 644 to 755 2026-02-14T09:49:52,450 changing mode of build/scripts-3.11/rna_simrna_extract.py from 644 to 755 2026-02-14T09:49:52,451 changing mode of build/scripts-3.11/rna_simrna_cluster.py from 644 to 755 2026-02-14T09:49:52,451 changing mode of build/scripts-3.11/rna_plot_hist.py from 644 to 755 2026-02-14T09:49:52,452 changing mode of build/scripts-3.11/rna_plot_density.py from 644 to 755 2026-02-14T09:49:52,452 changing mode of build/scripts-3.11/rna_plot_heatmap.py from 644 to 755 2026-02-14T09:49:52,453 changing mode of build/scripts-3.11/rna_plot_dendogram.py from 644 to 755 2026-02-14T09:49:52,453 changing mode of build/scripts-3.11/rna_plot_boxplotlike.py from 644 to 755 2026-02-14T09:49:52,454 changing mode of build/scripts-3.11/rna_filter.py from 644 to 755 2026-02-14T09:49:52,455 changing mode of build/scripts-3.11/rna_ec2x.py from 644 to 755 2026-02-14T09:49:52,456 changing mode of build/scripts-3.11/rna_pairs2SimRNArestrs.py from 644 to 755 2026-02-14T09:49:52,456 changing mode of build/scripts-3.11/rna_ss_get_bps.py from 644 to 755 2026-02-14T09:49:52,457 changing mode of build/scripts-3.11/rna_pairs_diff.py from 644 to 755 2026-02-14T09:49:52,457 changing mode of build/scripts-3.11/rna_download_rfam.py from 644 to 755 2026-02-14T09:49:52,458 changing mode of build/scripts-3.11/rna_align_coverage.py from 644 to 755 2026-02-14T09:49:52,458 changing mode of build/scripts-3.11/rna_align_seq_to_alignment.py from 644 to 755 2026-02-14T09:49:52,459 changing mode of build/scripts-3.11/rna_align_find_core.py from 644 to 755 2026-02-14T09:49:52,459 changing mode of build/scripts-3.11/rna_align_get_ss_from_stk.py from 644 to 755 2026-02-14T09:49:52,459 changing mode of build/scripts-3.11/rna_align_fetch_seed.py from 644 to 755 2026-02-14T09:49:52,460 changing mode of build/scripts-3.11/rna_align_fetch_cm.py from 644 to 755 2026-02-14T09:49:52,460 changing mode of build/scripts-3.11/rna_align_sto2csv.py from 644 to 755 2026-02-14T09:49:52,461 changing mode of build/scripts-3.11/rna_alignment_get_species.py from 644 to 755 2026-02-14T09:49:52,461 changing mode of build/scripts-3.11/rna_alignment_process_id.py from 644 to 755 2026-02-14T09:49:52,462 changing mode of build/scripts-3.11/rna_alignment_r2r.py from 644 to 755 2026-02-14T09:49:52,462 changing mode of build/scripts-3.11/rna_align_find_seq_in_alignment.py from 644 to 755 2026-02-14T09:49:52,462 changing mode of build/scripts-3.11/rna_align_foldability.py from 644 to 755 2026-02-14T09:49:52,463 changing mode of build/scripts-3.11/rna_pdb_edit_occupancy_bfactor.py from 644 to 755 2026-02-14T09:49:52,463 changing mode of build/scripts-3.11/rna_refinement.py from 644 to 755 2026-02-14T09:49:52,464 changing mode of build/scripts-3.11/rna_simrnaweb_download_job.py from 644 to 755 2026-02-14T09:49:52,464 changing mode of build/scripts-3.11/rna_calc_evo_rmsd.py from 644 to 755 2026-02-14T09:49:52,465 changing mode of build/scripts-3.11/rna_calc_rmsd_multi_targets.py from 644 to 755 2026-02-14T09:49:52,465 changing mode of build/scripts-3.11/rna_calc_rmsd_trafl.py from 644 to 755 2026-02-14T09:49:52,466 changing mode of build/scripts-3.11/rna_cal_rmsd_trafl_plot.py from 644 to 755 2026-02-14T09:49:52,466 changing mode of build/scripts-3.11/rna_x3dna.py from 644 to 755 2026-02-14T09:49:52,467 changing mode of build/scripts-3.11/renum_pdb_to_aln.py from 644 to 755 2026-02-14T09:49:52,467 changing mode of build/scripts-3.11/pdbs_measure_atom_dists.py from 644 to 755 2026-02-14T09:49:52,468 changing mode of build/scripts-3.11/random_assignment_of_nucleotides.py from 644 to 755 2026-02-14T09:49:52,468 changing mode of build/scripts-3.11/select_seq_fromBLAStn_6outfm.py from 644 to 755 2026-02-14T09:49:52,469 changing mode of build/scripts-3.11/translate.py from 644 to 755 2026-02-14T09:49:52,469 changing mode of build/scripts-3.11/reverse.py from 644 to 755 2026-02-14T09:49:52,470 changing mode of build/scripts-3.11/rna_align_strip_stk.py from 644 to 755 2026-02-14T09:49:52,470 changing mode of build/scripts-3.11/pymol_color_by_conserv.py from 644 to 755 2026-02-14T09:49:52,471 changing mode of build/scripts-3.11/pymol_preview_generator.py from 644 to 755 2026-02-14T09:49:52,471 changing mode of build/scripts-3.11/pymol_preview_install.py from 644 to 755 2026-02-14T09:49:52,471 changing mode of build/scripts-3.11/rna_dG2kd.py from 644 to 755 2026-02-14T09:49:52,472 changing mode of build/scripts-3.11/rna_kd2dG.py from 644 to 755 2026-02-14T09:49:52,473 changing mode of build/scripts-3.11/rna_kd2pkd.py from 644 to 755 2026-02-14T09:49:52,473 changing mode of build/scripts-3.11/rna_pkd2dG.py from 644 to 755 2026-02-14T09:49:52,474 changing mode of build/scripts-3.11/rna_pkd2kd.py from 644 to 755 2026-02-14T09:49:52,474 changing mode of build/scripts-3.11/rna_clarna_compare.py from 644 to 755 2026-02-14T09:49:52,475 changing mode of build/scripts-3.11/rna_clarna_run.py from 644 to 755 2026-02-14T09:49:52,475 changing mode of build/scripts-3.11/clarna.py from 644 to 755 2026-02-14T09:49:52,476 changing mode of build/scripts-3.11/rna_mq_score.py from 644 to 755 2026-02-14T09:49:52,476 changing mode of build/scripts-3.11/rna_mq_collect.py from 644 to 755 2026-02-14T09:49:52,477 changing mode of build/scripts-3.11/rna_mq_exp.py from 644 to 755 2026-02-14T09:49:52,477 changing mode of build/scripts-3.11/rna_mq_plot.py from 644 to 755 2026-02-14T09:49:52,478 changing mode of build/scripts-3.11/rna_mq_wx_collect.py from 644 to 755 2026-02-14T09:49:52,478 changing mode of build/scripts-3.11/rna_mq_rna3dcnn.py from 644 to 755 2026-02-14T09:49:52,478 changing mode of build/scripts-3.11/rna_mq_dfire.py from 644 to 755 2026-02-14T09:49:52,479 changing mode of build/scripts-3.11/rna_mq_clashscore.py from 644 to 755 2026-02-14T09:49:52,479 changing mode of build/scripts-3.11/rna_mq_analyzegeometry.py from 644 to 755 2026-02-14T09:49:52,480 changing mode of build/scripts-3.11/rna_mq_rnakb.py from 644 to 755 2026-02-14T09:49:52,480 changing mode of build/scripts-3.11/rna_mq_rsRNASP.py from 644 to 755 2026-02-14T09:49:52,481 changing mode of build/scripts-3.11/rna_mq_eSCORE.py from 644 to 755 2026-02-14T09:49:52,481 changing mode of build/scripts-3.11/rna_mq_farna.py from 644 to 755 2026-02-14T09:49:52,482 changing mode of build/scripts-3.11/rna_mq_farfar2.py from 644 to 755 2026-02-14T09:49:52,482 changing mode of build/scripts-3.11/rna_mq_simrna.py from 644 to 755 2026-02-14T09:49:52,482 changing mode of build/scripts-3.11/rna_mq_rasp.py from 644 to 755 2026-02-14T09:49:52,483 changing mode of build/scripts-3.11/rna_gromacs_ready.py from 644 to 755 2026-02-14T09:49:52,483 changing mode of build/scripts-3.11/rna_md.py from 644 to 755 2026-02-14T09:49:52,484 changing mode of build/scripts-3.11/rna_minimize.py from 644 to 755 2026-02-14T09:49:52,485 changing mode of build/scripts-3.11/rna_traj_n.py from 644 to 755 2026-02-14T09:49:52,485 changing mode of build/scripts-3.11/rna_traj_range.py from 644 to 755 2026-02-14T09:49:52,486 changing mode of build/scripts-3.11/rna_traj_nohetm.py from 644 to 755 2026-02-14T09:49:52,486 changing mode of build/scripts-3.11/triplexibility.py from 644 to 755 2026-02-14T09:49:52,487 changing mode of build/scripts-3.11/triplexibility2.py from 644 to 755 2026-02-14T09:49:52,488 changing mode of build/scripts-3.11/trx_mutagen_allvsall.py from 644 to 755 2026-02-14T09:49:52,488 changing mode of build/scripts-3.11/trx_mutagen.py from 644 to 755 2026-02-14T09:49:52,489 changing mode of build/scripts-3.11/trx_score_allvsall.py from 644 to 755 2026-02-14T09:49:52,489 changing mode of build/scripts-3.11/trx_score.py from 644 to 755 2026-02-14T09:49:52,490 changing mode of build/scripts-3.11/trx_score_onCol.py from 644 to 755 2026-02-14T09:49:52,491 changing mode of build/scripts-3.11/rna_df_csv_sort.py from 644 to 755 2026-02-14T09:49:52,491 changing mode of build/scripts-3.11/rna_df_concat.py from 644 to 755 2026-02-14T09:49:52,492 changing mode of build/scripts-3.11/rna_df_merge.py from 644 to 755 2026-02-14T09:49:52,492 changing mode of build/scripts-3.11/rna_df_merge_on.py from 644 to 755 2026-02-14T09:49:52,493 changing mode of build/scripts-3.11/rna_df_merge_two.py from 644 to 755 2026-02-14T09:49:52,493 changing mode of build/scripts-3.11/rna_ok_mail.py from 644 to 755 2026-02-14T09:49:52,494 changing mode of build/scripts-3.11/rna_test_cuda.py from 644 to 755 2026-02-14T09:49:52,495 changing mode of build/scripts-3.11/rna_draw_edges.py from 644 to 755 2026-02-14T09:49:52,495 changing mode of build/scripts-3.11/rna_calc_hbonds.py from 644 to 755 2026-02-14T09:49:52,496 changing mode of build/scripts-3.11/rna_pdb_merge_structure_with_fragments.py from 644 to 755 2026-02-14T09:49:52,496 changing mode of build/scripts-3.11/rna_clarna2graph.py from 644 to 755 2026-02-14T09:49:52,498 installing to build/bdist.linux-armv7l/wheel 2026-02-14T09:49:52,499 running install 2026-02-14T09:49:52,521 running install_lib 2026-02-14T09:49:52,530 creating build/bdist.linux-armv7l 2026-02-14T09:49:52,531 creating build/bdist.linux-armv7l/wheel 2026-02-14T09:49:52,533 creating build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,534 copying build/lib/rna_tools/_version.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,536 copying build/lib/rna_tools/rna_cif2pdb.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,539 copying build/lib/rna_tools/rna_pdb_fetch.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,549 copying build/lib/rna_tools/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,558 copying build/lib/rna_tools/rna_pdb_tools.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,572 copying build/lib/rna_tools/rna_dot2ct.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,582 copying build/lib/rna_tools/rna_torsions.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,592 copying build/lib/rna_tools/rna_tools_config.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,605 creating build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,609 copying build/lib/rna_tools/data/C.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,611 copying build/lib/rna_tools/data/260c8ff6-f24e-4eff-9760-1831407fc770_ALL_thrs5.30A_clust01-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,614 copying build/lib/rna_tools/data/o2prim.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,616 copying build/lib/rna_tools/data/G.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,618 copying build/lib/rna_tools/data/rna_pdb_errors.csv -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,619 copying build/lib/rna_tools/data/pdb_ids.txt -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,621 copying build/lib/rna_tools/data/shape.txt -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,623 copying build/lib/rna_tools/data/ACGU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,625 copying build/lib/rna_tools/data/PO3_inner.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,627 copying build/lib/rna_tools/data/U.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,628 copying build/lib/rna_tools/data/op4.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,630 copying build/lib/rna_tools/data/A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/data 2026-02-14T09:49:52,632 copying build/lib/rna_tools/rchie.png -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,640 copying build/lib/rna_tools/rna_pdb_seq.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,642 copying build/lib/rna_tools/rna_pdb_inspect.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,644 copying build/lib/rna_tools/rna_pdb_fetch_header.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,646 copying build/lib/rna_tools/SecondaryStructure.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,648 copying build/lib/rna_tools/rna_tools_lib.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,652 copying build/lib/rna_tools/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,653 copying build/lib/rna_tools/rna_secondary_structure_prediction.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,655 copying build/lib/rna_tools/rna_tools_test_all.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,657 copying build/lib/rna_tools/rna_pdb_replace.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,659 copying build/lib/rna_tools/rna_simrnaweb_download_job.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,661 copying build/lib/rna_tools/Seq.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:49:52,665 creating build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,666 copying build/lib/rna_tools/tests/test_seq_mcfold.py -> build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,668 copying build/lib/rna_tools/tests/test_eval.py -> build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,669 copying build/lib/rna_tools/tests/test_rna_ss_pred.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,671 copying build/lib/rna_tools/tests/test_seq_mcfold2.py -> build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,672 copying build/lib/rna_tools/tests/test_seq_cyclefold.py -> build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,675 creating build/bdist.linux-armv7l/wheel/rna_tools/tests/test_import_module 2026-02-14T09:49:52,676 copying build/lib/rna_tools/tests/test_import_module/test_import_rna_tools.py -> build/bdist.linux-armv7l/wheel/rna_tools/tests/test_import_module 2026-02-14T09:49:52,677 copying build/lib/rna_tools/tests/test_import_module/rchie.png -> build/bdist.linux-armv7l/wheel/rna_tools/tests/test_import_module 2026-02-14T09:49:52,682 creating build/bdist.linux-armv7l/wheel/rna_tools/tests/test_import_module/test_data 2026-02-14T09:49:52,682 copying build/lib/rna_tools/tests/test_import_module/test_data/RF00167.stockholm.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tests/test_import_module/test_data 2026-02-14T09:49:52,685 copying build/lib/rna_tools/tests/test_rnafold.py -> build/bdist.linux-armv7l/wheel/rna_tools/tests 2026-02-14T09:49:52,687 creating build/bdist.linux-armv7l/wheel/rna_tools/tools 2026-02-14T09:49:52,689 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:52,690 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash 2026-02-14T09:49:52,691 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow 2026-02-14T09:49:52,693 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents 2026-02-14T09:49:52,694 copying build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/Info.plist -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents 2026-02-14T09:49:52,696 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:52,697 copying build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook/Thumbnail.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:52,699 copying build/lib/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/document.wflow -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents 2026-02-14T09:49:52,702 copying build/lib/rna_tools/tools/pymol_preview_generator/pymol_preview_install.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:52,704 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,705 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/preview.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,713 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/demo.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,735 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/popup-ok.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,738 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/linux.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,753 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/preview_2021-10-24_at_11.29.15.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,760 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/demo.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,774 copying build/lib/rna_tools/tools/pymol_preview_generator/docs/popup-progress.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/docs 2026-02-14T09:49:52,777 copying build/lib/rna_tools/tools/pymol_preview_generator/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:52,780 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh 2026-02-14T09:49:52,781 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow 2026-02-14T09:49:52,782 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents 2026-02-14T09:49:52,784 copying build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/Info.plist -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents 2026-02-14T09:49:52,786 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:52,787 copying build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook/Thumbnail.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook 2026-02-14T09:49:52,789 copying build/lib/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/document.wflow -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents 2026-02-14T09:49:52,791 copying build/lib/rna_tools/tools/pymol_preview_generator/pymol_preview_generator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_preview_generator 2026-02-14T09:49:52,793 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,794 copying build/lib/rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,797 copying build/lib/rna_tools/tools/rna_calc_rmsd/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,799 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_output 2026-02-14T09:49:52,800 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_output/pistol_rmsd_name-rmsd-column.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_output 2026-02-14T09:49:52,802 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_output/pistol_rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_output 2026-02-14T09:49:52,804 copying build/lib/rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_biopython.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,809 copying build/lib/rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_multi_targets.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,814 copying build/lib/rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_pymol.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,819 copying build/lib/rna_tools/tools/rna_calc_rmsd/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,821 copying build/lib/rna_tools/tools/rna_calc_rmsd/rna_plot_alignment_bounds.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,823 copying build/lib/rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_all_vs_all.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:52,827 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,828 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/struc1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,834 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/21_solution_0_ChainB.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,839 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/21_solution_2.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,844 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/plot.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,853 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/21_solution_0_ChainA.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,856 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/struc3.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,862 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/struc4.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:52,872 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:52,874 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops/3jbv_A_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:52,938 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_250_3.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:52,948 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops/3jbv_A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:53,048 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_250.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:53,057 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops/seqs.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:53,059 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_294.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/crops 2026-02-14T09:49:53,070 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir.tsv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,072 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target_fit.tsv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,074 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/struc2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,078 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/21_solution_1_ChainA.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,081 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets 2026-02-14T09:49:53,083 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:53,084 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_Adamiak_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:53,088 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:53,089 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:53,095 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_0_ChainB.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:53,102 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_1_ChainA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:53,111 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_1_ChainB.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:53,120 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_0_ChainA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions 2026-02-14T09:49:53,131 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_ChenHighLig_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:53,144 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_Das_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:53,154 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_3dRNA_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21 2026-02-14T09:49:53,167 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:53,170 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7.aln -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:53,178 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7_solution_0.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:53,197 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7_solution_1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7 2026-02-14T09:49:53,207 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models 2026-02-14T09:49:53,208 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models/7_Major_1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models 2026-02-14T09:49:53,219 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models/7_Ding_1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models 2026-02-14T09:49:53,227 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,228 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_c1p.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,230 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_all.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,231 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_onlyTriplex_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,234 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/backbone+sugar.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,236 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_addh_MD_100.pdb_rpr.pdb_fixChains.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,239 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_addh_MD_1_rpr_rchain.pdb_fixChains.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,243 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_bases.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,244 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/ways 2026-02-14T09:49:53,246 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/rna_calc_rmsd_multi_targets_output.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,248 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target_align.tsv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,250 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol 2026-02-14T09:49:53,251 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:53,252 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust03-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:53,257 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:53,261 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust02-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:53,265 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust01-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters 2026-02-14T09:49:53,269 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/pistol/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data/pistol 2026-02-14T09:49:53,274 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target.tsv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,276 copying build/lib/rna_tools/tools/rna_calc_rmsd/test_data/21_solution_1_ChainB.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/test_data 2026-02-14T09:49:53,279 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib 2026-02-14T09:49:53,281 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib 2026-02-14T09:49:53,283 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,285 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,287 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,289 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/rmsds.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,291 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/calculate_rmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,294 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/LICENSE -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,296 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd 2026-02-14T09:49:53,299 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,301 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane.xyz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,303 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_translate.xyz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,305 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/1ypa.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,309 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_mini.xyz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,311 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_bond.xyz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,313 copying build/lib/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/3ci2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples 2026-02-14T09:49:53,317 copying build/lib/rna_tools/tools/rna_calc_rmsd/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd 2026-02-14T09:49:53,321 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels 2026-02-14T09:49:53,322 copying build/lib/rna_tools/tools/rna_multimodels/test_util.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels 2026-02-14T09:49:53,325 copying build/lib/rna_tools/tools/rna_multimodels/rna_pdb_merge_into_one.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels 2026-02-14T09:49:53,327 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/data 2026-02-14T09:49:53,329 copying build/lib/rna_tools/tools/rna_multimodels/data/seq.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/data 2026-02-14T09:49:53,331 copying build/lib/rna_tools/tools/rna_multimodels/data/rp17_n3_ideal.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/data 2026-02-14T09:49:53,346 copying build/lib/rna_tools/tools/rna_multimodels/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels 2026-02-14T09:49:53,348 copying build/lib/rna_tools/tools/rna_multimodels/check.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels 2026-02-14T09:49:53,351 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/test_out 2026-02-14T09:49:53,352 copying build/lib/rna_tools/tools/rna_multimodels/test_out/rp17.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/test_out 2026-02-14T09:49:53,364 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:53,365 copying build/lib/rna_tools/tools/rna_multimodels/test_in/17_Adamiak_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:53,370 copying build/lib/rna_tools/tools/rna_multimodels/test_in/17_Bujnicki_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:53,374 copying build/lib/rna_tools/tools/rna_multimodels/test_in/17_Chen_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_multimodels/test_in 2026-02-14T09:49:53,379 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,380 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/rna_calc_evo_rmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,382 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,384 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/output.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,386 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/evoclust_rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,387 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/evoclust_rmsd.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,390 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/RNAmodel.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,392 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/RNAalignment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,394 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,396 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd 2026-02-14T09:49:53,398 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,399 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/1ehz_std.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,408 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/trna_no_selector.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,413 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/trna.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,418 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/4qk8_cl.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,430 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/4qlm_cl.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,442 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/aln_nox.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,448 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,453 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/mapping.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,458 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/6Y2L_2_std.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,474 copying build/lib/rna_tools/tools/rna_calc_evo_rmsd/test_data/aln.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_evo_rmsd/test_data 2026-02-14T09:49:53,487 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,489 copying build/lib/rna_tools/tools/rna_alignment/rna_align_coverage.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,495 copying build/lib/rna_tools/tools/rna_alignment/rna_align_fetch_seed.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,499 copying build/lib/rna_tools/tools/rna_alignment/rna_align_foldability.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,504 copying build/lib/rna_tools/tools/rna_alignment/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,506 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,507 copying build/lib/rna_tools/tools/rna_alignment/test_output/out.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,509 copying build/lib/rna_tools/tools/rna_alignment/test_output/subset.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,511 copying build/lib/rna_tools/tools/rna_alignment/test_output/RF00167_subset.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,513 copying build/lib/rna_tools/tools/rna_alignment/test_output/plot.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,516 copying build/lib/rna_tools/tools/rna_alignment/test_output/ade_gapped.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,518 copying build/lib/rna_tools/tools/rna_alignment/test_output/mini.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_output 2026-02-14T09:49:53,520 copying build/lib/rna_tools/tools/rna_alignment/rna_alignment_r2r.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,522 copying build/lib/rna_tools/tools/rna_alignment/rna_alignment_IE2.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,533 copying build/lib/rna_tools/tools/rna_alignment/test_rchie.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,534 copying build/lib/rna_tools/tools/rna_alignment/rna_align_fetch_cm.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,536 copying build/lib/rna_tools/tools/rna_alignment/rna_align_find_core.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,538 copying build/lib/rna_tools/tools/rna_alignment/rna_alignment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,541 copying build/lib/rna_tools/tools/rna_alignment/rna_align_get_ss_from_stk.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,543 copying build/lib/rna_tools/tools/rna_alignment/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,545 copying build/lib/rna_tools/tools/rna_alignment/rna_alignment.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,729 copying build/lib/rna_tools/tools/rna_alignment/rna_align_get_ss_from_fasta.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,734 copying build/lib/rna_tools/tools/rna_alignment/rna_align_sto2csv.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,739 copying build/lib/rna_tools/tools/rna_alignment/rna_align_distance_to_seq.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:53,745 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,746 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF02221.stockholm.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,750 copying build/lib/rna_tools/tools/rna_alignment/test_data/4lvv_cmalign.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,754 copying build/lib/rna_tools/tools/rna_alignment/test_data/aln1_out.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,757 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF01831.stockholm.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,763 copying build/lib/rna_tools/tools/rna_alignment/test_data/gmp.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,767 copying build/lib/rna_tools/tools/rna_alignment/test_data/aln1.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,773 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF00167.stockholm.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,778 copying build/lib/rna_tools/tools/rna_alignment/test_data/IA1.gissd.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,791 copying build/lib/rna_tools/tools/rna_alignment/test_data/4lvv_RF01831_cmalign.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,800 copying build/lib/rna_tools/tools/rna_alignment/test_data/4lvv.seq -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,810 copying build/lib/rna_tools/tools/rna_alignment/test_data/af27.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,819 copying build/lib/rna_tools/tools/rna_alignment/test_data/IE2.gissd.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,830 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF01831.cm -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,843 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF00379.cm -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,860 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF01831.short.stk -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,878 copying build/lib/rna_tools/tools/rna_alignment/test_data/xrrna_rfam.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,899 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/foldability 2026-02-14T09:49:53,905 copying build/lib/rna_tools/tools/rna_alignment/test_data/foldability/rp17_foldability.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/foldability 2026-02-14T09:49:53,951 copying build/lib/rna_tools/tools/rna_alignment/test_data/ade.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,958 copying build/lib/rna_tools/tools/rna_alignment/test_data/rfam_hit.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,964 copying build/lib/rna_tools/tools/rna_alignment/test_data/target.seq -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:53,972 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:53,975 copying build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files/connect.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:53,981 copying build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files/fasta.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:53,987 copying build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files/vienna.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:53,992 copying build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files/helix.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:53,995 copying build/lib/rna_tools/tools/rna_alignment/test_data/rchie_test_files/bpseq.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data/rchie_test_files 2026-02-14T09:49:53,998 copying build/lib/rna_tools/tools/rna_alignment/test_data/fasta_out.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,000 copying build/lib/rna_tools/tools/rna_alignment/test_data/ade_gapped.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,003 copying build/lib/rna_tools/tools/rna_alignment/test_data/xx.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,005 copying build/lib/rna_tools/tools/rna_alignment/test_data/gmp.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,006 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF00379.stockholm.stk -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,009 copying build/lib/rna_tools/tools/rna_alignment/test_data/u6_isl_rfam.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,013 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF00002.stockholm.stk -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,015 copying build/lib/rna_tools/tools/rna_alignment/test_data/RF00001.blocked.stk -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,022 copying build/lib/rna_tools/tools/rna_alignment/test_data/fasta.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/test_data 2026-02-14T09:49:54,023 copying build/lib/rna_tools/tools/rna_alignment/test_rna_alignment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:54,026 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/pngs 2026-02-14T09:49:54,027 copying build/lib/rna_tools/tools/rna_alignment/pngs/rchie.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/pngs 2026-02-14T09:49:54,033 copying build/lib/rna_tools/tools/rna_alignment/pngs/rscape.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/pngs 2026-02-14T09:49:54,037 copying build/lib/rna_tools/tools/rna_alignment/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:54,041 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,042 copying build/lib/rna_tools/tools/rna_alignment/utils/mfa-get-seq-for-species.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,046 copying build/lib/rna_tools/tools/rna_alignment/utils/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,048 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_alignment_r2r.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,050 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_align_strip_stk.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,052 copying build/lib/rna_tools/tools/rna_alignment/utils/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,054 copying build/lib/rna_tools/tools/rna_alignment/utils/R2R.cpp -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,058 copying build/lib/rna_tools/tools/rna_alignment/utils/R2R.cpp.readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,061 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_alignment_process_id.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,066 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,067 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/pustela.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,072 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/mutant_list.stk -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,073 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/mutant_list.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,076 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/u5_rfam_u5only.stk -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,078 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/mustela.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,081 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/RF00026_demo.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,084 copying build/lib/rna_tools/tools/rna_alignment/utils/test_data/mustela_format.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils/test_data 2026-02-14T09:49:54,087 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_alignment_merge_by_species.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,091 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_alignment_get_species.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,095 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_alignment_calc_energy.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,100 copying build/lib/rna_tools/tools/rna_alignment/utils/rna_alignment_sto_remove_uniq_ids.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment/utils 2026-02-14T09:49:54,104 copying build/lib/rna_tools/tools/rna_alignment/rna_alignment_IA1.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:54,126 copying build/lib/rna_tools/tools/rna_alignment/random_assignment_of_nucleotides.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:54,135 copying build/lib/rna_tools/tools/rna_alignment/rna_align_seq_to_alignment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:54,142 copying build/lib/rna_tools/tools/rna_alignment/rna_align_find_seq_in_alignment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_alignment 2026-02-14T09:49:54,152 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:54,155 copying build/lib/rna_tools/tools/mini_moderna3/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:54,162 copying build/lib/rna_tools/tools/mini_moderna3/.coveragerc -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:54,168 copying build/lib/rna_tools/tools/mini_moderna3/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:54,173 copying build/lib/rna_tools/tools/mini_moderna3/AUTHORS.rst -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:54,181 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,183 copying build/lib/rna_tools/tools/mini_moderna3/moderna/Renumerator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,191 copying build/lib/rna_tools/tools/mini_moderna3/moderna/_version.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,195 copying build/lib/rna_tools/tools/mini_moderna3/moderna/Helix.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,198 copying build/lib/rna_tools/tools/mini_moderna3/moderna/FragmentInsertion.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,200 copying build/lib/rna_tools/tools/mini_moderna3/moderna/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,204 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,205 copying build/lib/rna_tools/tools/mini_moderna3/moderna/modifications/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,208 copying build/lib/rna_tools/tools/mini_moderna3/moderna/modifications/ModificationAdder.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,210 copying build/lib/rna_tools/tools/mini_moderna3/moderna/modifications/BaseExchanger.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,213 copying build/lib/rna_tools/tools/mini_moderna3/moderna/modifications/ModificationRemover.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,216 copying build/lib/rna_tools/tools/mini_moderna3/moderna/modifications/ModifyResidue.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,218 copying build/lib/rna_tools/tools/mini_moderna3/moderna/modifications/ResidueEditor.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/modifications 2026-02-14T09:49:54,220 copying build/lib/rna_tools/tools/mini_moderna3/moderna/Constants.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,223 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,225 copying build/lib/rna_tools/tools/mini_moderna3/moderna/sequence/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,227 copying build/lib/rna_tools/tools/mini_moderna3/moderna/sequence/commands.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,229 copying build/lib/rna_tools/tools/mini_moderna3/moderna/sequence/ModernaAlphabet.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,232 copying build/lib/rna_tools/tools/mini_moderna3/moderna/sequence/AlignmentMatcher.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,235 copying build/lib/rna_tools/tools/mini_moderna3/moderna/sequence/ModernaSequence.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,238 copying build/lib/rna_tools/tools/mini_moderna3/moderna/sequence/RNAAlignment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/sequence 2026-02-14T09:49:54,241 copying build/lib/rna_tools/tools/mini_moderna3/moderna/PdbConverter.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:54,245 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,246 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/phosphate_group.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,249 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/rnaDB05_list.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,251 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/rnaDB05_list_without_tRNA.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,253 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modifications -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,256 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/IsostericityMatrices.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,260 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_topologies.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,263 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/all_atom_names -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,266 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/B_DNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,273 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/single_strand.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,277 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:54,278 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases/P_atom.ent -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:54,281 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases/G.ent -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:54,283 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases/U.ent -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:54,285 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases/A.ent -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:54,287 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/standard_bases/C.ent -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/standard_bases 2026-02-14T09:49:54,289 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/suite_clusters.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,293 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,294 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mc.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,296 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_preQ0tRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,299 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/1wts_N1C6C5_N6_mm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,301 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m1acp3Y.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,303 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mnmc.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,305 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_ac.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,308 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_se.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,310 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_s.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,312 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_mm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,314 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,317 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_QtRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,319 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_N2_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,321 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mcm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,324 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_omcm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,326 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_ohyW_star.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,328 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_O.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,330 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_galQtRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,332 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_manQtRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,335 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mhcm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,337 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_g.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,340 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_oQtRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,342 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_k.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,345 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/ribose_C.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,348 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,350 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_mm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,353 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mcn.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,356 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_i.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,360 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C5C7C8_arch.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,364 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,368 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_i.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,372 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,376 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mt.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,379 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,383 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_yW.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,387 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_f.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,390 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_om.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,394 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_t.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,399 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_gluQtRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,403 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_preQ1tRNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,408 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_s.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,412 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mhc.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,417 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_io.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,421 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mnm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,425 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,429 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C5N7C8_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,430 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C6N7C8_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,432 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N3C4_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,434 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_rp.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,436 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_omc.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,438 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m3Y.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,439 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_ohyW.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,441 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_sm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,443 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_N2_mm.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,444 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_m5D.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,446 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_C7.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,448 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N3C4_acp.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,450 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_m_t.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,451 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_mi.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,453 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_ac.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,455 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mn.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,457 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_D.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,459 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_r_P.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,461 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,465 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_oh.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,469 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mh.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,472 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_hn.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,475 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_o2yW.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,478 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,483 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m1Y.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,486 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_Y.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/modification_fragments 2026-02-14T09:49:54,488 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/modification_names_table -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,491 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/pair_fragment.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,493 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/helix.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data 2026-02-14T09:49:54,519 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,524 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,532 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,534 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,536 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,538 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/----_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,540 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,542 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,544 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,546 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,550 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,553 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,558 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,562 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,567 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,573 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,578 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,583 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,589 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,594 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,599 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,605 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,611 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,617 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,623 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,629 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,636 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,642 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,649 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,656 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/Rib_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,668 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,679 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,681 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,683 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,685 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,687 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,689 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,690 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,692 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,694 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,695 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,697 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,699 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,701 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,702 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,705 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,707 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,709 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,711 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,713 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,715 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,718 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,720 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,721 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,723 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,725 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,727 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,729 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,731 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,733 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,735 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,736 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,738 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,741 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,741 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,744 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,746 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,749 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,753 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,756 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,759 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,763 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,768 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,773 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,777 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,781 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,786 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,792 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,801 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,803 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,805 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,806 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,808 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,810 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,812 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,814 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,817 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,819 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,821 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,823 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,825 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,827 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking 2026-02-14T09:49:54,829 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,830 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,832 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSb_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,834 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,836 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,838 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,840 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,842 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,844 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,846 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,847 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,849 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,851 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,853 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,855 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,857 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,859 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,861 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,863 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,865 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,867 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bifa_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,869 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,871 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,873 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,875 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,877 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,879 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSb_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,881 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,883 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,886 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,889 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,892 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,895 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,897 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,900 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,903 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,906 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,909 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,913 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,917 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWSa_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,922 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,927 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,932 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,938 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,944 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,950 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,956 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,963 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,969 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,976 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,983 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,991 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:54,998 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,003 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,008 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,014 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,019 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,024 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,029 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,032 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHb_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,035 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,038 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,040 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,042 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,044 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,046 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,048 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,050 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,052 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,053 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,055 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,058 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSb_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,061 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,064 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,066 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,067 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,069 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/Rib_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,071 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,073 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,075 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,077 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,079 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,081 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,083 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,086 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,088 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,091 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,093 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,096 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,098 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,100 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,102 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,106 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,108 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,111 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,113 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,115 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,118 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,120 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,122 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,125 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,127 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,129 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,132 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,134 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,136 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_UC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,139 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,141 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,144 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,146 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,148 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSb_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,151 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,153 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,157 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bifa_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,160 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,162 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,164 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,166 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,169 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,171 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,174 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,176 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,178 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,181 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,183 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,185 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,187 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,189 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,191 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHb_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,192 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,194 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,196 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,200 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,203 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,205 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,206 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,208 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_GG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,210 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,212 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,214 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GU.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,215 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,217 copying build/lib/rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/data/base_pairs 2026-02-14T09:49:55,219 copying build/lib/rna_tools/tools/mini_moderna3/moderna/ModelingRecipe.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,221 copying build/lib/rna_tools/tools/mini_moderna3/moderna/ModernaStructure.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,224 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:55,225 copying build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:55,227 copying build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library/SearchLIR.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:55,230 copying build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library/LIRdb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:55,232 copying build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library/StructureLibrary.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:55,235 copying build/lib/rna_tools/tools/mini_moderna3/moderna/fragment_library/LIR.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/fragment_library 2026-02-14T09:49:55,237 copying build/lib/rna_tools/tools/mini_moderna3/moderna/RNAResidue.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,240 copying build/lib/rna_tools/tools/mini_moderna3/moderna/Renumerator_new.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,242 copying build/lib/rna_tools/tools/mini_moderna3/moderna/ModernaFragment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,245 copying build/lib/rna_tools/tools/mini_moderna3/moderna/Template.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,247 copying build/lib/rna_tools/tools/mini_moderna3/moderna/moderna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,249 copying build/lib/rna_tools/tools/mini_moderna3/moderna/commands.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,253 copying build/lib/rna_tools/tools/mini_moderna3/moderna/CheckPdb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,259 copying build/lib/rna_tools/tools/mini_moderna3/moderna/ModernaSuperimposer.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,262 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:55,263 copying build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:55,265 copying build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric/IsostericityMatrices.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:55,268 copying build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric/Isostericity.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:55,270 copying build/lib/rna_tools/tools/mini_moderna3/moderna/isosteric/IsostericModelling.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/isosteric 2026-02-14T09:49:55,274 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:55,275 copying build/lib/rna_tools/tools/mini_moderna3/moderna/util/validators.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:55,278 copying build/lib/rna_tools/tools/mini_moderna3/moderna/util/decorators.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:55,280 copying build/lib/rna_tools/tools/mini_moderna3/moderna/util/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:55,282 copying build/lib/rna_tools/tools/mini_moderna3/moderna/util/LogFile.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:55,284 copying build/lib/rna_tools/tools/mini_moderna3/moderna/util/Errors.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/util 2026-02-14T09:49:55,287 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,288 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/ChiRotator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,291 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,292 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/Constants.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,295 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/BackboneBuilder.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,297 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/PhosphateBuilder.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,300 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/CoordBuilder.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,302 copying build/lib/rna_tools/tools/mini_moderna3/moderna/builder/FCCDLoopCloser.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/builder 2026-02-14T09:49:55,305 copying build/lib/rna_tools/tools/mini_moderna3/moderna/RNAChain.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,307 copying build/lib/rna_tools/tools/mini_moderna3/moderna/RNAModel.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna 2026-02-14T09:49:55,311 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,312 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/StackingCalculator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,315 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/HBondCalculator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,318 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/MolecularGraph.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,321 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,323 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/Constants.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,325 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/PuckerCalculator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,328 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/RNASuites.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,330 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,332 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite_clusters.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,335 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_suitename.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,337 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_SuiteCalculator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,340 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/dihedral_bins.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,342 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,345 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/SuiteCalculator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,348 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite2.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,351 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:55,352 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/1JZC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:55,356 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/1WTS.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:55,358 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/arhb90H.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:55,363 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/ah0001Ha.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data 2026-02-14T09:49:55,367 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/suitename.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,370 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_suite.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze/suites 2026-02-14T09:49:55,372 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/MolParameters.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,375 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/BasePairCalculator.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,377 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/MolTopologies.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,380 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/GeometryAnalyzer.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,382 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/ClashRecognizer.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,384 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/ChainConnectivity.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,386 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/GeometryStatistics.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,389 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/MolGraphParser.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,393 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/BaseRecognizer.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,397 copying build/lib/rna_tools/tools/mini_moderna3/moderna/analyze/GeometryParameters.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/analyze 2026-02-14T09:49:55,401 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/examples 2026-02-14T09:49:55,402 copying build/lib/rna_tools/tools/mini_moderna3/moderna/examples/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/examples 2026-02-14T09:49:55,405 copying build/lib/rna_tools/tools/mini_moderna3/moderna/examples/usage_examples.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3/moderna/examples 2026-02-14T09:49:55,408 copying build/lib/rna_tools/tools/mini_moderna3/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:55,411 copying build/lib/rna_tools/tools/mini_moderna3/.travis.yml -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:55,413 copying build/lib/rna_tools/tools/mini_moderna3/MANIFEST.in -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:55,415 copying build/lib/rna_tools/tools/mini_moderna3/COPYING -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mini_moderna3 2026-02-14T09:49:55,419 copying build/lib/rna_tools/tools/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools 2026-02-14T09:49:55,423 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox 2026-02-14T09:49:55,425 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox/rna_compare 2026-02-14T09:49:55,427 copying build/lib/rna_tools/tools/sandbox/rna_compare/rmsds.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox/rna_compare 2026-02-14T09:49:55,430 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox/rna_compare/test_data 2026-02-14T09:49:55,432 copying build/lib/rna_tools/tools/sandbox/rna_compare/test_data/1y26_clean.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox/rna_compare/test_data 2026-02-14T09:49:55,441 copying build/lib/rna_tools/tools/sandbox/rna_compare/test_data/ade_pk_82a6_100low-000006_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox/rna_compare/test_data 2026-02-14T09:49:55,447 copying build/lib/rna_tools/tools/sandbox/rna_compare/rna_compare.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/sandbox/rna_compare 2026-02-14T09:49:55,450 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rfam 2026-02-14T09:49:55,450 copying build/lib/rna_tools/tools/rna_rfam/list.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rfam 2026-02-14T09:49:55,458 copying build/lib/rna_tools/tools/rna_rfam/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rfam 2026-02-14T09:49:55,463 copying build/lib/rna_tools/tools/rna_rfam/rna_download_rfam.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rfam 2026-02-14T09:49:55,469 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:55,471 copying build/lib/rna_tools/tools/pdbs_measure_atom_dists/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:55,474 copying build/lib/rna_tools/tools/pdbs_measure_atom_dists/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:55,476 copying build/lib/rna_tools/tools/pdbs_measure_atom_dists/pdbs_measure_atom_dists.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists 2026-02-14T09:49:55,479 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:55,480 copying build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data/obj01.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:55,485 copying build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data/ALN_OBJ1_OBJ2.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:55,488 copying build/lib/rna_tools/tools/pdbs_measure_atom_dists/test_data/obj02.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdbs_measure_atom_dists/test_data 2026-02-14T09:49:55,500 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:55,503 copying build/lib/rna_tools/tools/rnapuzzle_sender/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:55,509 copying build/lib/rna_tools/tools/rnapuzzle_sender/rnapuzzle_sender.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:55,511 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,513 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank4.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,526 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank7.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,537 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank9.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,545 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,553 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank6.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,560 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,567 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank10.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,577 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank3.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,593 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank8.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,604 copying build/lib/rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank5.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/files 2026-02-14T09:49:55,610 copying build/lib/rna_tools/tools/rnapuzzle_sender/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender 2026-02-14T09:49:55,612 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:55,614 copying build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content/test3.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:55,644 copying build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content/model1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:55,669 copying build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content/test.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:55,865 copying build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content/test.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:55,927 copying build/lib/rna_tools/tools/rnapuzzle_sender/test_of_email_content/test02.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnapuzzle_sender/test_of_email_content 2026-02-14T09:49:55,948 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:55,961 copying build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/rna_pdb_merge_structure_with_fragments.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:55,966 copying build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:55,969 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:55,970 copying build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/1xjr_root.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:55,975 copying build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/rna_sq_renumber.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:55,981 copying build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/1xjr_simrna_nstep_1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data 2026-02-14T09:49:55,992 copying build/lib/rna_tools/tools/rna_pdb_merge_structure_with_fragments/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_merge_structure_with_fragments 2026-02-14T09:49:56,004 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,008 copying build/lib/rna_tools/tools/misc/rna_test_cuda.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,019 copying build/lib/rna_tools/tools/misc/translate.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,029 copying build/lib/rna_tools/tools/misc/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,038 copying build/lib/rna_tools/tools/misc/rna_dict2fasta.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,048 copying build/lib/rna_tools/tools/misc/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,051 copying build/lib/rna_tools/tools/misc/rna_tools_demo.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,053 copying build/lib/rna_tools/tools/misc/rna_tools_which.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,056 copying build/lib/rna_tools/tools/misc/rna_remote_run.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,059 copying build/lib/rna_tools/tools/misc/rna_ok -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,062 copying build/lib/rna_tools/tools/misc/rna_topdb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,065 copying build/lib/rna_tools/tools/misc/reverse.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,068 copying build/lib/rna_tools/tools/misc/rna_add_chain.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,071 copying build/lib/rna_tools/tools/misc/rna_ok_mail.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/misc 2026-02-14T09:49:56,075 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:56,076 copying build/lib/rna_tools/tools/pymol_color_by_conserv/conserv_to_csv.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:56,080 copying build/lib/rna_tools/tools/pymol_color_by_conserv/pymol_color_by_conserv.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:56,085 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/data 2026-02-14T09:49:56,088 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:56,090 copying build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15_consensus.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:56,098 copying build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15/psiblast_8183496.aln -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:56,107 copying build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15.pml -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:56,115 copying build/lib/rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15_conserv.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/data/cwc15 2026-02-14T09:49:56,124 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:56,128 copying build/lib/rna_tools/tools/pymol_color_by_conserv/docs/cwc15.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:56,216 copying build/lib/rna_tools/tools/pymol_color_by_conserv/docs/consensus-file.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:56,220 copying build/lib/rna_tools/tools/pymol_color_by_conserv/docs/jalview.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv/docs 2026-02-14T09:49:56,234 copying build/lib/rna_tools/tools/pymol_color_by_conserv/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:56,239 copying build/lib/rna_tools/tools/pymol_color_by_conserv/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_color_by_conserv 2026-02-14T09:49:56,245 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:56,247 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:56,250 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/rna_pdb_edit_occupancy_bfactor.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:56,253 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:56,255 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:56,256 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel_out.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:56,265 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel_select_atoms_out.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:56,277 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data 2026-02-14T09:49:56,290 copying build/lib/rna_tools/tools/rna_pdb_edit_occupancy_bfactor/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_pdb_edit_occupancy_bfactor 2026-02-14T09:49:56,294 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc 2026-02-14T09:49:56,295 copying build/lib/rna_tools/tools/ClashCalc/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc 2026-02-14T09:49:56,297 copying build/lib/rna_tools/tools/ClashCalc/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc 2026-02-14T09:49:56,299 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:56,311 copying build/lib/rna_tools/tools/ClashCalc/test_data/no_clash.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:56,350 copying build/lib/rna_tools/tools/ClashCalc/test_data/prot-na_2392.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:56,372 copying build/lib/rna_tools/tools/ClashCalc/test_data/super_clash.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc/test_data 2026-02-14T09:49:56,397 copying build/lib/rna_tools/tools/ClashCalc/ClashCalc.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc 2026-02-14T09:49:56,404 copying build/lib/rna_tools/tools/ClashCalc/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/ClashCalc 2026-02-14T09:49:56,407 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna 2026-02-14T09:49:56,408 copying build/lib/rna_tools/tools/rna_x3dna/rna_x3dna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna 2026-02-14T09:49:56,411 copying build/lib/rna_tools/tools/rna_x3dna/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna 2026-02-14T09:49:56,414 copying build/lib/rna_tools/tools/rna_x3dna/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna 2026-02-14T09:49:56,416 copying build/lib/rna_tools/tools/rna_x3dna/readme.rst -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna 2026-02-14T09:49:56,421 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:56,423 copying build/lib/rna_tools/tools/rna_x3dna/test_data/6TNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:56,439 copying build/lib/rna_tools/tools/rna_x3dna/test_data/1xjr_output.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:56,449 copying build/lib/rna_tools/tools/rna_x3dna/test_data/CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:56,459 copying build/lib/rna_tools/tools/rna_x3dna/test_data/rp2_bujnicki_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:56,478 copying build/lib/rna_tools/tools/rna_x3dna/test_data/1xjr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_x3dna/test_data 2026-02-14T09:49:56,498 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,503 copying build/lib/rna_tools/tools/webserver-engine/runme_dev.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,509 copying build/lib/rna_tools/tools/webserver-engine/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,511 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:56,512 copying build/lib/rna_tools/tools/webserver-engine/web/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:56,514 copying build/lib/rna_tools/tools/webserver-engine/web/wsgi.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:56,516 copying build/lib/rna_tools/tools/webserver-engine/web/settings.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:56,520 copying build/lib/rna_tools/tools/webserver-engine/web/urls.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/web 2026-02-14T09:49:56,526 copying build/lib/rna_tools/tools/webserver-engine/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,532 copying build/lib/rna_tools/tools/webserver-engine/sendmail.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,539 copying build/lib/rna_tools/tools/webserver-engine/manage.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,545 copying build/lib/rna_tools/tools/webserver-engine/notes.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,552 copying build/lib/rna_tools/tools/webserver-engine/wsgi.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,558 copying build/lib/rna_tools/tools/webserver-engine/install.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,565 copying build/lib/rna_tools/tools/webserver-engine/cleanup.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,575 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions 2026-02-14T09:49:56,580 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/css 2026-02-14T09:49:56,583 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/css/jquery.autocomplete.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/css 2026-02-14T09:49:56,591 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions 2026-02-14T09:49:56,598 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:56,599 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/js/jquery.autocomplete.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:56,602 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/js/jquery.ajaxQueue.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:56,604 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/js/jquery.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:56,609 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/js/jquery.bgiframe.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/js 2026-02-14T09:49:56,612 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/img 2026-02-14T09:49:56,613 copying build/lib/rna_tools/tools/webserver-engine/django_extensions/img/indicator.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/django_extensions/img 2026-02-14T09:49:56,615 copying build/lib/rna_tools/tools/webserver-engine/ac -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,617 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/docs 2026-02-14T09:49:56,618 copying build/lib/rna_tools/tools/webserver-engine/docs/admin.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/docs 2026-02-14T09:49:56,661 copying build/lib/rna_tools/tools/webserver-engine/docs/demo.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/docs 2026-02-14T09:49:56,695 copying build/lib/rna_tools/tools/webserver-engine/checker.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,702 copying build/lib/rna_tools/tools/webserver-engine/ddev.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,709 copying build/lib/rna_tools/tools/webserver-engine/daemon.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,714 copying build/lib/rna_tools/tools/webserver-engine/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,720 copying build/lib/rna_tools/tools/webserver-engine/checker.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:56,727 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:56,729 copying build/lib/rna_tools/tools/webserver-engine/app/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:56,733 copying build/lib/rna_tools/tools/webserver-engine/app/models.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:56,737 copying build/lib/rna_tools/tools/webserver-engine/app/admin.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:56,741 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static 2026-02-14T09:49:56,744 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:56,748 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:56,750 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:56,754 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:56,758 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:56,764 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload 2026-02-14T09:49:56,768 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/help 2026-02-14T09:49:56,769 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/help/submit_seq_w_ss_restraints.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/help 2026-02-14T09:49:56,774 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/help/1evv-ss-w11rst2_A.rest -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/help 2026-02-14T09:49:56,776 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap 2026-02-14T09:49:56,778 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:56,779 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap-responsive.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:56,783 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:56,787 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap-responsive.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:56,791 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/css 2026-02-14T09:49:56,797 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:56,798 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/jquery.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:56,803 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/bootstrap.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:56,807 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/bootstrap.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/js 2026-02-14T09:49:56,811 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img 2026-02-14T09:49:56,812 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img/glyphicons-halflings.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img 2026-02-14T09:49:56,815 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img/glyphicons-halflings-white.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap/img 2026-02-14T09:49:56,818 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/jsmol.zip -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:56,910 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:56,912 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css 2026-02-14T09:49:56,914 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/demo.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css 2026-02-14T09:49:56,917 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:56,919 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery.ui.1.10.0.ie.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:56,922 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery-ui-1.10.0.custom.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:56,928 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery.ui.1.9.2.ie.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:56,934 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery-ui-1.9.2.custom.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme 2026-02-14T09:49:56,944 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,946 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_55_fbf9ee_1x400.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,952 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_ffffff_1x400.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,957 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_222222_256x240.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,962 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_e6e6e6_1x400.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,965 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_888888_256x240.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,968 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_dadada_1x400.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,972 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_cd0a0a_256x240.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,976 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_inset-soft_95_fef1ec_1x100.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,981 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_65_ffffff_1x400.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,985 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_f6cf3b_256x240.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,990 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_flat_0_aaaaaa_40x100.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,994 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_454545_256x240.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:56,999 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_2e83ff_256x240.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:57,004 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_highlight-soft_75_cccccc_1x100.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images 2026-02-14T09:49:57,009 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/old_index.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:57,019 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:57,023 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/demo.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:57,033 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/jquery-ui-1.9.2.custom.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:57,057 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/jquery-1.8.3.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js 2026-02-14T09:49:57,074 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/extra.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:57,087 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/index.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:57,096 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party 2026-02-14T09:49:57,098 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:57,099 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.wijmo-open.1.5.0.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:57,104 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.mousewheel.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:57,107 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.bgiframe-2.1.3-pre.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:57,110 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.wijmo-open.1.5.0.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo 2026-02-14T09:49:57,120 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput 2026-02-14T09:49:57,122 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css 2026-02-14T09:49:57,123 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css/enhanced.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css 2026-02-14T09:49:57,127 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js 2026-02-14T09:49:57,129 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js/enhance.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js 2026-02-14T09:49:57,134 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js/fileinput.jquery.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js 2026-02-14T09:49:57,138 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:57,140 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-image.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:57,143 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-generic.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:57,146 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-zip.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:57,149 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-media.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images 2026-02-14T09:49:57,152 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker 2026-02-14T09:49:57,154 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css 2026-02-14T09:49:57,155 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css/ui.daterangepicker.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css 2026-02-14T09:49:57,159 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:57,161 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/date.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:57,165 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/daterangepicker.jQuery.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:57,169 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/daterangepicker.jQuery.compressed.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js 2026-02-14T09:49:57,173 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/index.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker 2026-02-14T09:49:57,183 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets 2026-02-14T09:49:57,191 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:57,199 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:57,204 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.ttf -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:57,212 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.svg -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:57,225 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.eot -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:57,236 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.woff -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:57,249 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/FontAwesome.otf -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font 2026-02-14T09:49:57,258 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font-awesome.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:57,267 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/bootstrap.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:57,275 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font-awesome-ie7.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:57,278 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/docs.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css 2026-02-14T09:49:57,282 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,283 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/demo.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,286 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-1.9.0.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,293 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/docs.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,298 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify 2026-02-14T09:49:57,299 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify/prettify.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify 2026-02-14T09:49:57,302 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify/prettify.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify 2026-02-14T09:49:57,306 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/bootstrap.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,309 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-ui-1.10.0.custom.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,328 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-1.8.3.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js 2026-02-14T09:49:57,344 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,346 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/favicon.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,350 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-114-precomposed.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,355 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-72-precomposed.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,359 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/favicon.ico -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,364 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-144-precomposed.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,369 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-57-precomposed.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico 2026-02-14T09:49:57,376 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img 2026-02-14T09:49:57,378 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img/bs-docs-masthead-pattern.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img 2026-02-14T09:49:57,381 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47 2026-02-14T09:49:57,385 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,386 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_s.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,389 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,392 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_pred.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,394 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Cwc2_Exon_Intron.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,411 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/to-replace.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,417 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_C.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,422 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/5k7c_clean_onechain_renumber_as_puzzle_srr_min.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,424 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_CWC2_C.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,432 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/21_Adamiak_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,437 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/tRNA.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,439 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop_helix.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,443 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_Intron_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,451 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/1EHZ.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,469 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_rnafold.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,479 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Intron_C.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,493 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/gtp.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,502 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/21_ChenHighLig_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,514 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,524 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/1EHZ.cif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,544 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/21_Das_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,556 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/1l2x_restraints.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,564 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/triple-ACA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,573 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/2gdi.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,581 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/21_3dRNA_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,596 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/1l2x_rna_clust0.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,608 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/tRNA_saxs.dat -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,617 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/2gdi.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,631 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/unmodified_tRNAPhe_restraints.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,639 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/missing_op1op2_r43OK.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,649 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/pistol_thrs0.50A_clust272-000001_AA_min.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,657 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/21_solution_2_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,666 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop_mdr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,672 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/1xjr.cif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,688 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/rp21.zip -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,705 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/MissingAtomsAdded_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,719 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_Intron.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,736 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/demo/1xjr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/demo 2026-02-14T09:49:57,752 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,756 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/01b.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,798 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/diffpdb.jpg -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,812 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/02x.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,843 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/01.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,882 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/01c.jpg -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,895 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/03.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,917 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/folder.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,927 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/qrnas.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,941 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/02.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,959 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/img/01.jpg -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/img 2026-02-14T09:49:57,973 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle 2026-02-14T09:49:57,980 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src 2026-02-14T09:49:57,986 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src/bootstrap-filestyle.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src 2026-02-14T09:49:57,999 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src/bootstrap-filestyle.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src 2026-02-14T09:49:58,006 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/LICENSE-MIT -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle 2026-02-14T09:49:58,009 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test 2026-02-14T09:49:58,011 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css 2026-02-14T09:49:58,012 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css/bootstrap.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css 2026-02-14T09:49:58,018 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js 2026-02-14T09:49:58,020 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js/aplication.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js 2026-02-14T09:49:58,022 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js/bootstrap.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js 2026-02-14T09:49:58,026 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload.php -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test 2026-02-14T09:49:58,029 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/index.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test 2026-02-14T09:49:58,033 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img 2026-02-14T09:49:58,034 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img/glyphicons-halflings.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img 2026-02-14T09:49:58,038 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img/glyphicons-halflings-white.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img 2026-02-14T09:49:58,041 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload 2026-02-14T09:49:58,043 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload/.folder -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload 2026-02-14T09:49:58,046 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle 2026-02-14T09:49:58,048 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/bootstrap-acknowledgeinput.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:58,051 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/dropzone 2026-02-14T09:49:58,053 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/dropzone/dropzone.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/dropzone 2026-02-14T09:49:58,063 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/dropzone/dropzone.min.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app/dropzone 2026-02-14T09:49:58,066 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/rto.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:58,069 copying build/lib/rna_tools/tools/webserver-engine/app/static/app/rto.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/static/app 2026-02-14T09:49:58,072 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,075 copying build/lib/rna_tools/tools/webserver-engine/app/templates/home.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,078 copying build/lib/rna_tools/tools/webserver-engine/app/templates/about.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,080 copying build/lib/rna_tools/tools/webserver-engine/app/templates/help.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,086 copying build/lib/rna_tools/tools/webserver-engine/app/templates/swap.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,089 copying build/lib/rna_tools/tools/webserver-engine/app/templates/errors.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,092 copying build/lib/rna_tools/tools/webserver-engine/app/templates/rpl.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,095 copying build/lib/rna_tools/tools/webserver-engine/app/templates/contact.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,098 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:58,100 copying build/lib/rna_tools/tools/webserver-engine/app/templates/archive/submit.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:58,103 copying build/lib/rna_tools/tools/webserver-engine/app/templates/archive/sequence-search.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:58,106 copying build/lib/rna_tools/tools/webserver-engine/app/templates/archive/result.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:58,109 copying build/lib/rna_tools/tools/webserver-engine/app/templates/archive/secondary-structure.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:58,111 copying build/lib/rna_tools/tools/webserver-engine/app/templates/archive/progress.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates/archive 2026-02-14T09:49:58,114 copying build/lib/rna_tools/tools/webserver-engine/app/templates/mutate.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,117 copying build/lib/rna_tools/tools/webserver-engine/app/templates/assess.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,120 copying build/lib/rna_tools/tools/webserver-engine/app/templates/rpr.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,123 copying build/lib/rna_tools/tools/webserver-engine/app/templates/qrnas.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,126 copying build/lib/rna_tools/tools/webserver-engine/app/templates/notes.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,128 copying build/lib/rna_tools/tools/webserver-engine/app/templates/tocif.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,131 copying build/lib/rna_tools/tools/webserver-engine/app/templates/clarna.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,135 copying build/lib/rna_tools/tools/webserver-engine/app/templates/extract.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,138 copying build/lib/rna_tools/tools/webserver-engine/app/templates/base.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,141 copying build/lib/rna_tools/tools/webserver-engine/app/templates/calc-rmsd.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,144 copying build/lib/rna_tools/tools/webserver-engine/app/templates/analysis.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,147 copying build/lib/rna_tools/tools/webserver-engine/app/templates/delete.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,151 copying build/lib/rna_tools/tools/webserver-engine/app/templates/seq.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,154 copying build/lib/rna_tools/tools/webserver-engine/app/templates/h2a.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,157 copying build/lib/rna_tools/tools/webserver-engine/app/templates/diffpdb.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,160 copying build/lib/rna_tools/tools/webserver-engine/app/templates/cat.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,163 copying build/lib/rna_tools/tools/webserver-engine/app/templates/topdb.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,166 copying build/lib/rna_tools/tools/webserver-engine/app/templates/notebase.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,168 copying build/lib/rna_tools/tools/webserver-engine/app/templates/edit.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,172 copying build/lib/rna_tools/tools/webserver-engine/app/templates/dont_exits.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,174 copying build/lib/rna_tools/tools/webserver-engine/app/templates/tools.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,177 copying build/lib/rna_tools/tools/webserver-engine/app/templates/min.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,180 copying build/lib/rna_tools/tools/webserver-engine/app/templates/ss.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,183 copying build/lib/rna_tools/tools/webserver-engine/app/templates/mdr.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,185 copying build/lib/rna_tools/tools/webserver-engine/app/templates/calc-inf.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app/templates 2026-02-14T09:49:58,189 copying build/lib/rna_tools/tools/webserver-engine/app/views.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/app 2026-02-14T09:49:58,193 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin 2026-02-14T09:49:58,195 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,197 copying build/lib/rna_tools/tools/webserver-engine/admin/css/rtl.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,199 copying build/lib/rna_tools/tools/webserver-engine/admin/css/widgets.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,201 copying build/lib/rna_tools/tools/webserver-engine/admin/css/forms.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,204 copying build/lib/rna_tools/tools/webserver-engine/admin/css/changelists.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,207 copying build/lib/rna_tools/tools/webserver-engine/admin/css/base.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,209 copying build/lib/rna_tools/tools/webserver-engine/admin/css/dashboard.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,211 copying build/lib/rna_tools/tools/webserver-engine/admin/css/ie.css -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/css 2026-02-14T09:49:58,214 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,215 copying build/lib/rna_tools/tools/webserver-engine/admin/js/inlines.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,217 copying build/lib/rna_tools/tools/webserver-engine/admin/js/jquery.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,221 copying build/lib/rna_tools/tools/webserver-engine/admin/js/jquery.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,226 copying build/lib/rna_tools/tools/webserver-engine/admin/js/collapse.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,228 copying build/lib/rna_tools/tools/webserver-engine/admin/js/LICENSE-JQUERY.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,230 copying build/lib/rna_tools/tools/webserver-engine/admin/js/calendar.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,232 copying build/lib/rna_tools/tools/webserver-engine/admin/js/core.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,235 copying build/lib/rna_tools/tools/webserver-engine/admin/js/inlines.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,237 copying build/lib/rna_tools/tools/webserver-engine/admin/js/SelectBox.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,239 copying build/lib/rna_tools/tools/webserver-engine/admin/js/actions.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,241 copying build/lib/rna_tools/tools/webserver-engine/admin/js/actions.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,244 copying build/lib/rna_tools/tools/webserver-engine/admin/js/getElementsBySelector.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,246 copying build/lib/rna_tools/tools/webserver-engine/admin/js/SelectFilter2.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,249 copying build/lib/rna_tools/tools/webserver-engine/admin/js/prepopulate.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,251 copying build/lib/rna_tools/tools/webserver-engine/admin/js/timeparse.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,253 copying build/lib/rna_tools/tools/webserver-engine/admin/js/prepopulate.min.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,256 copying build/lib/rna_tools/tools/webserver-engine/admin/js/jquery.init.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,257 copying build/lib/rna_tools/tools/webserver-engine/admin/js/compress.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,260 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:58,261 copying build/lib/rna_tools/tools/webserver-engine/admin/js/admin/RelatedObjectLookups.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:58,263 copying build/lib/rna_tools/tools/webserver-engine/admin/js/admin/DateTimeShortcuts.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:58,266 copying build/lib/rna_tools/tools/webserver-engine/admin/js/admin/ordering.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js/admin 2026-02-14T09:49:58,268 copying build/lib/rna_tools/tools/webserver-engine/admin/js/collapse.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,270 copying build/lib/rna_tools/tools/webserver-engine/admin/js/urlify.js -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/js 2026-02-14T09:49:58,274 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,275 copying build/lib/rna_tools/tools/webserver-engine/admin/img/deleted-overlay.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,277 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_clock.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,279 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_calendar.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,281 copying build/lib/rna_tools/tools/webserver-engine/admin/img/chooser-bg.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,283 copying build/lib/rna_tools/tools/webserver-engine/admin/img/default-bg.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,286 copying build/lib/rna_tools/tools/webserver-engine/admin/img/inline-splitter-bg.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,288 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_searchbox.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,290 copying build/lib/rna_tools/tools/webserver-engine/admin/img/inline-delete-8bit.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,292 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tooltag-arrowright.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,294 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon-unknown.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,296 copying build/lib/rna_tools/tools/webserver-engine/admin/img/changelist-bg_rtl.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,298 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_changelink.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,300 copying build/lib/rna_tools/tools/webserver-engine/admin/img/nav-bg-selected.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,303 copying build/lib/rna_tools/tools/webserver-engine/admin/img/changelist-bg.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,305 copying build/lib/rna_tools/tools/webserver-engine/admin/img/nav-bg-reverse.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,307 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_alert.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,310 copying build/lib/rna_tools/tools/webserver-engine/admin/img/inline-restore-8bit.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,312 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_deletelink.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,314 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tooltag-arrowright_over.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,316 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tool-left.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,318 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon-no.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,319 copying build/lib/rna_tools/tools/webserver-engine/admin/img/sorting-icons.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,321 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_addlink.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,323 copying build/lib/rna_tools/tools/webserver-engine/admin/img/selector-search.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,325 copying build/lib/rna_tools/tools/webserver-engine/admin/img/nav-bg.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,327 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_error.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,328 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tool-right.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,330 copying build/lib/rna_tools/tools/webserver-engine/admin/img/default-bg-reverse.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,332 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon-yes.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,334 copying build/lib/rna_tools/tools/webserver-engine/admin/img/chooser_stacked-bg.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,335 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tool-right_over.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,338 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img/gis 2026-02-14T09:49:58,339 copying build/lib/rna_tools/tools/webserver-engine/admin/img/gis/move_vertex_on.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img/gis 2026-02-14T09:49:58,341 copying build/lib/rna_tools/tools/webserver-engine/admin/img/selector-icons.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,343 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tool-left_over.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,345 copying build/lib/rna_tools/tools/webserver-engine/admin/img/icon_success.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,346 copying build/lib/rna_tools/tools/webserver-engine/admin/img/inline-delete.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,348 copying build/lib/rna_tools/tools/webserver-engine/admin/img/inline-restore.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,350 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tooltag-add_over.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,352 copying build/lib/rna_tools/tools/webserver-engine/admin/img/nav-bg-grabber.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,353 copying build/lib/rna_tools/tools/webserver-engine/admin/img/tooltag-add.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine/admin/img 2026-02-14T09:49:58,355 copying build/lib/rna_tools/tools/webserver-engine/daemon.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/webserver-engine 2026-02-14T09:49:58,358 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,359 copying build/lib/rna_tools/tools/simrna_trajectory/rna_simrna_lowest.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,361 copying build/lib/rna_tools/tools/simrna_trajectory/rna_simrna_energy_plot.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,363 copying build/lib/rna_tools/tools/simrna_trajectory/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,365 copying build/lib/rna_tools/tools/simrna_trajectory/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,366 copying build/lib/rna_tools/tools/simrna_trajectory/rna_simrna_cluster.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,368 copying build/lib/rna_tools/tools/simrna_trajectory/test_rmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,370 copying build/lib/rna_tools/tools/simrna_trajectory/rna_simrna_extract.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,372 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory/test_data 2026-02-14T09:49:58,373 copying build/lib/rna_tools/tools/simrna_trajectory/test_data/mini.trafl -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory/test_data 2026-02-14T09:49:58,377 copying build/lib/rna_tools/tools/simrna_trajectory/simrna_trajectory.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,379 copying build/lib/rna_tools/tools/simrna_trajectory/subset.trafl -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,392 copying build/lib/rna_tools/tools/simrna_trajectory/rna_simrna_subset.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,394 copying build/lib/rna_tools/tools/simrna_trajectory/test_rna_simrna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/simrna_trajectory 2026-02-14T09:49:58,397 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/proteins 2026-02-14T09:49:58,398 copying build/lib/rna_tools/tools/proteins/1djf.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/proteins 2026-02-14T09:49:58,401 copying build/lib/rna_tools/tools/proteins/u2-u6-cwc15-trim2_proteinOnly.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/proteins 2026-02-14T09:49:58,403 copying build/lib/rna_tools/tools/proteins/calc_distances.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/proteins 2026-02-14T09:49:58,406 copying build/lib/rna_tools/tools/proteins/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/proteins 2026-02-14T09:49:58,408 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:58,409 copying build/lib/rna_tools/tools/renum_pdb_to_aln/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:58,411 copying build/lib/rna_tools/tools/renum_pdb_to_aln/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:58,413 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:58,414 copying build/lib/rna_tools/tools/renum_pdb_to_aln/test_data/obj01.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:58,416 copying build/lib/rna_tools/tools/renum_pdb_to_aln/test_data/ALN_OBJ1_OBJ2.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:58,418 copying build/lib/rna_tools/tools/renum_pdb_to_aln/test_data/obj01_out.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln/test_data 2026-02-14T09:49:58,421 copying build/lib/rna_tools/tools/renum_pdb_to_aln/renum_pdb_to_aln.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/renum_pdb_to_aln 2026-02-14T09:49:58,424 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:58,425 copying build/lib/rna_tools/tools/rnashape2ascii/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:58,427 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii/test_data 2026-02-14T09:49:58,428 copying build/lib/rna_tools/tools/rnashape2ascii/test_data/r1_raw.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii/test_data 2026-02-14T09:49:58,430 copying build/lib/rna_tools/tools/rnashape2ascii/test_data/RNAPZ12_1M7_0000.rdat -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii/test_data 2026-02-14T09:49:58,432 copying build/lib/rna_tools/tools/rnashape2ascii/rnashape2ascii.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:58,434 copying build/lib/rna_tools/tools/rnashape2ascii/LICENSE -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:58,436 copying build/lib/rna_tools/tools/rnashape2ascii/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rnashape2ascii 2026-02-14T09:49:58,439 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,439 copying build/lib/rna_tools/tools/rna_calc_inf/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,441 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/doc 2026-02-14T09:49:58,442 copying build/lib/rna_tools/tools/rna_calc_inf/doc/1y26_dinf.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/doc 2026-02-14T09:49:58,449 copying build/lib/rna_tools/tools/rna_calc_inf/doc/1y26_dinf2.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/doc 2026-02-14T09:49:58,460 copying build/lib/rna_tools/tools/rna_calc_inf/rna_calc_inf.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,463 copying build/lib/rna_tools/tools/rna_calc_inf/rna_calc_dinf.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,466 copying build/lib/rna_tools/tools/rna_calc_inf/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,468 copying build/lib/rna_tools/tools/rna_calc_inf/test_dinf.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,470 copying build/lib/rna_tools/tools/rna_calc_inf/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf 2026-02-14T09:49:58,473 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,474 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/pistol.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,476 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/pistol_inf_m1.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,478 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/1Y26.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,482 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/test.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,484 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/1y26X_M451_dinf -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,486 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/pistol_inf_selection.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,488 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/1prot.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,494 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/pistol_inf_from_SeqSS.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,497 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/pistol_inf_stacking.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,499 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/13_Bujnicki_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,504 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,505 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/13_Bujnicki_1_rpr_del46-56.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,510 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/orignal.inf -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,511 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/inf.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,513 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/13_Adamiak_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,518 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/13_0_solution_4XW7_rpr_del46-56.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,523 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/13_Bujnicki_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,528 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/13_Adamiak_1_rpr_del46-56.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,533 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/del.inf -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,535 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/rp13/13_0_solution_4XW7_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data/rp13 2026-02-14T09:49:58,539 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/1Y26_dinf_comparison.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,542 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/1y26X_M451.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,547 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/1Y26_dinf -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,549 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/13_0_solution_4XW7_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,553 copying build/lib/rna_tools/tools/rna_calc_inf/test_data/pistol_inf_m10.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_inf/test_data 2026-02-14T09:49:58,556 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement 2026-02-14T09:49:58,556 copying build/lib/rna_tools/tools/rna_refinement/rna_refinement.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement 2026-02-14T09:49:58,559 copying build/lib/rna_tools/tools/rna_refinement/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement 2026-02-14T09:49:58,560 copying build/lib/rna_tools/tools/rna_refinement/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement 2026-02-14T09:49:58,562 copying build/lib/rna_tools/tools/rna_refinement/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement 2026-02-14T09:49:58,564 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,565 copying build/lib/rna_tools/tools/rna_refinement/test_data/rp17_179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA._refx_refx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,569 copying build/lib/rna_tools/tools/rna_refinement/test_data/179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,573 copying build/lib/rna_tools/tools/rna_refinement/test_data/rp17_179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA._refx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,578 copying build/lib/rna_tools/tools/rna_refinement/test_data/output.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,583 copying build/lib/rna_tools/tools/rna_refinement/test_data/19_Bujnicki_Human_4_rpr_n0-000001.pdb_thrs0.50A_clust99-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,586 copying build/lib/rna_tools/tools/rna_refinement/test_data/input.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,590 copying build/lib/rna_tools/tools/rna_refinement/test_data/input_refx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,595 copying build/lib/rna_tools/tools/rna_refinement/test_data/19_Bujnicki_Human_4_rpr_n0-000001_refx.pdb_thrs0.50A_clust99-000001_AA_refx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_refinement/test_data 2026-02-14T09:49:58,602 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/cluster_load 2026-02-14T09:49:58,603 copying build/lib/rna_tools/tools/cluster_load/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/cluster_load 2026-02-14T09:49:58,604 copying build/lib/rna_tools/tools/cluster_load/cluster_load.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/cluster_load 2026-02-14T09:49:58,607 copying build/lib/rna_tools/tools/cluster_load/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/cluster_load 2026-02-14T09:49:58,609 copying build/lib/rna_tools/tools/cluster_load/load -> build/bdist.linux-armv7l/wheel/rna_tools/tools/cluster_load 2026-02-14T09:49:58,611 copying build/lib/rna_tools/tools/cluster_load/cluster_mini_free.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/cluster_load 2026-02-14T09:49:58,614 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:58,615 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:58,617 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/doc 2026-02-14T09:49:58,619 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/doc/varna_2pk.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/doc 2026-02-14T09:49:58,623 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/rna_pk_simrna_to_one_line.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:58,625 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/rna_ss_pk_to_simrna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:58,627 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:58,629 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats 2026-02-14T09:49:58,632 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:58,633 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna.ss -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:58,635 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data/ss_with_pk.ss -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:58,638 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna_2chains.ss -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:58,640 copying build/lib/rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna3.ss -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_convert_pseudoknot_formats/test_data 2026-02-14T09:49:58,642 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,644 copying build/lib/rna_tools/tools/rna_filter/rna_pairs2rfilter.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,646 copying build/lib/rna_tools/tools/rna_filter/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,648 copying build/lib/rna_tools/tools/rna_filter/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,650 copying build/lib/rna_tools/tools/rna_filter/rna_ss_get_bps.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,652 copying build/lib/rna_tools/tools/rna_filter/simrna_get_restraints.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,654 copying build/lib/rna_tools/tools/rna_filter/rna_pairs2SimRNArestrs.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,656 copying build/lib/rna_tools/tools/rna_filter/rna_get_dists.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,659 copying build/lib/rna_tools/tools/rna_filter/rna_dca_select_interactions.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,661 copying build/lib/rna_tools/tools/rna_filter/test_rna_filter.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,664 copying build/lib/rna_tools/tools/rna_filter/rna_dca_mapping.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,666 copying build/lib/rna_tools/tools/rna_filter/rna_get_distances.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,669 copying build/lib/rna_tools/tools/rna_filter/rna_restrs2SimRNArestrs.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,672 copying build/lib/rna_tools/tools/rna_filter/rna_ec2x.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,674 copying build/lib/rna_tools/tools/rna_filter/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,676 copying build/lib/rna_tools/tools/rna_filter/test_dca.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,678 copying build/lib/rna_tools/tools/rna_filter/rna_filter.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,681 copying build/lib/rna_tools/tools/rna_filter/rna_pairs_diff.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,683 copying build/lib/rna_tools/tools/rna_filter/pymol_dists.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,686 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:58,687 copying build/lib/rna_tools/tools/rna_filter/test_data/CG.trafl -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:58,689 copying build/lib/rna_tools/tools/rna_filter/test_data/rna_filter.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:58,691 copying build/lib/rna_tools/tools/rna_filter/test_data/restraints.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:58,693 copying build/lib/rna_tools/tools/rna_filter/test_data/CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter/test_data 2026-02-14T09:49:58,695 copying build/lib/rna_tools/tools/rna_filter/rna_csv2pairs.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,698 copying build/lib/rna_tools/tools/rna_filter/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,700 copying build/lib/rna_tools/tools/rna_filter/rna_restrs2mqapRNA.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_filter 2026-02-14T09:49:58,702 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:58,704 copying build/lib/rna_tools/tools/rna_calc_rmsd_trafl/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:58,706 copying build/lib/rna_tools/tools/rna_calc_rmsd_trafl/rna_calc_rmsd_trafl.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:58,708 copying build/lib/rna_tools/tools/rna_calc_rmsd_trafl/rna_cal_rmsd_trafl_plot.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_rmsd_trafl 2026-02-14T09:49:58,711 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,712 copying build/lib/rna_tools/tools/plotting/rna_plot_density.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,714 copying build/lib/rna_tools/tools/plotting/rna_plot_dendogram.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,716 copying build/lib/rna_tools/tools/plotting/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,718 copying build/lib/rna_tools/tools/plotting/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,720 copying build/lib/rna_tools/tools/plotting/rna_plot_boxplotlike.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,723 copying build/lib/rna_tools/tools/plotting/rna_plot_heatmap.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,725 copying build/lib/rna_tools/tools/plotting/rna_plot_hist.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting 2026-02-14T09:49:58,728 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting/test_data 2026-02-14T09:49:58,729 copying build/lib/rna_tools/tools/plotting/test_data/rmsds_hist.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting/test_data 2026-02-14T09:49:58,732 copying build/lib/rna_tools/tools/plotting/test_data/rmsds.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting/test_data 2026-02-14T09:49:58,735 copying build/lib/rna_tools/tools/plotting/test_data/rmsds_dens.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/plotting/test_data 2026-02-14T09:49:58,739 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,740 copying build/lib/rna_tools/tools/md/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,742 copying build/lib/rna_tools/tools/md/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,745 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,746 copying build/lib/rna_tools/tools/md/test_output/1duq_rnakb_ready.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,750 copying build/lib/rna_tools/tools/md/test_output/1msy_output4_01-000001_AA_rnakb_ready.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,753 copying build/lib/rna_tools/tools/md/test_output/RA5_G.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,755 copying build/lib/rna_tools/tools/md/test_output/1duq_rpr_rnakb_ready.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,759 copying build/lib/rna_tools/tools/md/test_output/3nt_edited_rnakb_ready.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,761 copying build/lib/rna_tools/tools/md/test_output/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx_rnakb_ready.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_output 2026-02-14T09:49:58,764 copying build/lib/rna_tools/tools/md/rna_traj_range.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,766 copying build/lib/rna_tools/tools/md/rna_gromacs_ready.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,768 copying build/lib/rna_tools/tools/md/rna_traj_n.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,770 copying build/lib/rna_tools/tools/md/rna_traj_nohetm.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,773 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/md/data 2026-02-14T09:49:58,774 copying build/lib/rna_tools/tools/md/data/rnakb_all.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/data 2026-02-14T09:49:58,777 copying build/lib/rna_tools/tools/md/rna_md.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,780 copying build/lib/rna_tools/tools/md/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,782 copying build/lib/rna_tools/tools/md/out.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,784 copying build/lib/rna_tools/tools/md/rnakb_utils.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,788 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,789 copying build/lib/rna_tools/tools/md/test_data/1duq.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,794 copying build/lib/rna_tools/tools/md/test_data/groups.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,797 copying build/lib/rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,799 copying build/lib/rna_tools/tools/md/test_data/3nt.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,802 copying build/lib/rna_tools/tools/md/test_data/decoy0165_amb_clx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,806 copying build/lib/rna_tools/tools/md/test_data/1duq -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,807 copying build/lib/rna_tools/tools/md/test_data/RA5_G.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,809 copying build/lib/rna_tools/tools/md/test_data/3nt_edited.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,812 copying build/lib/rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_noC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,814 copying build/lib/rna_tools/tools/md/test_data/1msy_output4_01-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,817 copying build/lib/rna_tools/tools/md/test_data/temp.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,819 copying build/lib/rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx_rmPO.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,821 copying build/lib/rna_tools/tools/md/test_data/1duq_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md/test_data 2026-02-14T09:49:58,824 copying build/lib/rna_tools/tools/md/rna_minimize.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,826 copying build/lib/rna_tools/tools/md/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,828 copying build/lib/rna_tools/tools/md/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,830 copying build/lib/rna_tools/tools/md/rna_get_energy.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/md 2026-02-14T09:49:58,832 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,833 copying build/lib/rna_tools/tools/clarna_app/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,835 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app/data 2026-02-14T09:49:58,836 copying build/lib/rna_tools/tools/clarna_app/data/cl.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app/data 2026-02-14T09:49:58,840 copying build/lib/rna_tools/tools/clarna_app/data/cl_full.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app/data 2026-02-14T09:49:58,842 copying build/lib/rna_tools/tools/clarna_app/data/cl_short.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app/data 2026-02-14T09:49:58,844 copying build/lib/rna_tools/tools/clarna_app/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,846 copying build/lib/rna_tools/tools/clarna_app/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,848 copying build/lib/rna_tools/tools/clarna_app/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,850 copying build/lib/rna_tools/tools/clarna_app/rna_clarna2graph.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,852 copying build/lib/rna_tools/tools/clarna_app/rna_clarna_app.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_app 2026-02-14T09:49:58,855 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:58,857 copying build/lib/rna_tools/tools/clarna_play/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:58,859 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_output 2026-02-14T09:49:58,860 copying build/lib/rna_tools/tools/clarna_play/test_output/3e5fA_M15_c.pdb.outCR -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_output 2026-02-14T09:49:58,862 copying build/lib/rna_tools/tools/clarna_play/test_output/3e5fA_M500_c.pdb.outCR -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_output 2026-02-14T09:49:58,865 copying build/lib/rna_tools/tools/clarna_play/PDBSeq.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:58,868 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/docs 2026-02-14T09:49:58,869 copying build/lib/rna_tools/tools/clarna_play/docs/clarna_run.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/docs 2026-02-14T09:49:58,874 copying build/lib/rna_tools/tools/clarna_play/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:58,876 copying build/lib/rna_tools/tools/clarna_play/rna_clarna_compare.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:58,880 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,882 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/cl_settings_global.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,884 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,886 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,888 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/structure_ciach.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,890 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/clarna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,893 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/cl_settings.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,896 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/descriptions-dict.json -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:58,899 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:58,900 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.bp.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,019 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other3.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,021 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.base-phosphate.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,063 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.base-ribose.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,100 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,108 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.stacking.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,200 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other2.json.gz -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib/lib 2026-02-14T09:49:59,201 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:59,203 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/utils.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:59,206 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/distances.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:59,209 copying build/lib/rna_tools/tools/clarna_play/ClaRNAlib/normalize_pdb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/ClaRNAlib 2026-02-14T09:49:59,211 copying build/lib/rna_tools/tools/clarna_play/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:59,214 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,215 copying build/lib/rna_tools/tools/clarna_play/test_data/1kxk_00_A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,220 copying build/lib/rna_tools/tools/clarna_play/test_data/ss.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,221 copying build/lib/rna_tools/tools/clarna_play/test_data/2a43_00_A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,224 copying build/lib/rna_tools/tools/clarna_play/test_data/1a51_00_A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,227 copying build/lib/rna_tools/tools/clarna_play/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr_AB.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,231 copying build/lib/rna_tools/tools/clarna_play/test_data/3e5fA_M15_c.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,235 copying build/lib/rna_tools/tools/clarna_play/test_data/5k7c.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,241 copying build/lib/rna_tools/tools/clarna_play/test_data/3e5fA_M500_c.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,245 copying build/lib/rna_tools/tools/clarna_play/test_data/1q9a_00_A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/test_data 2026-02-14T09:49:59,248 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:59,249 copying build/lib/rna_tools/tools/clarna_play/tests/3e5fA_M15.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:59,253 copying build/lib/rna_tools/tools/clarna_play/tests/1evv_00_A.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:59,258 copying build/lib/rna_tools/tools/clarna_play/tests/3e5fA_M500.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/tests 2026-02-14T09:49:59,262 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib 2026-02-14T09:49:59,263 copying build/lib/rna_tools/tools/clarna_play/lib/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib 2026-02-14T09:49:59,265 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:59,266 copying build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:59,269 copying build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools/rna-pdb-tools.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:59,271 copying build/lib/rna_tools/tools/clarna_play/lib/rna_pdb_tools/pdb_parser_lib.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/rna_pdb_tools 2026-02-14T09:49:59,274 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:59,275 copying build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/ClaRNAwd_output_parser.h -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:59,277 copying build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/ClaRNAwd_output_parser.cpp -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:59,280 copying build/lib/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/Makefile -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS 2026-02-14T09:49:59,282 copying build/lib/rna_tools/tools/clarna_play/rna_clarna_run.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clarna_play 2026-02-14T09:49:59,285 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_gdt 2026-02-14T09:49:59,286 copying build/lib/rna_tools/tools/rna_calc_gdt/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_gdt 2026-02-14T09:49:59,288 copying build/lib/rna_tools/tools/rna_calc_gdt/rna_calc_gdt.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_gdt 2026-02-14T09:49:59,291 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,292 copying build/lib/rna_tools/tools/workflow/rm_csvs_smaller_than_2k.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,294 copying build/lib/rna_tools/tools/workflow/run -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,297 copying build/lib/rna_tools/tools/workflow/run_1 -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,299 copying build/lib/rna_tools/tools/workflow/rm_less_2k.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,300 copying build/lib/rna_tools/tools/workflow/clean.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,302 copying build/lib/rna_tools/tools/workflow/automatix.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,305 copying build/lib/rna_tools/tools/workflow/chunker.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,307 copying build/lib/rna_tools/tools/workflow/inf_all.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,308 copying build/lib/rna_tools/tools/workflow/rna_workflow.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,310 copying build/lib/rna_tools/tools/workflow/mass_inf.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,312 copying build/lib/rna_tools/tools/workflow/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,313 copying build/lib/rna_tools/tools/workflow/mqaprna_run copy.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,319 copying build/lib/rna_tools/tools/workflow/mqaprna_massive_destruction.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,321 copying build/lib/rna_tools/tools/workflow/after_peyote_clean.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,323 copying build/lib/rna_tools/tools/workflow/xxdownload_job_and_process.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,325 copying build/lib/rna_tools/tools/workflow/pdb_list.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,327 copying build/lib/rna_tools/tools/workflow/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,329 copying build/lib/rna_tools/tools/workflow/rp13_automatix.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,330 copying build/lib/rna_tools/tools/workflow/evox.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,332 copying build/lib/rna_tools/tools/workflow/run.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,334 copying build/lib/rna_tools/tools/workflow/mqaprna_run.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/workflow 2026-02-14T09:49:59,341 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,342 copying build/lib/rna_tools/tools/clanstix/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,344 copying build/lib/rna_tools/tools/clanstix/colors.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,347 copying build/lib/rna_tools/tools/clanstix/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,349 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/doc 2026-02-14T09:49:59,350 copying build/lib/rna_tools/tools/clanstix/doc/rna_clanstix.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/doc 2026-02-14T09:49:59,353 copying build/lib/rna_tools/tools/clanstix/doc/rp18_clanstix.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/doc 2026-02-14T09:49:59,368 copying build/lib/rna_tools/tools/clanstix/doc/yndSrLTb7l.gif -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/doc 2026-02-14T09:49:59,392 copying build/lib/rna_tools/tools/clanstix/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,394 copying build/lib/rna_tools/tools/clanstix/test2.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,396 copying build/lib/rna_tools/tools/clanstix/test3.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,398 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,399 copying build/lib/rna_tools/tools/clanstix/test_data/rp18_rmsd.in -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,402 copying build/lib/rna_tools/tools/clanstix/test_data/matrix.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,404 copying build/lib/rna_tools/tools/clanstix/test_data/gmp.clans -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,409 copying build/lib/rna_tools/tools/clanstix/test_data/gmp_color_by_homolog_shape_by_source.clans -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,414 copying build/lib/rna_tools/tools/clanstix/test_data/gmp_ref_mapping_pk_refX.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,417 copying build/lib/rna_tools/tools/clanstix/test_data/rp18_rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,420 copying build/lib/rna_tools/tools/clanstix/test_data/rp13_RNAevo_fragments_clans_raw.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,435 copying build/lib/rna_tools/tools/clanstix/test_data/gmp_color_by_homolog.clans -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data 2026-02-14T09:49:59,441 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:59,442 copying build/lib/rna_tools/tools/clanstix/test_data/rp17_del/clans.input -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:59,448 copying build/lib/rna_tools/tools/clanstix/test_data/rp17_del/rp17_clans.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:59,460 copying build/lib/rna_tools/tools/clanstix/test_data/rp17_del/rp17_rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:59,488 copying build/lib/rna_tools/tools/clanstix/test_data/rp17_del/rp17_clans_process.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:59,520 copying build/lib/rna_tools/tools/clanstix/test_data/rp17_del/run.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix/test_data/rp17_del 2026-02-14T09:49:59,523 copying build/lib/rna_tools/tools/clanstix/LICENSE -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,526 copying build/lib/rna_tools/tools/clanstix/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,528 copying build/lib/rna_tools/tools/clanstix/rna_clanstix.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/clanstix 2026-02-14T09:49:59,531 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:59,533 copying build/lib/rna_tools/tools/rna_prediction_significance/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:59,535 copying build/lib/rna_tools/tools/rna_prediction_significance/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:59,537 copying build/lib/rna_tools/tools/rna_prediction_significance/rna_prediction_significance.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:59,539 copying build/lib/rna_tools/tools/rna_prediction_significance/LICENSE -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:59,542 copying build/lib/rna_tools/tools/rna_prediction_significance/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance 2026-02-14T09:49:59,545 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance/opt 2026-02-14T09:49:59,546 copying build/lib/rna_tools/tools/rna_prediction_significance/opt/RNA_PredictionSignificance.cpp -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_prediction_significance/opt 2026-02-14T09:49:59,549 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6 2026-02-14T09:49:59,550 copying build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/select_seq_fromBLAStn_6outfm.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6 2026-02-14T09:49:59,552 copying build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6 2026-02-14T09:49:59,555 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:59,556 copying build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/output_55 -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:59,558 copying build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/db_nt_out.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:59,560 copying build/lib/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/db_nt.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data 2026-02-14T09:49:59,563 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,564 copying build/lib/rna_tools/tools/rna_calc_hbonds/pymol_list_hbonds.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,567 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/docs 2026-02-14T09:49:59,568 copying build/lib/rna_tools/tools/rna_calc_hbonds/docs/hbonds_pymol.jpg -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/docs 2026-02-14T09:49:59,575 copying build/lib/rna_tools/tools/rna_calc_hbonds/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,577 copying build/lib/rna_tools/tools/rna_calc_hbonds/mdanalysis_hbonds.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,579 copying build/lib/rna_tools/tools/rna_calc_hbonds/rna_calc_hbonds.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,582 copying build/lib/rna_tools/tools/rna_calc_hbonds/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,584 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,585 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr.pse -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,589 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,592 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera_onlyBases.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,594 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA_ha.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,596 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA_ha.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,598 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera_onlyBases.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,601 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,604 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,606 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,608 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addh.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,611 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_bases_only_addhpymol.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,613 copying build/lib/rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_bases_only.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds/test_data 2026-02-14T09:49:59,616 copying build/lib/rna_tools/tools/rna_calc_hbonds/mdtraj_hbonds.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,618 copying build/lib/rna_tools/tools/rna_calc_hbonds/pytraj_hbond.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_calc_hbonds 2026-02-14T09:49:59,620 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,622 copying build/lib/rna_tools/tools/triplexibility/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,624 copying build/lib/rna_tools/tools/triplexibility/trx_analysis.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,626 copying build/lib/rna_tools/tools/triplexibility/process_triple.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,628 copying build/lib/rna_tools/tools/triplexibility/trx_mutagen_allvsall.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,631 copying build/lib/rna_tools/tools/triplexibility/trx_analysis.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,633 copying build/lib/rna_tools/tools/triplexibility/download-all.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,635 copying build/lib/rna_tools/tools/triplexibility/download-all-pdbs.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,638 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/db 2026-02-14T09:49:59,639 copying build/lib/rna_tools/tools/triplexibility/db/gendb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/db 2026-02-14T09:49:59,642 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,643 copying build/lib/rna_tools/tools/triplexibility/data/t1-1-Triple_cWW_cHS_GCU_exemplar_rpr_fx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,646 copying build/lib/rna_tools/tools/triplexibility/data/cWW_cHS_GCU.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,648 copying build/lib/rna_tools/tools/triplexibility/data/db.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,651 copying build/lib/rna_tools/tools/triplexibility/data/db_trx2.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,653 copying build/lib/rna_tools/tools/triplexibility/data/XcWWX.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,655 copying build/lib/rna_tools/tools/triplexibility/data/t1-1-Triple_cWW_cHS_GCU_exemplar_rpr_fx.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility/data 2026-02-14T09:49:59,658 copying build/lib/rna_tools/tools/triplexibility/triple-db.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,664 copying build/lib/rna_tools/tools/triplexibility/trx-mutget-t1-2.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,666 copying build/lib/rna_tools/tools/triplexibility/triplexibility2.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,668 copying build/lib/rna_tools/tools/triplexibility/trx_score.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,670 copying build/lib/rna_tools/tools/triplexibility/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,672 copying build/lib/rna_tools/tools/triplexibility/trx_score_onCol_allvsall.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,674 copying build/lib/rna_tools/tools/triplexibility/trx_score_onCol.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,677 copying build/lib/rna_tools/tools/triplexibility/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,678 copying build/lib/rna_tools/tools/triplexibility/lib.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,681 copying build/lib/rna_tools/tools/triplexibility/trx_score_growth.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,682 copying build/lib/rna_tools/tools/triplexibility/download-all-triples.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,684 copying build/lib/rna_tools/tools/triplexibility/trx-mutget-t1-1.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,686 copying build/lib/rna_tools/tools/triplexibility/trx_score_allvsall.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,688 copying build/lib/rna_tools/tools/triplexibility/triplexibility.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,690 copying build/lib/rna_tools/tools/triplexibility/test_all.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,692 copying build/lib/rna_tools/tools/triplexibility/splix.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,694 copying build/lib/rna_tools/tools/triplexibility/trx_mutagen.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,696 copying build/lib/rna_tools/tools/triplexibility/trx.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,698 copying build/lib/rna_tools/tools/triplexibility/trx.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/triplexibility 2026-02-14T09:49:59,700 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,701 copying build/lib/rna_tools/tools/rna_seq_identity/pairwase.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,703 copying build/lib/rna_tools/tools/rna_seq_identity/seq1.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,705 copying build/lib/rna_tools/tools/rna_seq_identity/seq12.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,707 copying build/lib/rna_tools/tools/rna_seq_identity/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,709 copying build/lib/rna_tools/tools/rna_seq_identity/seq2.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,711 copying build/lib/rna_tools/tools/rna_seq_identity/output.sto -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,713 copying build/lib/rna_tools/tools/rna_seq_identity/readme.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,716 copying build/lib/rna_tools/tools/rna_seq_identity/RF03167.cm -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_seq_identity 2026-02-14T09:49:59,720 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/extra_functions 2026-02-14T09:49:59,721 copying build/lib/rna_tools/tools/extra_functions/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/extra_functions 2026-02-14T09:49:59,723 copying build/lib/rna_tools/tools/extra_functions/numbering.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/extra_functions 2026-02-14T09:49:59,725 copying build/lib/rna_tools/tools/extra_functions/gen_numbering.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/extra_functions 2026-02-14T09:49:59,727 copying build/lib/rna_tools/tools/extra_functions/select_fragment.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/extra_functions 2026-02-14T09:49:59,731 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,732 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,733 copying build/lib/rna_tools/tools/mq/RASP/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,736 copying build/lib/rna_tools/tools/mq/RASP/rasp_for_pymol.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,738 copying build/lib/rna_tools/tools/mq/RASP/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,740 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,741 copying build/lib/rna_tools/tools/mq/RASP/test/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,744 copying build/lib/rna_tools/tools/mq/RASP/test/test_sorted_rasp_all.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,746 copying build/lib/rna_tools/tools/mq/RASP/test/17_Das_1_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,751 copying build/lib/rna_tools/tools/mq/RASP/test/test.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,753 copying build/lib/rna_tools/tools/mq/RASP/test/mq.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,756 copying build/lib/rna_tools/tools/mq/RASP/test/17_Das_4_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,761 copying build/lib/rna_tools/tools/mq/RASP/test/17_Bujnicki_7_rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,765 copying build/lib/rna_tools/tools/mq/RASP/test/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP/test 2026-02-14T09:49:59,768 copying build/lib/rna_tools/tools/mq/RASP/RASP.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,771 copying build/lib/rna_tools/tools/mq/RASP/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,773 copying build/lib/rna_tools/tools/mq/RASP/rna_mq_rasp.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RASP 2026-02-14T09:49:59,776 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA 2026-02-14T09:49:59,777 copying build/lib/rna_tools/tools/mq/FARNA/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA 2026-02-14T09:49:59,780 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:59,781 copying build/lib/rna_tools/tools/mq/FARNA/test_output/1y26X_output4_01-000001_AA.pdb_rna_mq_collect_FARNA_lores.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:59,783 copying build/lib/rna_tools/tools/mq/FARNA/test_output/1xjrA_rna_mq_collect_FARNA_hires.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:59,786 copying build/lib/rna_tools/tools/mq/FARNA/test_output/1y26X_output4_01-000001_AA.pdb_rna_mq_farna_lores.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA/test_output 2026-02-14T09:49:59,788 copying build/lib/rna_tools/tools/mq/FARNA/FARNA.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA 2026-02-14T09:49:59,791 copying build/lib/rna_tools/tools/mq/FARNA/rna_mq_farna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA 2026-02-14T09:49:59,794 copying build/lib/rna_tools/tools/mq/FARNA/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARNA 2026-02-14T09:49:59,796 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/tmp 2026-02-14T09:49:59,798 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx 2026-02-14T09:49:59,799 copying build/lib/rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx/configfile.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx 2026-02-14T09:49:59,802 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:59,803 copying build/lib/rna_tools/tools/mq/FARFAR2/rna_mq_farfar2.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:59,806 copying build/lib/rna_tools/tools/mq/FARFAR2/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:59,808 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:59,809 copying build/lib/rna_tools/tools/mq/FARFAR2/test_output/ff2_rna_mq_collect.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:59,811 copying build/lib/rna_tools/tools/mq/FARFAR2/test_output/.python-version -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:59,813 copying build/lib/rna_tools/tools/mq/FARFAR2/test_output/ff2.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:59,814 copying build/lib/rna_tools/tools/mq/FARFAR2/test_output/ff2_hires_rna_mq_collect.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:59,816 copying build/lib/rna_tools/tools/mq/FARFAR2/test_output/ff2_hires.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2/test_output 2026-02-14T09:49:59,818 copying build/lib/rna_tools/tools/mq/FARFAR2/FARFAR2.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:59,820 copying build/lib/rna_tools/tools/mq/FARFAR2/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/FARFAR2 2026-02-14T09:49:59,822 copying build/lib/rna_tools/tools/mq/rna_mq_remote.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,824 copying build/lib/rna_tools/tools/mq/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,826 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:59,827 copying build/lib/rna_tools/tools/mq/rsRNASP/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:59,829 copying build/lib/rna_tools/tools/mq/rsRNASP/rsRNASP.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:59,831 copying build/lib/rna_tools/tools/mq/rsRNASP/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:59,833 copying build/lib/rna_tools/tools/mq/rsRNASP/rna_mq_rsRNASP.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/rsRNASP 2026-02-14T09:49:59,835 copying build/lib/rna_tools/tools/mq/rna_mq_wx_collect.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,837 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAscore 2026-02-14T09:49:59,838 copying build/lib/rna_tools/tools/mq/RNAscore/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAscore 2026-02-14T09:49:59,840 copying build/lib/rna_tools/tools/mq/RNAscore/RNAscore.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAscore 2026-02-14T09:49:59,842 copying build/lib/rna_tools/tools/mq/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,844 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:59,845 copying build/lib/rna_tools/tools/mq/RNAkb/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:59,847 copying build/lib/rna_tools/tools/mq/RNAkb/RNAkb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:59,849 copying build/lib/rna_tools/tools/mq/RNAkb/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:59,851 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,852 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1msy_nt1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,855 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/C.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,857 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1duq.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,859 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1dqf.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,863 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,865 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,868 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/333d.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,870 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,873 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,875 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_noC.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,878 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1z58.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,963 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1ykq.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,967 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/434d.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,969 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1msy_output4_01-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,972 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1dqf_noCA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,975 copying build/lib/rna_tools/tools/mq/RNAkb/test_data/1dqf_noCA+ResnShift.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb/test_data 2026-02-14T09:49:59,978 copying build/lib/rna_tools/tools/mq/RNAkb/rna_mq_rnakb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNAkb 2026-02-14T09:49:59,980 copying build/lib/rna_tools/tools/mq/rna_mq_plot.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,981 copying build/lib/rna_tools/tools/mq/rna_mq_score.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:49:59,984 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:59,985 copying build/lib/rna_tools/tools/mq/eSCORE/rna_mq_eSCORE.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:59,987 copying build/lib/rna_tools/tools/mq/eSCORE/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:59,988 copying build/lib/rna_tools/tools/mq/eSCORE/eSCORE.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:59,990 copying build/lib/rna_tools/tools/mq/eSCORE/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE 2026-02-14T09:49:59,992 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE/test 2026-02-14T09:49:59,994 copying build/lib/rna_tools/tools/mq/eSCORE/test/escore.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/eSCORE/test 2026-02-14T09:49:59,998 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:49:59,999 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChains.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,003 copying build/lib/rna_tools/tools/mq/test/test2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,007 copying build/lib/rna_tools/tools/mq/test/test.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,010 copying build/lib/rna_tools/tools/mq/test/ggg-t1_yCs_5MPS.pdb2-21g-6-61g+80g-rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,015 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChainsAB.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,018 copying build/lib/rna_tools/tools/mq/test/1xjrA_M1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,021 copying build/lib/rna_tools/tools/mq/test/2pcw_1_2chains.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,026 copying build/lib/rna_tools/tools/mq/test/1y26X_output4_01-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,031 copying build/lib/rna_tools/tools/mq/test/1zhoH.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,035 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChainsOneChain.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,038 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,040 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,042 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_6.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,045 copying build/lib/rna_tools/tools/mq/test/dfire.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,046 copying build/lib/rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_x4chains.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,049 copying build/lib/rna_tools/tools/mq/test/6TNA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,056 copying build/lib/rna_tools/tools/mq/test/1xjrA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,060 copying build/lib/rna_tools/tools/mq/test/1xjrA_output4_04-000056_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,063 copying build/lib/rna_tools/tools/mq/test/1a9n.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,066 copying build/lib/rna_tools/tools/mq/test/all.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,068 copying build/lib/rna_tools/tools/mq/test/3e5f_output4_01-000001_AA+ResnShift.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,072 copying build/lib/rna_tools/tools/mq/test/1xjrA_M500.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,075 copying build/lib/rna_tools/tools/mq/test/1msy_output4_01-000001_AA_edited.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/test 2026-02-14T09:50:00,078 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/ClashScore 2026-02-14T09:50:00,079 copying build/lib/rna_tools/tools/mq/ClashScore/ClashScore.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/ClashScore 2026-02-14T09:50:00,081 copying build/lib/rna_tools/tools/mq/ClashScore/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/ClashScore 2026-02-14T09:50:00,083 copying build/lib/rna_tools/tools/mq/ClashScore/rna_mq_clashscore.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/ClashScore 2026-02-14T09:50:00,084 copying build/lib/rna_tools/tools/mq/ClashScore/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/ClashScore 2026-02-14T09:50:00,087 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS 2026-02-14T09:50:00,087 copying build/lib/rna_tools/tools/mq/QRNAS/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS 2026-02-14T09:50:00,089 copying build/lib/rna_tools/tools/mq/QRNAS/QRNAS.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS 2026-02-14T09:50:00,091 copying build/lib/rna_tools/tools/mq/QRNAS/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS 2026-02-14T09:50:00,093 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:50:00,094 copying build/lib/rna_tools/tools/mq/QRNAS/test/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:50:00,096 copying build/lib/rna_tools/tools/mq/QRNAS/test/unmod_Val3_tRNA_model_si.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:50:00,101 copying build/lib/rna_tools/tools/mq/QRNAS/test/test.output -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:50:00,103 copying build/lib/rna_tools/tools/mq/QRNAS/test/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:50:00,105 copying build/lib/rna_tools/tools/mq/QRNAS/test/1a9n.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/QRNAS/test 2026-02-14T09:50:00,109 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/Dfire 2026-02-14T09:50:00,110 copying build/lib/rna_tools/tools/mq/Dfire/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/Dfire 2026-02-14T09:50:00,111 copying build/lib/rna_tools/tools/mq/Dfire/Dfire.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/Dfire 2026-02-14T09:50:00,113 copying build/lib/rna_tools/tools/mq/Dfire/rna_mq_dfire.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/Dfire 2026-02-14T09:50:00,115 copying build/lib/rna_tools/tools/mq/Dfire/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/Dfire 2026-02-14T09:50:00,117 copying build/lib/rna_tools/tools/mq/Dfire/test.output -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/Dfire 2026-02-14T09:50:00,119 copying build/lib/rna_tools/tools/mq/rna_mq_collect.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:50:00,122 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib 2026-02-14T09:50:00,123 copying build/lib/rna_tools/tools/mq/lib/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib 2026-02-14T09:50:00,125 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:50:00,126 copying build/lib/rna_tools/tools/mq/lib/wrappers/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:50:00,127 copying build/lib/rna_tools/tools/mq/lib/wrappers/base_wrappers.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:50:00,130 copying build/lib/rna_tools/tools/mq/lib/wrappers/SubprocessUtils.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:50:00,132 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers/test 2026-02-14T09:50:00,133 copying build/lib/rna_tools/tools/mq/lib/wrappers/test/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers/test 2026-02-14T09:50:00,134 copying build/lib/rna_tools/tools/mq/lib/wrappers/test/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers/test 2026-02-14T09:50:00,136 copying build/lib/rna_tools/tools/mq/lib/wrappers/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/wrappers 2026-02-14T09:50:00,138 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/timex 2026-02-14T09:50:00,139 copying build/lib/rna_tools/tools/mq/lib/timex/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/timex 2026-02-14T09:50:00,141 copying build/lib/rna_tools/tools/mq/lib/timex/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/timex 2026-02-14T09:50:00,142 copying build/lib/rna_tools/tools/mq/lib/timex/timex.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/timex 2026-02-14T09:50:00,144 copying build/lib/rna_tools/tools/mq/lib/timex/LICENSE -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/timex 2026-02-14T09:50:00,147 copying build/lib/rna_tools/tools/mq/lib/timex/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/timex 2026-02-14T09:50:00,149 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:50:00,149 copying build/lib/rna_tools/tools/mq/lib/shellgraphics/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:50:00,151 copying build/lib/rna_tools/tools/mq/lib/shellgraphics/output.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:50:00,153 copying build/lib/rna_tools/tools/mq/lib/shellgraphics/shellgraphics.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:50:00,155 copying build/lib/rna_tools/tools/mq/lib/shellgraphics/LICENSE -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:50:00,158 copying build/lib/rna_tools/tools/mq/lib/shellgraphics/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/lib/shellgraphics 2026-02-14T09:50:00,160 copying build/lib/rna_tools/tools/mq/rna_mq_exp.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:50:00,162 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:50:00,163 copying build/lib/rna_tools/tools/mq/AnalyzeGeometry/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:50:00,164 copying build/lib/rna_tools/tools/mq/AnalyzeGeometry/AnalyzeGeometry.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:50:00,167 copying build/lib/rna_tools/tools/mq/AnalyzeGeometry/rna_mq_analyzegeometry.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:50:00,168 copying build/lib/rna_tools/tools/mq/AnalyzeGeometry/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/AnalyzeGeometry 2026-02-14T09:50:00,170 copying build/lib/rna_tools/tools/mq/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:50:00,172 copying build/lib/rna_tools/tools/mq/rna_mq_collect_tqdm.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq 2026-02-14T09:50:00,175 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA 2026-02-14T09:50:00,176 copying build/lib/rna_tools/tools/mq/SimRNA/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA 2026-02-14T09:50:00,177 copying build/lib/rna_tools/tools/mq/SimRNA/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA 2026-02-14T09:50:00,179 copying build/lib/rna_tools/tools/mq/SimRNA/SimRNA.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA 2026-02-14T09:50:00,182 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:50:00,183 copying build/lib/rna_tools/tools/mq/SimRNA/test/1duq_clx_decoy4_clx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:50:00,186 copying build/lib/rna_tools/tools/mq/SimRNA/test/output.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:50:00,188 copying build/lib/rna_tools/tools/mq/SimRNA/test/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA/test 2026-02-14T09:50:00,189 copying build/lib/rna_tools/tools/mq/SimRNA/rna_mq_simrna.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/SimRNA 2026-02-14T09:50:00,192 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:50:00,193 copying build/lib/rna_tools/tools/mq/RNA3DCNN/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:50:00,194 copying build/lib/rna_tools/tools/mq/RNA3DCNN/rna_mq_rna3dcnn.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:50:00,196 copying build/lib/rna_tools/tools/mq/RNA3DCNN/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:50:00,198 copying build/lib/rna_tools/tools/mq/RNA3DCNN/RNA3DCNN.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:50:00,200 copying build/lib/rna_tools/tools/mq/RNA3DCNN/test.output -> build/bdist.linux-armv7l/wheel/rna_tools/tools/mq/RNA3DCNN 2026-02-14T09:50:00,202 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:50:00,203 copying build/lib/rna_tools/tools/rna_sali2dotbracket/README.MD -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:50:00,205 copying build/lib/rna_tools/tools/rna_sali2dotbracket/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:50:00,206 copying build/lib/rna_tools/tools/rna_sali2dotbracket/rna_sali2dotbracket.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket 2026-02-14T09:50:00,208 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket/test_data 2026-02-14T09:50:00,209 copying build/lib/rna_tools/tools/rna_sali2dotbracket/test_data/IA1.sali -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket/test_data 2026-02-14T09:50:00,213 copying build/lib/rna_tools/tools/rna_sali2dotbracket/test_data/IA1_dotbracket.txt -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_sali2dotbracket/test_data 2026-02-14T09:50:00,217 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,218 copying build/lib/rna_tools/tools/rna_rosetta/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,220 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_extract.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,222 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_min.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,224 copying build/lib/rna_tools/tools/rna_rosetta/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,226 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_silent_random.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,228 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_head.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,230 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_extract_lowscore_decoys.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,231 copying build/lib/rna_tools/tools/rna_rosetta/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,233 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_easy_cat.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,235 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_check_progress.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,238 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,239 copying build/lib/rna_tools/tools/rna_rosetta/test_data/a04.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,240 copying build/lib/rna_tools/tools/rna_rosetta/test_data/a99.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,242 copying build/lib/rna_tools/tools/rna_rosetta/test_data/selected.out.rand2.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,246 copying build/lib/rna_tools/tools/rna_rosetta/test_data/S_000027_058.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,250 copying build/lib/rna_tools/tools/rna_rosetta/test_data/S_000035_003.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,253 copying build/lib/rna_tools/tools/rna_rosetta/test_data/selected.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,261 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,262 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/qsubMINI -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,264 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/ss.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,266 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/CMDLINES -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,267 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/helix0.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,269 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/seq.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,271 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/tl.params -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,273 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/helix0.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,281 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/input.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,283 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/tl.fasta -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,284 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tl/helix0.params -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data/tl 2026-02-14T09:50:00,286 copying build/lib/rna_tools/tools/rna_rosetta/test_data/selected.out.rand5.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,294 copying build/lib/rna_tools/tools/rna_rosetta/test_data/ade.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,296 copying build/lib/rna_tools/tools/rna_rosetta/test_data/tetraloop.fa -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,298 copying build/lib/rna_tools/tools/rna_rosetta/test_data/S_000020_024.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,301 copying build/lib/rna_tools/tools/rna_rosetta/test_data/S_000005_032.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,304 copying build/lib/rna_tools/tools/rna_rosetta/test_data/silent_sort.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta/test_data 2026-02-14T09:50:00,307 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_get_score.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,309 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_silent_file_sort_and_select.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,311 copying build/lib/rna_tools/tools/rna_rosetta/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,312 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_run.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,315 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_silent_split.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,317 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_n.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,319 copying build/lib/rna_tools/tools/rna_rosetta/rna_rosetta_cluster.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_rosetta 2026-02-14T09:50:00,321 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,322 copying build/lib/rna_tools/tools/PyMOL4RNA/PyMOL4RNA.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,326 copying build/lib/rna_tools/tools/PyMOL4RNA/rnapuzzles.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,328 copying build/lib/rna_tools/tools/PyMOL4RNA/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,330 copying build/lib/rna_tools/tools/PyMOL4RNA/code_for_color_spl.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,333 copying build/lib/rna_tools/tools/PyMOL4RNA/PyMOL4Spliceosome.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,337 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,338 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/pdb.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,347 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/rna.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,351 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/rs.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,355 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/pucker.jpg -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,359 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/ss.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,374 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/run.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,391 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/p.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,396 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/ion.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,405 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/pymol4spliceosome.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,438 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/spl.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,469 copying build/lib/rna_tools/tools/PyMOL4RNA/doc/clarna.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/doc 2026-02-14T09:50:00,473 copying build/lib/rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL-2020.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,476 copying build/lib/rna_tools/tools/PyMOL4RNA/external_flatten_object.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,478 copying build/lib/rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,480 copying build/lib/rna_tools/tools/PyMOL4RNA/code_for_spl.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,483 copying build/lib/rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.xlsx -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,486 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/test_data 2026-02-14T09:50:00,487 copying build/lib/rna_tools/tools/PyMOL4RNA/test_data/5k7c_clean.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/test_data 2026-02-14T09:50:00,493 copying build/lib/rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,496 copying build/lib/rna_tools/tools/PyMOL4RNA/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,498 copying build/lib/rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL-2022.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,501 copying build/lib/rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.ipynb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,505 copying build/lib/rna_tools/tools/PyMOL4RNA/rna_draw_edges.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA 2026-02-14T09:50:00,508 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,509 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/get_raw_distances.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,512 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,514 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/calc_gdt.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,517 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/colorbyrmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,520 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/show_contacts.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,523 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/pymol_daslab.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,526 copying build/lib/rna_tools/tools/PyMOL4RNA/libs/pucker.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/PyMOL4RNA/libs 2026-02-14T09:50:00,530 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_bp 2026-02-14T09:50:00,532 copying build/lib/rna_tools/tools/rna_bp/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_bp 2026-02-14T09:50:00,534 copying build/lib/rna_tools/tools/rna_bp/base_pair.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_bp 2026-02-14T09:50:00,538 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis 2026-02-14T09:50:00,540 copying build/lib/rna_tools/tools/rna_helix_vis/rna_helix_vis.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis 2026-02-14T09:50:00,543 copying build/lib/rna_tools/tools/rna_helix_vis/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis 2026-02-14T09:50:00,546 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis/doc 2026-02-14T09:50:00,548 copying build/lib/rna_tools/tools/rna_helix_vis/doc/rna_helix_vis.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis/doc 2026-02-14T09:50:00,554 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis/test_data 2026-02-14T09:50:00,556 copying build/lib/rna_tools/tools/rna_helix_vis/test_data/rp14.ss -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis/test_data 2026-02-14T09:50:00,559 copying build/lib/rna_tools/tools/rna_helix_vis/test_data/rp14_farna_eloop.out.1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis/test_data 2026-02-14T09:50:00,566 copying build/lib/rna_tools/tools/rna_helix_vis/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_helix_vis 2026-02-14T09:50:00,570 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,571 copying build/lib/rna_tools/tools/pdb_formatix/test-quick-and-dirty.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,574 copying build/lib/rna_tools/tools/pdb_formatix/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,576 copying build/lib/rna_tools/tools/pdb_formatix/rebuilder.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,579 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,581 copying build/lib/rna_tools/tools/pdb_formatix/test/protein.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,585 copying build/lib/rna_tools/tools/pdb_formatix/test/test_nmr.in -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,607 copying build/lib/rna_tools/tools/pdb_formatix/test/sample_for_distance.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,609 copying build/lib/rna_tools/tools/pdb_formatix/test/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,611 copying build/lib/rna_tools/tools/pdb_formatix/test/test_nmr_atom.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,625 copying build/lib/rna_tools/tools/pdb_formatix/test/test1.in -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,627 copying build/lib/rna_tools/tools/pdb_formatix/test/1xjrA_M1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,631 copying build/lib/rna_tools/tools/pdb_formatix/test/1kxkA_rasp.native.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,635 copying build/lib/rna_tools/tools/pdb_formatix/test/1xjrA_M1+ter.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,639 copying build/lib/rna_tools/tools/pdb_formatix/test/test0.in -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,644 copying build/lib/rna_tools/tools/pdb_formatix/test/test0.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,647 copying build/lib/rna_tools/tools/pdb_formatix/test/test0_3to1.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,652 copying build/lib/rna_tools/tools/pdb_formatix/test/test.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,654 copying build/lib/rna_tools/tools/pdb_formatix/test/test1.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,656 copying build/lib/rna_tools/tools/pdb_formatix/test/test_nmr.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix/test 2026-02-14T09:50:00,659 copying build/lib/rna_tools/tools/pdb_formatix/PDBFile.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,662 copying build/lib/rna_tools/tools/pdb_formatix/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,664 copying build/lib/rna_tools/tools/pdb_formatix/SingleLineUtils.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,666 copying build/lib/rna_tools/tools/pdb_formatix/RosettaUtils.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pdb_formatix 2026-02-14T09:50:00,669 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_get_restraints 2026-02-14T09:50:00,670 copying build/lib/rna_tools/tools/rna_get_restraints/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_get_restraints 2026-02-14T09:50:00,672 copying build/lib/rna_tools/tools/rna_get_restraints/rna_simrna_get_restraints_vs_all.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_get_restraints 2026-02-14T09:50:00,674 copying build/lib/rna_tools/tools/rna_get_restraints/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_get_restraints 2026-02-14T09:50:00,676 copying build/lib/rna_tools/tools/rna_get_restraints/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_get_restraints 2026-02-14T09:50:00,678 copying build/lib/rna_tools/tools/rna_get_restraints/rna_farna_get_restraints_vs_all.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_get_restraints 2026-02-14T09:50:00,681 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,682 copying build/lib/rna_tools/tools/df/rna_df_concat.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,684 copying build/lib/rna_tools/tools/df/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,686 copying build/lib/rna_tools/tools/df/rna_df_merge_two.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,689 copying build/lib/rna_tools/tools/df/rna_df_merge.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,691 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,692 copying build/lib/rna_tools/tools/df/test_data/rna_df_merge_on.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,695 copying build/lib/rna_tools/tools/df/test_data/min_4.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,697 copying build/lib/rna_tools/tools/df/test_data/min_3.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,699 copying build/lib/rna_tools/tools/df/test_data/rna_df_merge.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,701 copying build/lib/rna_tools/tools/df/test_data/rna_df_concat.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,703 copying build/lib/rna_tools/tools/df/test_data/d8.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,705 copying build/lib/rna_tools/tools/df/test_data/d3.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,708 copying build/lib/rna_tools/tools/df/test_data/cgc_rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,710 copying build/lib/rna_tools/tools/df/test_data/cga_rmsd.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,712 copying build/lib/rna_tools/tools/df/test_data/min_2.csv -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df/test_data 2026-02-14T09:50:00,714 copying build/lib/rna_tools/tools/df/rna_df_merge_on.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,716 copying build/lib/rna_tools/tools/df/rna_df_csv_sort.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/df 2026-02-14T09:50:00,718 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing 2026-02-14T09:50:00,719 copying build/lib/rna_tools/tools/pymol_drawing/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing 2026-02-14T09:50:00,722 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:50:00,723 copying build/lib/rna_tools/tools/pymol_drawing/docs/draw_vector.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:50:00,726 copying build/lib/rna_tools/tools/pymol_drawing/docs/draw_circle.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:50:00,729 copying build/lib/rna_tools/tools/pymol_drawing/docs/draw_dist.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing/docs 2026-02-14T09:50:00,733 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing/test_data 2026-02-14T09:50:00,735 copying build/lib/rna_tools/tools/pymol_drawing/test_data/CG.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing/test_data 2026-02-14T09:50:00,737 copying build/lib/rna_tools/tools/pymol_drawing/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing 2026-02-14T09:50:00,739 copying build/lib/rna_tools/tools/pymol_drawing/pymol_drawing.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/pymol_drawing 2026-02-14T09:50:00,741 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb 2026-02-14T09:50:00,742 copying build/lib/rna_tools/tools/diffpdb/.gitignore -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb 2026-02-14T09:50:00,744 copying build/lib/rna_tools/tools/diffpdb/__init__.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb 2026-02-14T09:50:00,746 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,747 copying build/lib/rna_tools/tools/diffpdb/doc/missing-atoms.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,756 copying build/lib/rna_tools/tools/diffpdb/doc/missing-op3.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,763 copying build/lib/rna_tools/tools/diffpdb/doc/screenshot2.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,768 copying build/lib/rna_tools/tools/diffpdb/doc/atom-variants.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,770 copying build/lib/rna_tools/tools/diffpdb/doc/diffpdb_osx_diffmerge.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,778 copying build/lib/rna_tools/tools/diffpdb/doc/screenshot.png -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/doc 2026-02-14T09:50:00,784 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/output 2026-02-14T09:50:00,785 copying build/lib/rna_tools/tools/diffpdb/output/2_str1_vs_str2.html -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/output 2026-02-14T09:50:00,788 copying build/lib/rna_tools/tools/diffpdb/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb 2026-02-14T09:50:00,790 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,792 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/1 2026-02-14T09:50:00,793 copying build/lib/rna_tools/tools/diffpdb/test_data/1/1kxkA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/1 2026-02-14T09:50:00,799 copying build/lib/rna_tools/tools/diffpdb/test_data/1/1kxkA_M1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/1 2026-02-14T09:50:00,805 copying build/lib/rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,808 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/4 2026-02-14T09:50:00,809 copying build/lib/rna_tools/tools/diffpdb/test_data/4/1duq.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/4 2026-02-14T09:50:00,812 copying build/lib/rna_tools/tools/diffpdb/test_data/4/1duq_decoy0171_amb_clx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/4 2026-02-14T09:50:00,816 copying build/lib/rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr_min.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,821 copying build/lib/rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,824 copying build/lib/rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA.pdb.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,827 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/3.ident 2026-02-14T09:50:00,828 copying build/lib/rna_tools/tools/diffpdb/test_data/3.ident/str1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/3.ident 2026-02-14T09:50:00,830 copying build/lib/rna_tools/tools/diffpdb/test_data/3.ident/str2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/3.ident 2026-02-14T09:50:00,832 copying build/lib/rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,836 copying build/lib/rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,838 copying build/lib/rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,841 copying build/lib/rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA_min.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,844 copying build/lib/rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,848 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/2 2026-02-14T09:50:00,849 copying build/lib/rna_tools/tools/diffpdb/test_data/2/str1.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/2 2026-02-14T09:50:00,851 copying build/lib/rna_tools/tools/diffpdb/test_data/2/str2.pdb -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data/2 2026-02-14T09:50:00,853 copying build/lib/rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0.pdb.out -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/test_data 2026-02-14T09:50:00,855 copying build/lib/rna_tools/tools/diffpdb/diffpdb.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb 2026-02-14T09:50:00,858 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/lib 2026-02-14T09:50:00,859 copying build/lib/rna_tools/tools/diffpdb/lib/diff2html.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb/lib 2026-02-14T09:50:00,862 copying build/lib/rna_tools/tools/diffpdb/README.md -> build/bdist.linux-armv7l/wheel/rna_tools/tools/diffpdb 2026-02-14T09:50:00,864 creating build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,865 copying build/lib/rna_tools/tools/rna_binding_affinity/rna_dG2kd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,867 copying build/lib/rna_tools/tools/rna_binding_affinity/rna_kd2pkd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,869 copying build/lib/rna_tools/tools/rna_binding_affinity/test.sh -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,871 copying build/lib/rna_tools/tools/rna_binding_affinity/rna_pkd2kd.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,873 copying build/lib/rna_tools/tools/rna_binding_affinity/rna_kd2dG.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,875 copying build/lib/rna_tools/tools/rna_binding_affinity/rna_pkd2dG.py -> build/bdist.linux-armv7l/wheel/rna_tools/tools/rna_binding_affinity 2026-02-14T09:50:00,877 copying build/lib/rna_tools/shell_rc.sh -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,879 copying build/lib/rna_tools/BlastPDB.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,881 copying build/lib/rna_tools/rna_calc_fenergy.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,883 copying build/lib/rna_tools/update_readme.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,885 copying build/lib/rna_tools/stats.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,887 copying build/lib/rna_tools/pytest.ini -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,889 copying build/lib/rna_tools/rna_standardize.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,891 copying build/lib/rna_tools/RfamSearch.py -> build/bdist.linux-armv7l/wheel/rna_tools 2026-02-14T09:50:00,894 creating build/bdist.linux-armv7l/wheel/tests 2026-02-14T09:50:00,895 copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/tests 2026-02-14T09:50:00,897 copying build/lib/tests/test_module.py -> build/bdist.linux-armv7l/wheel/tests 2026-02-14T09:50:00,898 running install_egg_info 2026-02-14T09:50:00,913 Copying rna_tools.egg-info to build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3-py3.11.egg-info 2026-02-14T09:50:00,926 running install_scripts 2026-02-14T09:50:00,930 creating build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data 2026-02-14T09:50:00,930 creating build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,931 copying build/scripts-3.11/rna_pdb_merge_structure_with_fragments.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,934 copying build/scripts-3.11/rna_align_coverage.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,936 copying build/scripts-3.11/select_seq_fromBLAStn_6outfm.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,938 copying build/scripts-3.11/rna_plot_density.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,940 copying build/scripts-3.11/pymol_color_by_conserv.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,941 copying build/scripts-3.11/rna_refinement.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,944 copying build/scripts-3.11/rna_mq_farfar2.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,946 copying build/scripts-3.11/rna_cif2pdb.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,948 copying build/scripts-3.11/rna_align_fetch_seed.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,950 copying build/scripts-3.11/rna_plot_dendogram.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,952 copying build/scripts-3.11/rna_test_cuda.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,954 copying build/scripts-3.11/rna_simrna_lowest.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,956 copying build/scripts-3.11/rna_calc_rmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,959 copying build/scripts-3.11/translate.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,961 copying build/scripts-3.11/rna_pdb_fetch.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,963 copying build/scripts-3.11/rna_mq_remote.sh -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,965 copying build/scripts-3.11/rna_rosetta_extract.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,967 copying build/scripts-3.11/rna_x3dna.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,969 copying build/scripts-3.11/rna_mq_eSCORE.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,971 copying build/scripts-3.11/rna_align_foldability.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,973 copying build/scripts-3.11/rna_helix_vis.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,975 copying build/scripts-3.11/rna_calc_evo_rmsd.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,978 copying build/scripts-3.11/rna_rosetta_min.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,980 copying build/scripts-3.11/rna_ss_get_bps.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,982 copying build/scripts-3.11/rna_pdb_tools.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,986 copying build/scripts-3.11/rna_traj_range.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,988 copying build/scripts-3.11/rna_pdb_merge_into_one.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,990 copying build/scripts-3.11/rna_alignment_r2r.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,992 copying build/scripts-3.11/rna_dot2ct.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,994 copying build/scripts-3.11/rna_pairs2SimRNArestrs.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,996 copying build/scripts-3.11/rna_sali2dotbracket.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:00,998 copying build/scripts-3.11/rna_mq_rna3dcnn.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,000 copying build/scripts-3.11/rna_mq_clashscore.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,001 copying build/scripts-3.11/rna_simrna_cluster.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,003 copying build/scripts-3.11/trx_mutagen_allvsall.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,005 copying build/scripts-3.11/rna_gromacs_ready.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,007 copying build/scripts-3.11/rna_pdb_edit_occupancy_bfactor.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,009 copying build/scripts-3.11/rna_calc_rmsd_biopython.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,013 copying build/scripts-3.11/rna_traj_n.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,015 copying build/scripts-3.11/rna_calc_inf.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,017 copying build/scripts-3.11/rna_mq_wx_collect.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,019 copying build/scripts-3.11/rna_traj_nohetm.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,021 copying build/scripts-3.11/rna_mq_farna.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,023 copying build/scripts-3.11/rna_prediction_significance.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,025 copying build/scripts-3.11/rna_torsions.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,027 copying build/scripts-3.11/rna_dG2kd.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,029 copying build/scripts-3.11/rna_simrna_extract.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,031 copying build/scripts-3.11/rna_pk_simrna_to_one_line.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,033 copying build/scripts-3.11/rna_rosetta_silent_random.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,035 copying build/scripts-3.11/rna_md.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,037 copying build/scripts-3.11/rna_calc_rmsd_multi_targets.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,039 copying build/scripts-3.11/rna_align_strip_stk.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,041 copying build/scripts-3.11/rna_pdb_inspect.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,043 copying build/scripts-3.11/rna_pdb_fetch_header.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,045 copying build/scripts-3.11/rna_df_concat.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,047 copying build/scripts-3.11/rna_rosetta_head.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,049 copying build/scripts-3.11/triplexibility2.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,051 copying build/scripts-3.11/rna_align_fetch_cm.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,053 copying build/scripts-3.11/rna_dict2fasta.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,055 copying build/scripts-3.11/rna_kd2pkd.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,057 copying build/scripts-3.11/clarna.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,060 copying build/scripts-3.11/rna_workflow.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,062 copying build/scripts-3.11/rna_align_find_core.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,063 copying build/scripts-3.11/rna_rosetta_extract_lowscore_decoys.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,065 copying build/scripts-3.11/trx_score.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,067 copying build/scripts-3.11/pymol_preview_install.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,069 copying build/scripts-3.11/rna_mq_analyzegeometry.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,071 copying build/scripts-3.11/rna_ec2x.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,073 copying build/scripts-3.11/rna_mq_dfire.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,075 copying build/scripts-3.11/rna_align_get_ss_from_stk.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,076 copying build/scripts-3.11/rna_plot_boxplotlike.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,078 copying build/scripts-3.11/rna_mq_rsRNASP.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,080 copying build/scripts-3.11/rna_clarna_compare.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,083 copying build/scripts-3.11/rna_secondary_structure_prediction.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,085 copying build/scripts-3.11/rna_mq_plot.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,087 copying build/scripts-3.11/rna_mq_score.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,089 copying build/scripts-3.11/pdbs_measure_atom_dists.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,092 copying build/scripts-3.11/rna_plot_alignment_bounds.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,095 copying build/scripts-3.11/rna_filter.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,097 copying build/scripts-3.11/trx_score_onCol.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,099 copying build/scripts-3.11/rna_tools_demo.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,101 copying build/scripts-3.11/rna_plot_heatmap.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,102 copying build/scripts-3.11/rna_pairs_diff.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,104 copying build/scripts-3.11/rna_pdb_replace.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,106 copying build/scripts-3.11/rna_df_merge_two.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,108 copying build/scripts-3.11/rna_rosetta_check_progress.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,111 copying build/scripts-3.11/rna_calc_rmsd_all_vs_all.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,113 copying build/scripts-3.11/rna_calc_hbonds.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,115 copying build/scripts-3.11/rna_align_sto2csv.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,117 copying build/scripts-3.11/rna_simrnaweb_download_job.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,119 copying build/scripts-3.11/rna_plot_hist.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,121 copying build/scripts-3.11/rna_df_merge.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,123 copying build/scripts-3.11/rna_pkd2kd.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,125 copying build/scripts-3.11/rna_alignment_process_id.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,127 copying build/scripts-3.11/rna_tools_which.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,128 copying build/scripts-3.11/rna_mq_collect.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,131 copying build/scripts-3.11/rna_minimize.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,133 copying build/scripts-3.11/trx_score_allvsall.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,135 copying build/scripts-3.11/rna_df_merge_on.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,137 copying build/scripts-3.11/diffpdb.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,139 copying build/scripts-3.11/rna_df_csv_sort.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,141 copying build/scripts-3.11/rna_rosetta_get_score.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,143 copying build/scripts-3.11/rna_alignment_get_species.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,145 copying build/scripts-3.11/rna_rosetta_silent_file_sort_and_select.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,147 copying build/scripts-3.11/rna_mq_exp.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,149 copying build/scripts-3.11/triplexibility.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,152 copying build/scripts-3.11/rna_kd2dG.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,153 copying build/scripts-3.11/rna_mq_simrna.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,155 copying build/scripts-3.11/renum_pdb_to_aln.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,157 copying build/scripts-3.11/rna_calc_fenergy.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,159 copying build/scripts-3.11/rna_clarna2graph.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,161 copying build/scripts-3.11/rna_download_rfam.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,162 copying build/scripts-3.11/rna_pkd2dG.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,164 copying build/scripts-3.11/rna_ok -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,166 copying build/scripts-3.11/rna_rosetta_run.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,168 copying build/scripts-3.11/rna_clarna_run.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,171 copying build/scripts-3.11/rna_rosetta_silent_split.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,173 copying build/scripts-3.11/rna_rosetta_n.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,175 copying build/scripts-3.11/trx_mutagen.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,177 copying build/scripts-3.11/rna_mq_rasp.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,179 copying build/scripts-3.11/rna_clarna_app.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,181 copying build/scripts-3.11/rna_standardize.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,183 copying build/scripts-3.11/reverse.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,185 copying build/scripts-3.11/rna_clanstix.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,188 copying build/scripts-3.11/random_assignment_of_nucleotides.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,190 copying build/scripts-3.11/rna_mq_rnakb.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,192 copying build/scripts-3.11/rna_add_chain.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,194 copying build/scripts-3.11/rna_ok_mail.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,196 copying build/scripts-3.11/rna_draw_edges.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,198 copying build/scripts-3.11/rna_align_seq_to_alignment.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,200 copying build/scripts-3.11/rna_align_find_seq_in_alignment.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,202 copying build/scripts-3.11/rna_rosetta_cluster.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,204 copying build/scripts-3.11/rna_calc_rmsd_trafl.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,206 copying build/scripts-3.11/rna_cal_rmsd_trafl_plot.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,208 copying build/scripts-3.11/pymol_preview_generator.py -> build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts 2026-02-14T09:50:01,210 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_merge_structure_with_fragments.py to 755 2026-02-14T09:50:01,210 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_coverage.py to 755 2026-02-14T09:50:01,211 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/select_seq_fromBLAStn_6outfm.py to 755 2026-02-14T09:50:01,211 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_plot_density.py to 755 2026-02-14T09:50:01,212 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/pymol_color_by_conserv.py to 755 2026-02-14T09:50:01,212 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_refinement.py to 755 2026-02-14T09:50:01,213 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_farfar2.py to 755 2026-02-14T09:50:01,213 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_cif2pdb.py to 755 2026-02-14T09:50:01,213 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_fetch_seed.py to 755 2026-02-14T09:50:01,214 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_plot_dendogram.py to 755 2026-02-14T09:50:01,214 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_test_cuda.py to 755 2026-02-14T09:50:01,215 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_simrna_lowest.py to 755 2026-02-14T09:50:01,215 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd.py to 755 2026-02-14T09:50:01,216 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/translate.py to 755 2026-02-14T09:50:01,216 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_fetch.py to 755 2026-02-14T09:50:01,217 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_remote.sh to 755 2026-02-14T09:50:01,217 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_extract.py to 755 2026-02-14T09:50:01,217 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_x3dna.py to 755 2026-02-14T09:50:01,218 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_eSCORE.py to 755 2026-02-14T09:50:01,218 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_foldability.py to 755 2026-02-14T09:50:01,219 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_helix_vis.py to 755 2026-02-14T09:50:01,219 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_evo_rmsd.py to 755 2026-02-14T09:50:01,220 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_min.py to 755 2026-02-14T09:50:01,220 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_ss_get_bps.py to 755 2026-02-14T09:50:01,221 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_tools.py to 755 2026-02-14T09:50:01,221 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_traj_range.py to 755 2026-02-14T09:50:01,222 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_merge_into_one.py to 755 2026-02-14T09:50:01,222 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_alignment_r2r.py to 755 2026-02-14T09:50:01,223 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_dot2ct.py to 755 2026-02-14T09:50:01,223 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pairs2SimRNArestrs.py to 755 2026-02-14T09:50:01,224 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_sali2dotbracket.py to 755 2026-02-14T09:50:01,224 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rna3dcnn.py to 755 2026-02-14T09:50:01,225 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_clashscore.py to 755 2026-02-14T09:50:01,225 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_simrna_cluster.py to 755 2026-02-14T09:50:01,226 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/trx_mutagen_allvsall.py to 755 2026-02-14T09:50:01,226 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_gromacs_ready.py to 755 2026-02-14T09:50:01,226 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_edit_occupancy_bfactor.py to 755 2026-02-14T09:50:01,227 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_biopython.py to 755 2026-02-14T09:50:01,227 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_traj_n.py to 755 2026-02-14T09:50:01,228 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_inf.py to 755 2026-02-14T09:50:01,228 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_wx_collect.py to 755 2026-02-14T09:50:01,229 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_traj_nohetm.py to 755 2026-02-14T09:50:01,229 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_farna.py to 755 2026-02-14T09:50:01,229 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_prediction_significance.py to 755 2026-02-14T09:50:01,230 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_torsions.py to 755 2026-02-14T09:50:01,230 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_dG2kd.py to 755 2026-02-14T09:50:01,231 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_simrna_extract.py to 755 2026-02-14T09:50:01,231 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pk_simrna_to_one_line.py to 755 2026-02-14T09:50:01,232 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_silent_random.py to 755 2026-02-14T09:50:01,232 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_md.py to 755 2026-02-14T09:50:01,233 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_multi_targets.py to 755 2026-02-14T09:50:01,233 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_strip_stk.py to 755 2026-02-14T09:50:01,234 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_inspect.py to 755 2026-02-14T09:50:01,234 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_fetch_header.py to 755 2026-02-14T09:50:01,235 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_df_concat.py to 755 2026-02-14T09:50:01,235 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_head.py to 755 2026-02-14T09:50:01,236 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/triplexibility2.py to 755 2026-02-14T09:50:01,236 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_fetch_cm.py to 755 2026-02-14T09:50:01,237 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_dict2fasta.py to 755 2026-02-14T09:50:01,237 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_kd2pkd.py to 755 2026-02-14T09:50:01,238 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/clarna.py to 755 2026-02-14T09:50:01,238 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_workflow.py to 755 2026-02-14T09:50:01,238 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_find_core.py to 755 2026-02-14T09:50:01,239 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_extract_lowscore_decoys.py to 755 2026-02-14T09:50:01,239 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/trx_score.py to 755 2026-02-14T09:50:01,240 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/pymol_preview_install.py to 755 2026-02-14T09:50:01,240 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_analyzegeometry.py to 755 2026-02-14T09:50:01,241 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_ec2x.py to 755 2026-02-14T09:50:01,241 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_dfire.py to 755 2026-02-14T09:50:01,242 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_get_ss_from_stk.py to 755 2026-02-14T09:50:01,242 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_plot_boxplotlike.py to 755 2026-02-14T09:50:01,243 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rsRNASP.py to 755 2026-02-14T09:50:01,243 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_clarna_compare.py to 755 2026-02-14T09:50:01,244 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_secondary_structure_prediction.py to 755 2026-02-14T09:50:01,244 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_plot.py to 755 2026-02-14T09:50:01,245 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_score.py to 755 2026-02-14T09:50:01,245 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/pdbs_measure_atom_dists.py to 755 2026-02-14T09:50:01,246 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_plot_alignment_bounds.py to 755 2026-02-14T09:50:01,246 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_filter.py to 755 2026-02-14T09:50:01,247 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/trx_score_onCol.py to 755 2026-02-14T09:50:01,247 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_tools_demo.py to 755 2026-02-14T09:50:01,248 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_plot_heatmap.py to 755 2026-02-14T09:50:01,248 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pairs_diff.py to 755 2026-02-14T09:50:01,249 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_replace.py to 755 2026-02-14T09:50:01,249 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_df_merge_two.py to 755 2026-02-14T09:50:01,250 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_check_progress.py to 755 2026-02-14T09:50:01,250 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_all_vs_all.py to 755 2026-02-14T09:50:01,251 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_hbonds.py to 755 2026-02-14T09:50:01,251 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_sto2csv.py to 755 2026-02-14T09:50:01,252 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_simrnaweb_download_job.py to 755 2026-02-14T09:50:01,252 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_plot_hist.py to 755 2026-02-14T09:50:01,252 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_df_merge.py to 755 2026-02-14T09:50:01,253 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pkd2kd.py to 755 2026-02-14T09:50:01,253 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_alignment_process_id.py to 755 2026-02-14T09:50:01,254 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_tools_which.py to 755 2026-02-14T09:50:01,254 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_collect.py to 755 2026-02-14T09:50:01,255 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_minimize.py to 755 2026-02-14T09:50:01,255 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/trx_score_allvsall.py to 755 2026-02-14T09:50:01,256 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_df_merge_on.py to 755 2026-02-14T09:50:01,256 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/diffpdb.py to 755 2026-02-14T09:50:01,256 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_df_csv_sort.py to 755 2026-02-14T09:50:01,257 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_get_score.py to 755 2026-02-14T09:50:01,257 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_alignment_get_species.py to 755 2026-02-14T09:50:01,258 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_silent_file_sort_and_select.py to 755 2026-02-14T09:50:01,258 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_exp.py to 755 2026-02-14T09:50:01,259 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/triplexibility.py to 755 2026-02-14T09:50:01,259 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_kd2dG.py to 755 2026-02-14T09:50:01,260 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_simrna.py to 755 2026-02-14T09:50:01,260 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/renum_pdb_to_aln.py to 755 2026-02-14T09:50:01,261 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_fenergy.py to 755 2026-02-14T09:50:01,261 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_clarna2graph.py to 755 2026-02-14T09:50:01,262 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_download_rfam.py to 755 2026-02-14T09:50:01,262 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_pkd2dG.py to 755 2026-02-14T09:50:01,263 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_ok to 755 2026-02-14T09:50:01,263 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_run.py to 755 2026-02-14T09:50:01,264 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_clarna_run.py to 755 2026-02-14T09:50:01,265 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_silent_split.py to 755 2026-02-14T09:50:01,265 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_n.py to 755 2026-02-14T09:50:01,266 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/trx_mutagen.py to 755 2026-02-14T09:50:01,266 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rasp.py to 755 2026-02-14T09:50:01,267 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_clarna_app.py to 755 2026-02-14T09:50:01,267 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_standardize.py to 755 2026-02-14T09:50:01,268 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/reverse.py to 755 2026-02-14T09:50:01,268 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_clanstix.py to 755 2026-02-14T09:50:01,268 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/random_assignment_of_nucleotides.py to 755 2026-02-14T09:50:01,269 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rnakb.py to 755 2026-02-14T09:50:01,269 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_add_chain.py to 755 2026-02-14T09:50:01,270 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_ok_mail.py to 755 2026-02-14T09:50:01,270 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_draw_edges.py to 755 2026-02-14T09:50:01,271 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_seq_to_alignment.py to 755 2026-02-14T09:50:01,271 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_align_find_seq_in_alignment.py to 755 2026-02-14T09:50:01,272 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_cluster.py to 755 2026-02-14T09:50:01,272 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_trafl.py to 755 2026-02-14T09:50:01,273 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/rna_cal_rmsd_trafl_plot.py to 755 2026-02-14T09:50:01,273 changing mode of build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.data/scripts/pymol_preview_generator.py to 755 2026-02-14T09:50:01,285 creating build/bdist.linux-armv7l/wheel/rna_tools-3.27.post0.dev3.dist-info/WHEEL 2026-02-14T09:50:01,288 creating '/tmp/pip-wheel-a6dl3f4m/.tmp-jfw4h05o/rna_tools-3.27.post0.dev3-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-02-14T09:50:01,291 adding 'rna_tools/BlastPDB.py' 2026-02-14T09:50:01,292 adding 'rna_tools/RfamSearch.py' 2026-02-14T09:50:01,294 adding 'rna_tools/SecondaryStructure.py' 2026-02-14T09:50:01,297 adding 'rna_tools/Seq.py' 2026-02-14T09:50:01,298 adding 'rna_tools/__init__.py' 2026-02-14T09:50:01,300 adding 'rna_tools/_version.py' 2026-02-14T09:50:01,301 adding 'rna_tools/pytest.ini' 2026-02-14T09:50:01,351 adding 'rna_tools/rchie.png' 2026-02-14T09:50:01,355 adding 'rna_tools/rna_calc_fenergy.py' 2026-02-14T09:50:01,356 adding 'rna_tools/rna_cif2pdb.py' 2026-02-14T09:50:01,358 adding 'rna_tools/rna_dot2ct.py' 2026-02-14T09:50:01,359 adding 'rna_tools/rna_pdb_fetch.py' 2026-02-14T09:50:01,361 adding 'rna_tools/rna_pdb_fetch_header.py' 2026-02-14T09:50:01,362 adding 'rna_tools/rna_pdb_inspect.py' 2026-02-14T09:50:01,363 adding 'rna_tools/rna_pdb_replace.py' 2026-02-14T09:50:01,365 adding 'rna_tools/rna_pdb_seq.py' 2026-02-14T09:50:01,370 adding 'rna_tools/rna_pdb_tools.py' 2026-02-14T09:50:01,372 adding 'rna_tools/rna_secondary_structure_prediction.py' 2026-02-14T09:50:01,374 adding 'rna_tools/rna_simrnaweb_download_job.py' 2026-02-14T09:50:01,375 adding 'rna_tools/rna_standardize.py' 2026-02-14T09:50:01,377 adding 'rna_tools/rna_tools_config.py' 2026-02-14T09:50:01,387 adding 'rna_tools/rna_tools_lib.py' 2026-02-14T09:50:01,389 adding 'rna_tools/rna_tools_test_all.py' 2026-02-14T09:50:01,390 adding 'rna_tools/rna_torsions.py' 2026-02-14T09:50:01,391 adding 'rna_tools/shell_rc.sh' 2026-02-14T09:50:01,392 adding 'rna_tools/stats.py' 2026-02-14T09:50:01,394 adding 'rna_tools/test.sh' 2026-02-14T09:50:01,395 adding 'rna_tools/update_readme.py' 2026-02-14T09:50:01,408 adding 'rna_tools/data/260c8ff6-f24e-4eff-9760-1831407fc770_ALL_thrs5.30A_clust01-000001_AA.pdb' 2026-02-14T09:50:01,410 adding 'rna_tools/data/A.pdb' 2026-02-14T09:50:01,411 adding 'rna_tools/data/ACGU.pdb' 2026-02-14T09:50:01,413 adding 'rna_tools/data/C.pdb' 2026-02-14T09:50:01,414 adding 'rna_tools/data/G.pdb' 2026-02-14T09:50:01,415 adding 'rna_tools/data/PO3_inner.pdb' 2026-02-14T09:50:01,416 adding 'rna_tools/data/U.pdb' 2026-02-14T09:50:01,417 adding 'rna_tools/data/o2prim.pdb' 2026-02-14T09:50:01,419 adding 'rna_tools/data/op4.pdb' 2026-02-14T09:50:01,419 adding 'rna_tools/data/pdb_ids.txt' 2026-02-14T09:50:01,421 adding 'rna_tools/data/rna_pdb_errors.csv' 2026-02-14T09:50:01,422 adding 'rna_tools/data/shape.txt' 2026-02-14T09:50:01,424 adding 'rna_tools/tests/test_eval.py' 2026-02-14T09:50:01,425 adding 'rna_tools/tests/test_rna_ss_pred.sh' 2026-02-14T09:50:01,426 adding 'rna_tools/tests/test_rnafold.py' 2026-02-14T09:50:01,427 adding 'rna_tools/tests/test_seq_cyclefold.py' 2026-02-14T09:50:01,429 adding 'rna_tools/tests/test_seq_mcfold.py' 2026-02-14T09:50:01,430 adding 'rna_tools/tests/test_seq_mcfold2.py' 2026-02-14T09:50:01,444 adding 'rna_tools/tests/test_import_module/rchie.png' 2026-02-14T09:50:01,446 adding 'rna_tools/tests/test_import_module/test_import_rna_tools.py' 2026-02-14T09:50:01,448 adding 'rna_tools/tests/test_import_module/test_data/RF00167.stockholm.sto' 2026-02-14T09:50:01,450 adding 'rna_tools/tools/__init__.py' 2026-02-14T09:50:01,452 adding 'rna_tools/tools/ClashCalc/.gitignore' 2026-02-14T09:50:01,453 adding 'rna_tools/tools/ClashCalc/ClashCalc.py' 2026-02-14T09:50:01,454 adding 'rna_tools/tools/ClashCalc/README.md' 2026-02-14T09:50:01,456 adding 'rna_tools/tools/ClashCalc/__init__.py' 2026-02-14T09:50:01,610 adding 'rna_tools/tools/ClashCalc/test_data/no_clash.pdb' 2026-02-14T09:50:01,684 adding 'rna_tools/tools/ClashCalc/test_data/prot-na_2392.pdb' 2026-02-14T09:50:01,777 adding 'rna_tools/tools/ClashCalc/test_data/super_clash.pdb' 2026-02-14T09:50:01,787 adding 'rna_tools/tools/PyMOL4RNA/PyMOL4RNA.py' 2026-02-14T09:50:01,790 adding 'rna_tools/tools/PyMOL4RNA/PyMOL4Spliceosome.py' 2026-02-14T09:50:01,791 adding 'rna_tools/tools/PyMOL4RNA/README.md' 2026-02-14T09:50:01,795 adding 'rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL-2020.ipynb' 2026-02-14T09:50:01,798 adding 'rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL-2022.ipynb' 2026-02-14T09:50:01,801 adding 'rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.csv' 2026-02-14T09:50:01,807 adding 'rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.ipynb' 2026-02-14T09:50:01,809 adding 'rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.py' 2026-02-14T09:50:01,813 adding 'rna_tools/tools/PyMOL4RNA/Spliceosome_PyMOL.xlsx' 2026-02-14T09:50:01,815 adding 'rna_tools/tools/PyMOL4RNA/__init__.py' 2026-02-14T09:50:01,817 adding 'rna_tools/tools/PyMOL4RNA/code_for_color_spl.py' 2026-02-14T09:50:01,818 adding 'rna_tools/tools/PyMOL4RNA/code_for_spl.py' 2026-02-14T09:50:01,821 adding 'rna_tools/tools/PyMOL4RNA/external_flatten_object.py' 2026-02-14T09:50:01,822 adding 'rna_tools/tools/PyMOL4RNA/rna_draw_edges.py' 2026-02-14T09:50:01,823 adding 'rna_tools/tools/PyMOL4RNA/rnapuzzles.py' 2026-02-14T09:50:01,831 adding 'rna_tools/tools/PyMOL4RNA/doc/clarna.png' 2026-02-14T09:50:01,841 adding 'rna_tools/tools/PyMOL4RNA/doc/ion.png' 2026-02-14T09:50:01,861 adding 'rna_tools/tools/PyMOL4RNA/doc/p.png' 2026-02-14T09:50:01,874 adding 'rna_tools/tools/PyMOL4RNA/doc/pdb.png' 2026-02-14T09:50:01,884 adding 'rna_tools/tools/PyMOL4RNA/doc/pucker.jpg' 2026-02-14T09:50:01,997 adding 'rna_tools/tools/PyMOL4RNA/doc/pymol4spliceosome.png' 2026-02-14T09:50:02,014 adding 'rna_tools/tools/PyMOL4RNA/doc/rna.png' 2026-02-14T09:50:02,024 adding 'rna_tools/tools/PyMOL4RNA/doc/rs.png' 2026-02-14T09:50:02,126 adding 'rna_tools/tools/PyMOL4RNA/doc/run.png' 2026-02-14T09:50:02,240 adding 'rna_tools/tools/PyMOL4RNA/doc/spl.png' 2026-02-14T09:50:02,264 adding 'rna_tools/tools/PyMOL4RNA/doc/ss.png' 2026-02-14T09:50:02,267 adding 'rna_tools/tools/PyMOL4RNA/libs/__init__.py' 2026-02-14T09:50:02,268 adding 'rna_tools/tools/PyMOL4RNA/libs/calc_gdt.py' 2026-02-14T09:50:02,270 adding 'rna_tools/tools/PyMOL4RNA/libs/colorbyrmsd.py' 2026-02-14T09:50:02,272 adding 'rna_tools/tools/PyMOL4RNA/libs/get_raw_distances.py' 2026-02-14T09:50:02,274 adding 'rna_tools/tools/PyMOL4RNA/libs/pucker.py' 2026-02-14T09:50:02,276 adding 'rna_tools/tools/PyMOL4RNA/libs/pymol_daslab.py' 2026-02-14T09:50:02,279 adding 'rna_tools/tools/PyMOL4RNA/libs/show_contacts.py' 2026-02-14T09:50:02,319 adding 'rna_tools/tools/PyMOL4RNA/test_data/5k7c_clean.pdb' 2026-02-14T09:50:02,322 adding 'rna_tools/tools/clanstix/.gitignore' 2026-02-14T09:50:02,328 adding 'rna_tools/tools/clanstix/LICENSE' 2026-02-14T09:50:02,330 adding 'rna_tools/tools/clanstix/README.md' 2026-02-14T09:50:02,331 adding 'rna_tools/tools/clanstix/__init__.py' 2026-02-14T09:50:02,332 adding 'rna_tools/tools/clanstix/colors.txt' 2026-02-14T09:50:02,335 adding 'rna_tools/tools/clanstix/rna_clanstix.py' 2026-02-14T09:50:02,337 adding 'rna_tools/tools/clanstix/test.sh' 2026-02-14T09:50:02,338 adding 'rna_tools/tools/clanstix/test2.sh' 2026-02-14T09:50:02,339 adding 'rna_tools/tools/clanstix/test3.sh' 2026-02-14T09:50:02,345 adding 'rna_tools/tools/clanstix/doc/rna_clanstix.png' 2026-02-14T09:50:02,359 adding 'rna_tools/tools/clanstix/doc/rp18_clanstix.png' 2026-02-14T09:50:02,488 adding 'rna_tools/tools/clanstix/doc/yndSrLTb7l.gif' 2026-02-14T09:50:02,514 adding 'rna_tools/tools/clanstix/test_data/gmp.clans' 2026-02-14T09:50:02,534 adding 'rna_tools/tools/clanstix/test_data/gmp_color_by_homolog.clans' 2026-02-14T09:50:02,553 adding 'rna_tools/tools/clanstix/test_data/gmp_color_by_homolog_shape_by_source.clans' 2026-02-14T09:50:02,576 adding 'rna_tools/tools/clanstix/test_data/gmp_ref_mapping_pk_refX.txt' 2026-02-14T09:50:02,578 adding 'rna_tools/tools/clanstix/test_data/matrix.txt' 2026-02-14T09:50:02,760 adding 'rna_tools/tools/clanstix/test_data/rp13_RNAevo_fragments_clans_raw.out' 2026-02-14T09:50:02,768 adding 'rna_tools/tools/clanstix/test_data/rp18_rmsd.csv' 2026-02-14T09:50:02,774 adding 'rna_tools/tools/clanstix/test_data/rp18_rmsd.in' 2026-02-14T09:50:02,798 adding 'rna_tools/tools/clanstix/test_data/rp17_del/clans.input' 2026-02-14T09:50:02,824 adding 'rna_tools/tools/clanstix/test_data/rp17_del/rp17_clans.png' 2026-02-14T09:50:03,072 adding 'rna_tools/tools/clanstix/test_data/rp17_del/rp17_clans_process.png' 2026-02-14T09:50:03,112 adding 'rna_tools/tools/clanstix/test_data/rp17_del/rp17_rmsd.csv' 2026-02-14T09:50:03,114 adding 'rna_tools/tools/clanstix/test_data/rp17_del/run.sh' 2026-02-14T09:50:03,116 adding 'rna_tools/tools/clarna_app/__init__.py' 2026-02-14T09:50:03,117 adding 'rna_tools/tools/clarna_app/readme.md' 2026-02-14T09:50:03,118 adding 'rna_tools/tools/clarna_app/rna_clarna2graph.py' 2026-02-14T09:50:03,120 adding 'rna_tools/tools/clarna_app/rna_clarna_app.py' 2026-02-14T09:50:03,121 adding 'rna_tools/tools/clarna_app/test.py' 2026-02-14T09:50:03,122 adding 'rna_tools/tools/clarna_app/test.sh' 2026-02-14T09:50:03,126 adding 'rna_tools/tools/clarna_app/data/cl.txt' 2026-02-14T09:50:03,127 adding 'rna_tools/tools/clarna_app/data/cl_full.csv' 2026-02-14T09:50:03,128 adding 'rna_tools/tools/clarna_app/data/cl_short.csv' 2026-02-14T09:50:03,131 adding 'rna_tools/tools/clarna_play/PDBSeq.py' 2026-02-14T09:50:03,132 adding 'rna_tools/tools/clarna_play/__init__.py' 2026-02-14T09:50:03,133 adding 'rna_tools/tools/clarna_play/readme.md' 2026-02-14T09:50:03,138 adding 'rna_tools/tools/clarna_play/rna_clarna_compare.py' 2026-02-14T09:50:03,143 adding 'rna_tools/tools/clarna_play/rna_clarna_run.py' 2026-02-14T09:50:03,144 adding 'rna_tools/tools/clarna_play/test.sh' 2026-02-14T09:50:03,146 adding 'rna_tools/tools/clarna_play/ClaRNAlib/.gitignore' 2026-02-14T09:50:03,147 adding 'rna_tools/tools/clarna_play/ClaRNAlib/README.md' 2026-02-14T09:50:03,148 adding 'rna_tools/tools/clarna_play/ClaRNAlib/__init__.py' 2026-02-14T09:50:03,150 adding 'rna_tools/tools/clarna_play/ClaRNAlib/cl_settings.py' 2026-02-14T09:50:03,151 adding 'rna_tools/tools/clarna_play/ClaRNAlib/cl_settings_global.py' 2026-02-14T09:50:03,156 adding 'rna_tools/tools/clarna_play/ClaRNAlib/clarna.py' 2026-02-14T09:50:03,159 adding 'rna_tools/tools/clarna_play/ClaRNAlib/descriptions-dict.json' 2026-02-14T09:50:03,164 adding 'rna_tools/tools/clarna_play/ClaRNAlib/distances.py' 2026-02-14T09:50:03,165 adding 'rna_tools/tools/clarna_play/ClaRNAlib/normalize_pdb.py' 2026-02-14T09:50:03,167 adding 'rna_tools/tools/clarna_play/ClaRNAlib/structure_ciach.py' 2026-02-14T09:50:03,172 adding 'rna_tools/tools/clarna_play/ClaRNAlib/utils.py' 2026-02-14T09:50:03,419 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.base-phosphate.json.gz' 2026-02-14T09:50:03,680 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.base-ribose.json.gz' 2026-02-14T09:50:04,280 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.bp.json.gz' 2026-02-14T09:50:04,355 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other.json.gz' 2026-02-14T09:50:04,358 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other2.json.gz' 2026-02-14T09:50:04,360 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.other3.json.gz' 2026-02-14T09:50:04,993 adding 'rna_tools/tools/clarna_play/ClaRNAlib/lib/classifier.stacking.json.gz' 2026-02-14T09:50:05,039 adding 'rna_tools/tools/clarna_play/docs/clarna_run.png' 2026-02-14T09:50:05,041 adding 'rna_tools/tools/clarna_play/lib/__init__.py' 2026-02-14T09:50:05,044 adding 'rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/ClaRNAwd_output_parser.cpp' 2026-02-14T09:50:05,045 adding 'rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/ClaRNAwd_output_parser.h' 2026-02-14T09:50:05,046 adding 'rna_tools/tools/clarna_play/lib/ClaRNAwd_to_vienaSS/Makefile' 2026-02-14T09:50:05,048 adding 'rna_tools/tools/clarna_play/lib/rna_pdb_tools/__init__.py' 2026-02-14T09:50:05,052 adding 'rna_tools/tools/clarna_play/lib/rna_pdb_tools/pdb_parser_lib.py' 2026-02-14T09:50:05,053 adding 'rna_tools/tools/clarna_play/lib/rna_pdb_tools/rna-pdb-tools.py' 2026-02-14T09:50:05,066 adding 'rna_tools/tools/clarna_play/test_data/1a51_00_A.pdb' 2026-02-14T09:50:05,088 adding 'rna_tools/tools/clarna_play/test_data/1kxk_00_A.pdb' 2026-02-14T09:50:05,097 adding 'rna_tools/tools/clarna_play/test_data/1q9a_00_A.pdb' 2026-02-14T09:50:05,104 adding 'rna_tools/tools/clarna_play/test_data/2a43_00_A.pdb' 2026-02-14T09:50:05,121 adding 'rna_tools/tools/clarna_play/test_data/3e5fA_M15_c.pdb' 2026-02-14T09:50:05,137 adding 'rna_tools/tools/clarna_play/test_data/3e5fA_M500_c.pdb' 2026-02-14T09:50:05,178 adding 'rna_tools/tools/clarna_play/test_data/5k7c.pdb' 2026-02-14T09:50:05,198 adding 'rna_tools/tools/clarna_play/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr_AB.pdb' 2026-02-14T09:50:05,199 adding 'rna_tools/tools/clarna_play/test_data/ss.fa' 2026-02-14T09:50:05,201 adding 'rna_tools/tools/clarna_play/test_output/3e5fA_M15_c.pdb.outCR' 2026-02-14T09:50:05,202 adding 'rna_tools/tools/clarna_play/test_output/3e5fA_M500_c.pdb.outCR' 2026-02-14T09:50:05,227 adding 'rna_tools/tools/clarna_play/tests/1evv_00_A.pdb' 2026-02-14T09:50:05,244 adding 'rna_tools/tools/clarna_play/tests/3e5fA_M15.pdb' 2026-02-14T09:50:05,260 adding 'rna_tools/tools/clarna_play/tests/3e5fA_M500.pdb' 2026-02-14T09:50:05,262 adding 'rna_tools/tools/cluster_load/README.md' 2026-02-14T09:50:05,263 adding 'rna_tools/tools/cluster_load/__init__.py' 2026-02-14T09:50:05,264 adding 'rna_tools/tools/cluster_load/cluster_load.py' 2026-02-14T09:50:05,265 adding 'rna_tools/tools/cluster_load/cluster_mini_free.py' 2026-02-14T09:50:05,266 adding 'rna_tools/tools/cluster_load/load' 2026-02-14T09:50:05,268 adding 'rna_tools/tools/df/rna_df_concat.py' 2026-02-14T09:50:05,269 adding 'rna_tools/tools/df/rna_df_csv_sort.py' 2026-02-14T09:50:05,270 adding 'rna_tools/tools/df/rna_df_merge.py' 2026-02-14T09:50:05,272 adding 'rna_tools/tools/df/rna_df_merge_on.py' 2026-02-14T09:50:05,273 adding 'rna_tools/tools/df/rna_df_merge_two.py' 2026-02-14T09:50:05,274 adding 'rna_tools/tools/df/test.sh' 2026-02-14T09:50:05,276 adding 'rna_tools/tools/df/test_data/cga_rmsd.csv' 2026-02-14T09:50:05,277 adding 'rna_tools/tools/df/test_data/cgc_rmsd.csv' 2026-02-14T09:50:05,278 adding 'rna_tools/tools/df/test_data/d3.csv' 2026-02-14T09:50:05,280 adding 'rna_tools/tools/df/test_data/d8.csv' 2026-02-14T09:50:05,281 adding 'rna_tools/tools/df/test_data/min_2.csv' 2026-02-14T09:50:05,282 adding 'rna_tools/tools/df/test_data/min_3.csv' 2026-02-14T09:50:05,283 adding 'rna_tools/tools/df/test_data/min_4.csv' 2026-02-14T09:50:05,284 adding 'rna_tools/tools/df/test_data/rna_df_concat.py' 2026-02-14T09:50:05,286 adding 'rna_tools/tools/df/test_data/rna_df_merge.csv' 2026-02-14T09:50:05,287 adding 'rna_tools/tools/df/test_data/rna_df_merge_on.csv' 2026-02-14T09:50:05,289 adding 'rna_tools/tools/diffpdb/.gitignore' 2026-02-14T09:50:05,290 adding 'rna_tools/tools/diffpdb/README.md' 2026-02-14T09:50:05,291 adding 'rna_tools/tools/diffpdb/__init__.py' 2026-02-14T09:50:05,292 adding 'rna_tools/tools/diffpdb/diffpdb.py' 2026-02-14T09:50:05,293 adding 'rna_tools/tools/diffpdb/test.sh' 2026-02-14T09:50:05,296 adding 'rna_tools/tools/diffpdb/doc/atom-variants.png' 2026-02-14T09:50:05,314 adding 'rna_tools/tools/diffpdb/doc/diffpdb_osx_diffmerge.png' 2026-02-14T09:50:05,339 adding 'rna_tools/tools/diffpdb/doc/missing-atoms.png' 2026-02-14T09:50:05,358 adding 'rna_tools/tools/diffpdb/doc/missing-op3.png' 2026-02-14T09:50:05,373 adding 'rna_tools/tools/diffpdb/doc/screenshot.png' 2026-02-14T09:50:05,384 adding 'rna_tools/tools/diffpdb/doc/screenshot2.png' 2026-02-14T09:50:05,387 adding 'rna_tools/tools/diffpdb/lib/diff2html.py' 2026-02-14T09:50:05,389 adding 'rna_tools/tools/diffpdb/output/2_str1_vs_str2.html' 2026-02-14T09:50:05,408 adding 'rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb' 2026-02-14T09:50:05,410 adding 'rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb.out' 2026-02-14T09:50:05,428 adding 'rna_tools/tools/diffpdb/test_data/5k7c_clean_onechain_renumber_as_puzzle_srr_min.pdb' 2026-02-14T09:50:05,431 adding 'rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0.pdb' 2026-02-14T09:50:05,433 adding 'rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0.pdb.out' 2026-02-14T09:50:05,436 adding 'rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb' 2026-02-14T09:50:05,437 adding 'rna_tools/tools/diffpdb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb.out' 2026-02-14T09:50:05,452 adding 'rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA.pdb' 2026-02-14T09:50:05,454 adding 'rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA.pdb.out' 2026-02-14T09:50:05,469 adding 'rna_tools/tools/diffpdb/test_data/pistol_thrs0.50A_clust272-000001_AA_min.pdb' 2026-02-14T09:50:05,490 adding 'rna_tools/tools/diffpdb/test_data/1/1kxkA.pdb' 2026-02-14T09:50:05,512 adding 'rna_tools/tools/diffpdb/test_data/1/1kxkA_M1.pdb' 2026-02-14T09:50:05,515 adding 'rna_tools/tools/diffpdb/test_data/2/str1.pdb' 2026-02-14T09:50:05,516 adding 'rna_tools/tools/diffpdb/test_data/2/str2.pdb' 2026-02-14T09:50:05,518 adding 'rna_tools/tools/diffpdb/test_data/3.ident/str1.pdb' 2026-02-14T09:50:05,519 adding 'rna_tools/tools/diffpdb/test_data/3.ident/str2.pdb' 2026-02-14T09:50:05,526 adding 'rna_tools/tools/diffpdb/test_data/4/1duq.pdb' 2026-02-14T09:50:05,533 adding 'rna_tools/tools/diffpdb/test_data/4/1duq_decoy0171_amb_clx.pdb' 2026-02-14T09:50:05,534 adding 'rna_tools/tools/extra_functions/__init__.py' 2026-02-14T09:50:05,535 adding 'rna_tools/tools/extra_functions/gen_numbering.py' 2026-02-14T09:50:05,537 adding 'rna_tools/tools/extra_functions/numbering.txt' 2026-02-14T09:50:05,538 adding 'rna_tools/tools/extra_functions/select_fragment.py' 2026-02-14T09:50:05,540 adding 'rna_tools/tools/md/.gitignore' 2026-02-14T09:50:05,541 adding 'rna_tools/tools/md/README.md' 2026-02-14T09:50:05,542 adding 'rna_tools/tools/md/__init__.py' 2026-02-14T09:50:05,544 adding 'rna_tools/tools/md/out.txt' 2026-02-14T09:50:05,545 adding 'rna_tools/tools/md/rna_get_energy.py' 2026-02-14T09:50:05,546 adding 'rna_tools/tools/md/rna_gromacs_ready.py' 2026-02-14T09:50:05,548 adding 'rna_tools/tools/md/rna_md.py' 2026-02-14T09:50:05,549 adding 'rna_tools/tools/md/rna_minimize.py' 2026-02-14T09:50:05,550 adding 'rna_tools/tools/md/rna_traj_n.py' 2026-02-14T09:50:05,551 adding 'rna_tools/tools/md/rna_traj_nohetm.py' 2026-02-14T09:50:05,552 adding 'rna_tools/tools/md/rna_traj_range.py' 2026-02-14T09:50:05,555 adding 'rna_tools/tools/md/rnakb_utils.py' 2026-02-14T09:50:05,556 adding 'rna_tools/tools/md/test.py' 2026-02-14T09:50:05,557 adding 'rna_tools/tools/md/test.sh' 2026-02-14T09:50:05,566 adding 'rna_tools/tools/md/data/rnakb_all.txt' 2026-02-14T09:50:05,568 adding 'rna_tools/tools/md/test_data/1duq' 2026-02-14T09:50:05,575 adding 'rna_tools/tools/md/test_data/1duq.pdb' 2026-02-14T09:50:05,583 adding 'rna_tools/tools/md/test_data/1duq_rpr.pdb' 2026-02-14T09:50:05,590 adding 'rna_tools/tools/md/test_data/1msy_output4_01-000001_AA.pdb' 2026-02-14T09:50:05,591 adding 'rna_tools/tools/md/test_data/3nt.pdb' 2026-02-14T09:50:05,593 adding 'rna_tools/tools/md/test_data/3nt_edited.pdb' 2026-02-14T09:50:05,594 adding 'rna_tools/tools/md/test_data/RA5_G.pdb' 2026-02-14T09:50:05,597 adding 'rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx.pdb' 2026-02-14T09:50:05,600 adding 'rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx_rmPO.pdb' 2026-02-14T09:50:05,602 adding 'rna_tools/tools/md/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_noC.pdb' 2026-02-14T09:50:05,613 adding 'rna_tools/tools/md/test_data/decoy0165_amb_clx.pdb' 2026-02-14T09:50:05,615 adding 'rna_tools/tools/md/test_data/groups.txt' 2026-02-14T09:50:05,617 adding 'rna_tools/tools/md/test_data/temp.pdb' 2026-02-14T09:50:05,624 adding 'rna_tools/tools/md/test_output/1duq_rnakb_ready.pdb' 2026-02-14T09:50:05,632 adding 'rna_tools/tools/md/test_output/1duq_rpr_rnakb_ready.pdb' 2026-02-14T09:50:05,639 adding 'rna_tools/tools/md/test_output/1msy_output4_01-000001_AA_rnakb_ready.pdb' 2026-02-14T09:50:05,641 adding 'rna_tools/tools/md/test_output/3nt_edited_rnakb_ready.pdb' 2026-02-14T09:50:05,642 adding 'rna_tools/tools/md/test_output/RA5_G.pdb' 2026-02-14T09:50:05,645 adding 'rna_tools/tools/md/test_output/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx_rnakb_ready.pdb' 2026-02-14T09:50:05,647 adding 'rna_tools/tools/mini_moderna3/.coveragerc' 2026-02-14T09:50:05,648 adding 'rna_tools/tools/mini_moderna3/.gitignore' 2026-02-14T09:50:05,649 adding 'rna_tools/tools/mini_moderna3/.travis.yml' 2026-02-14T09:50:05,650 adding 'rna_tools/tools/mini_moderna3/AUTHORS.rst' 2026-02-14T09:50:05,656 adding 'rna_tools/tools/mini_moderna3/COPYING' 2026-02-14T09:50:05,658 adding 'rna_tools/tools/mini_moderna3/MANIFEST.in' 2026-02-14T09:50:05,659 adding 'rna_tools/tools/mini_moderna3/README.md' 2026-02-14T09:50:05,660 adding 'rna_tools/tools/mini_moderna3/__init__.py' 2026-02-14T09:50:05,663 adding 'rna_tools/tools/mini_moderna3/moderna/CheckPdb.py' 2026-02-14T09:50:05,665 adding 'rna_tools/tools/mini_moderna3/moderna/Constants.py' 2026-02-14T09:50:05,666 adding 'rna_tools/tools/mini_moderna3/moderna/FragmentInsertion.py' 2026-02-14T09:50:05,667 adding 'rna_tools/tools/mini_moderna3/moderna/Helix.py' 2026-02-14T09:50:05,669 adding 'rna_tools/tools/mini_moderna3/moderna/ModelingRecipe.py' 2026-02-14T09:50:05,672 adding 'rna_tools/tools/mini_moderna3/moderna/ModernaFragment.py' 2026-02-14T09:50:05,674 adding 'rna_tools/tools/mini_moderna3/moderna/ModernaStructure.py' 2026-02-14T09:50:05,675 adding 'rna_tools/tools/mini_moderna3/moderna/ModernaSuperimposer.py' 2026-02-14T09:50:05,677 adding 'rna_tools/tools/mini_moderna3/moderna/PdbConverter.py' 2026-02-14T09:50:05,679 adding 'rna_tools/tools/mini_moderna3/moderna/RNAChain.py' 2026-02-14T09:50:05,681 adding 'rna_tools/tools/mini_moderna3/moderna/RNAModel.py' 2026-02-14T09:50:05,683 adding 'rna_tools/tools/mini_moderna3/moderna/RNAResidue.py' 2026-02-14T09:50:05,685 adding 'rna_tools/tools/mini_moderna3/moderna/Renumerator.py' 2026-02-14T09:50:05,686 adding 'rna_tools/tools/mini_moderna3/moderna/Renumerator_new.py' 2026-02-14T09:50:05,687 adding 'rna_tools/tools/mini_moderna3/moderna/Template.py' 2026-02-14T09:50:05,688 adding 'rna_tools/tools/mini_moderna3/moderna/__init__.py' 2026-02-14T09:50:05,690 adding 'rna_tools/tools/mini_moderna3/moderna/_version.py' 2026-02-14T09:50:05,695 adding 'rna_tools/tools/mini_moderna3/moderna/commands.py' 2026-02-14T09:50:05,697 adding 'rna_tools/tools/mini_moderna3/moderna/moderna.py' 2026-02-14T09:50:05,699 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/BasePairCalculator.py' 2026-02-14T09:50:05,701 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/BaseRecognizer.py' 2026-02-14T09:50:05,702 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/ChainConnectivity.py' 2026-02-14T09:50:05,704 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/ClashRecognizer.py' 2026-02-14T09:50:05,706 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/Constants.py' 2026-02-14T09:50:05,707 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/GeometryAnalyzer.py' 2026-02-14T09:50:05,709 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/GeometryParameters.py' 2026-02-14T09:50:05,711 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/GeometryStatistics.py' 2026-02-14T09:50:05,712 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/HBondCalculator.py' 2026-02-14T09:50:05,714 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/MolGraphParser.py' 2026-02-14T09:50:05,716 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/MolParameters.py' 2026-02-14T09:50:05,719 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/MolTopologies.py' 2026-02-14T09:50:05,723 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/MolecularGraph.py' 2026-02-14T09:50:05,724 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/PuckerCalculator.py' 2026-02-14T09:50:05,726 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/RNASuites.py' 2026-02-14T09:50:05,728 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/StackingCalculator.py' 2026-02-14T09:50:05,729 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/__init__.py' 2026-02-14T09:50:05,732 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/SuiteCalculator.py' 2026-02-14T09:50:05,734 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/dihedral_bins.py' 2026-02-14T09:50:05,735 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite.py' 2026-02-14T09:50:05,737 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite2.py' 2026-02-14T09:50:05,739 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/suite_clusters.py' 2026-02-14T09:50:05,742 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/suitename.py' 2026-02-14T09:50:05,744 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_SuiteCalculator.py' 2026-02-14T09:50:05,745 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_suite.py' 2026-02-14T09:50:05,746 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_suitename.py' 2026-02-14T09:50:05,753 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/1JZC.pdb' 2026-02-14T09:50:05,755 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/1WTS.pdb' 2026-02-14T09:50:05,761 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/ah0001Ha.pdb' 2026-02-14T09:50:05,766 adding 'rna_tools/tools/mini_moderna3/moderna/analyze/suites/test_data/arhb90H.pdb' 2026-02-14T09:50:05,768 adding 'rna_tools/tools/mini_moderna3/moderna/builder/BackboneBuilder.py' 2026-02-14T09:50:05,769 adding 'rna_tools/tools/mini_moderna3/moderna/builder/ChiRotator.py' 2026-02-14T09:50:05,770 adding 'rna_tools/tools/mini_moderna3/moderna/builder/Constants.py' 2026-02-14T09:50:05,772 adding 'rna_tools/tools/mini_moderna3/moderna/builder/CoordBuilder.py' 2026-02-14T09:50:05,773 adding 'rna_tools/tools/mini_moderna3/moderna/builder/FCCDLoopCloser.py' 2026-02-14T09:50:05,775 adding 'rna_tools/tools/mini_moderna3/moderna/builder/PhosphateBuilder.py' 2026-02-14T09:50:05,777 adding 'rna_tools/tools/mini_moderna3/moderna/builder/__init__.py' 2026-02-14T09:50:05,785 adding 'rna_tools/tools/mini_moderna3/moderna/data/B_DNA.pdb' 2026-02-14T09:50:05,792 adding 'rna_tools/tools/mini_moderna3/moderna/data/IsostericityMatrices.txt' 2026-02-14T09:50:05,794 adding 'rna_tools/tools/mini_moderna3/moderna/data/all_atom_names' 2026-02-14T09:50:05,814 adding 'rna_tools/tools/mini_moderna3/moderna/data/helix.pdb' 2026-02-14T09:50:05,816 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_names_table' 2026-02-14T09:50:05,818 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_topologies.txt' 2026-02-14T09:50:05,820 adding 'rna_tools/tools/mini_moderna3/moderna/data/modifications' 2026-02-14T09:50:05,821 adding 'rna_tools/tools/mini_moderna3/moderna/data/pair_fragment.pdb' 2026-02-14T09:50:05,822 adding 'rna_tools/tools/mini_moderna3/moderna/data/phosphate_group.pdb' 2026-02-14T09:50:05,824 adding 'rna_tools/tools/mini_moderna3/moderna/data/rnaDB05_list.txt' 2026-02-14T09:50:05,825 adding 'rna_tools/tools/mini_moderna3/moderna/data/rnaDB05_list_without_tRNA.txt' 2026-02-14T09:50:05,829 adding 'rna_tools/tools/mini_moderna3/moderna/data/single_strand.pdb' 2026-02-14T09:50:05,830 adding 'rna_tools/tools/mini_moderna3/moderna/data/suite_clusters.txt' 2026-02-14T09:50:05,835 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/----_GU.pdb' 2026-02-14T09:50:05,837 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/Rib_AG.pdb' 2026-02-14T09:50:05,838 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/Rib_GG.pdb' 2026-02-14T09:50:05,839 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_AA.pdb' 2026-02-14T09:50:05,841 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_AC.pdb' 2026-02-14T09:50:05,842 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_CA.pdb' 2026-02-14T09:50:05,844 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_CC.pdb' 2026-02-14T09:50:05,845 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_GG.pdb' 2026-02-14T09:50:05,846 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bif_GU.pdb' 2026-02-14T09:50:05,848 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bifa_CA.pdb' 2026-02-14T09:50:05,849 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/bifa_CC.pdb' 2026-02-14T09:50:05,851 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_AG.pdb' 2026-02-14T09:50:05,852 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_CG.pdb' 2026-02-14T09:50:05,853 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GA.pdb' 2026-02-14T09:50:05,855 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GC.pdb' 2026-02-14T09:50:05,856 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHH_GG.pdb' 2026-02-14T09:50:05,857 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AA.pdb' 2026-02-14T09:50:05,859 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AC.pdb' 2026-02-14T09:50:05,860 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AG.pdb' 2026-02-14T09:50:05,861 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_AU.pdb' 2026-02-14T09:50:05,863 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CA.pdb' 2026-02-14T09:50:05,864 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CC.pdb' 2026-02-14T09:50:05,865 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CG.pdb' 2026-02-14T09:50:05,867 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_CU.pdb' 2026-02-14T09:50:05,868 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_GA.pdb' 2026-02-14T09:50:05,870 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_GG.pdb' 2026-02-14T09:50:05,871 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UA.pdb' 2026-02-14T09:50:05,872 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UC.pdb' 2026-02-14T09:50:05,873 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UG.pdb' 2026-02-14T09:50:05,875 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHS_UU.pdb' 2026-02-14T09:50:05,876 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_AG.pdb' 2026-02-14T09:50:05,878 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_AU.pdb' 2026-02-14T09:50:05,879 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_CU.pdb' 2026-02-14T09:50:05,880 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSa_UG.pdb' 2026-02-14T09:50:05,882 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cHSb_UG.pdb' 2026-02-14T09:50:05,883 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AA.pdb' 2026-02-14T09:50:05,885 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AC.pdb' 2026-02-14T09:50:05,886 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AG.pdb' 2026-02-14T09:50:05,887 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_AU.pdb' 2026-02-14T09:50:05,889 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CA.pdb' 2026-02-14T09:50:05,890 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CC.pdb' 2026-02-14T09:50:05,891 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CG.pdb' 2026-02-14T09:50:05,893 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_CU.pdb' 2026-02-14T09:50:05,894 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GA.pdb' 2026-02-14T09:50:05,896 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GC.pdb' 2026-02-14T09:50:05,897 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GG.pdb' 2026-02-14T09:50:05,899 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_GU.pdb' 2026-02-14T09:50:05,900 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UA.pdb' 2026-02-14T09:50:05,902 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UC.pdb' 2026-02-14T09:50:05,903 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UG.pdb' 2026-02-14T09:50:05,904 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSS_UU.pdb' 2026-02-14T09:50:05,906 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_AC.pdb' 2026-02-14T09:50:05,907 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_CA.pdb' 2026-02-14T09:50:05,909 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_CG.pdb' 2026-02-14T09:50:05,910 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSa_UG.pdb' 2026-02-14T09:50:05,911 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cSSb_CA.pdb' 2026-02-14T09:50:05,913 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_AG.pdb' 2026-02-14T09:50:05,914 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_AU.pdb' 2026-02-14T09:50:05,915 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CC.pdb' 2026-02-14T09:50:05,917 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CG.pdb' 2026-02-14T09:50:05,918 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_CU.pdb' 2026-02-14T09:50:05,920 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_GA.pdb' 2026-02-14T09:50:05,921 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_GG.pdb' 2026-02-14T09:50:05,922 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UA.pdb' 2026-02-14T09:50:05,924 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UG.pdb' 2026-02-14T09:50:05,925 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWH_UU.pdb' 2026-02-14T09:50:05,927 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_AG.pdb' 2026-02-14T09:50:05,928 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_AU.pdb' 2026-02-14T09:50:05,929 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWHa_UA.pdb' 2026-02-14T09:50:05,931 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AA.pdb' 2026-02-14T09:50:05,932 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AC.pdb' 2026-02-14T09:50:05,933 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AG.pdb' 2026-02-14T09:50:05,935 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_AU.pdb' 2026-02-14T09:50:05,936 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CA.pdb' 2026-02-14T09:50:05,938 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CC.pdb' 2026-02-14T09:50:05,939 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CG.pdb' 2026-02-14T09:50:05,940 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_CU.pdb' 2026-02-14T09:50:05,942 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GA.pdb' 2026-02-14T09:50:05,943 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GC.pdb' 2026-02-14T09:50:05,945 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GG.pdb' 2026-02-14T09:50:05,946 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_GU.pdb' 2026-02-14T09:50:05,948 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UA.pdb' 2026-02-14T09:50:05,949 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UC.pdb' 2026-02-14T09:50:05,950 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UG.pdb' 2026-02-14T09:50:05,952 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWS_UU.pdb' 2026-02-14T09:50:05,953 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_AC.pdb' 2026-02-14T09:50:05,954 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_CC.pdb' 2026-02-14T09:50:05,956 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSa_GU.pdb' 2026-02-14T09:50:05,957 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWSb_GU.pdb' 2026-02-14T09:50:05,959 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AA.pdb' 2026-02-14T09:50:05,960 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AC.pdb' 2026-02-14T09:50:05,962 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AG.pdb' 2026-02-14T09:50:05,963 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_AU.pdb' 2026-02-14T09:50:05,964 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CA.pdb' 2026-02-14T09:50:05,966 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CC.pdb' 2026-02-14T09:50:05,967 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CG.pdb' 2026-02-14T09:50:05,968 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_CU.pdb' 2026-02-14T09:50:05,970 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GA.pdb' 2026-02-14T09:50:05,971 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GC.pdb' 2026-02-14T09:50:05,972 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_GU.pdb' 2026-02-14T09:50:05,974 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UA.pdb' 2026-02-14T09:50:05,975 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UC.pdb' 2026-02-14T09:50:05,977 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UG.pdb' 2026-02-14T09:50:05,978 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWW_UU.pdb' 2026-02-14T09:50:05,979 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_AC.pdb' 2026-02-14T09:50:05,981 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_AG.pdb' 2026-02-14T09:50:05,982 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CA.pdb' 2026-02-14T09:50:05,983 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CG.pdb' 2026-02-14T09:50:05,985 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_CU.pdb' 2026-02-14T09:50:05,986 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GA.pdb' 2026-02-14T09:50:05,988 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GC.pdb' 2026-02-14T09:50:05,989 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_GU.pdb' 2026-02-14T09:50:05,991 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_UC.pdb' 2026-02-14T09:50:05,992 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWa_UG.pdb' 2026-02-14T09:50:05,993 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_AC.pdb' 2026-02-14T09:50:05,995 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_AG.pdb' 2026-02-14T09:50:05,996 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_CA.pdb' 2026-02-14T09:50:05,998 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_CU.pdb' 2026-02-14T09:50:05,999 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_GA.pdb' 2026-02-14T09:50:06,000 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_GU.pdb' 2026-02-14T09:50:06,002 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_UC.pdb' 2026-02-14T09:50:06,003 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/cWWb_UG.pdb' 2026-02-14T09:50:06,005 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AA.pdb' 2026-02-14T09:50:06,006 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AC.pdb' 2026-02-14T09:50:06,008 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AG.pdb' 2026-02-14T09:50:06,010 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_AU.pdb' 2026-02-14T09:50:06,011 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CA.pdb' 2026-02-14T09:50:06,013 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CG.pdb' 2026-02-14T09:50:06,014 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_CU.pdb' 2026-02-14T09:50:06,016 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GA.pdb' 2026-02-14T09:50:06,017 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GC.pdb' 2026-02-14T09:50:06,019 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_GG.pdb' 2026-02-14T09:50:06,020 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_UA.pdb' 2026-02-14T09:50:06,022 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHH_UC.pdb' 2026-02-14T09:50:06,024 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_AU.pdb' 2026-02-14T09:50:06,025 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_CG.pdb' 2026-02-14T09:50:06,026 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_GC.pdb' 2026-02-14T09:50:06,028 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHa_UA.pdb' 2026-02-14T09:50:06,029 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHb_AU.pdb' 2026-02-14T09:50:06,030 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHHb_UA.pdb' 2026-02-14T09:50:06,031 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AA.pdb' 2026-02-14T09:50:06,033 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AC.pdb' 2026-02-14T09:50:06,034 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AG.pdb' 2026-02-14T09:50:06,035 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_AU.pdb' 2026-02-14T09:50:06,037 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CA.pdb' 2026-02-14T09:50:06,038 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CC.pdb' 2026-02-14T09:50:06,040 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_CU.pdb' 2026-02-14T09:50:06,041 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_GG.pdb' 2026-02-14T09:50:06,043 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_UA.pdb' 2026-02-14T09:50:06,044 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHS_UG.pdb' 2026-02-14T09:50:06,045 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_AG.pdb' 2026-02-14T09:50:06,047 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_AU.pdb' 2026-02-14T09:50:06,048 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSa_GG.pdb' 2026-02-14T09:50:06,050 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tHSb_AG.pdb' 2026-02-14T09:50:06,051 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AA.pdb' 2026-02-14T09:50:06,052 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AC.pdb' 2026-02-14T09:50:06,054 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AG.pdb' 2026-02-14T09:50:06,055 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_AU.pdb' 2026-02-14T09:50:06,057 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GA.pdb' 2026-02-14T09:50:06,058 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GC.pdb' 2026-02-14T09:50:06,059 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GG.pdb' 2026-02-14T09:50:06,061 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tSS_GU.pdb' 2026-02-14T09:50:06,062 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_AA.pdb' 2026-02-14T09:50:06,064 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_AG.pdb' 2026-02-14T09:50:06,065 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CA.pdb' 2026-02-14T09:50:06,066 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CC.pdb' 2026-02-14T09:50:06,068 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_CG.pdb' 2026-02-14T09:50:06,069 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_GG.pdb' 2026-02-14T09:50:06,071 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_GU.pdb' 2026-02-14T09:50:06,072 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UA.pdb' 2026-02-14T09:50:06,073 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UG.pdb' 2026-02-14T09:50:06,075 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWH_UU.pdb' 2026-02-14T09:50:06,076 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_CA.pdb' 2026-02-14T09:50:06,078 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_CG.pdb' 2026-02-14T09:50:06,079 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWHa_UA.pdb' 2026-02-14T09:50:06,081 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AA.pdb' 2026-02-14T09:50:06,083 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AC.pdb' 2026-02-14T09:50:06,084 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AG.pdb' 2026-02-14T09:50:06,086 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_AU.pdb' 2026-02-14T09:50:06,087 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CA.pdb' 2026-02-14T09:50:06,088 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CC.pdb' 2026-02-14T09:50:06,090 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CG.pdb' 2026-02-14T09:50:06,091 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_CU.pdb' 2026-02-14T09:50:06,092 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_GC.pdb' 2026-02-14T09:50:06,094 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_GU.pdb' 2026-02-14T09:50:06,095 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UA.pdb' 2026-02-14T09:50:06,097 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UC.pdb' 2026-02-14T09:50:06,098 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UG.pdb' 2026-02-14T09:50:06,099 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWS_UU.pdb' 2026-02-14T09:50:06,101 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWSa_AG.pdb' 2026-02-14T09:50:06,102 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AA.pdb' 2026-02-14T09:50:06,104 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AC.pdb' 2026-02-14T09:50:06,105 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_AU.pdb' 2026-02-14T09:50:06,106 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CA.pdb' 2026-02-14T09:50:06,108 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CC.pdb' 2026-02-14T09:50:06,109 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CG.pdb' 2026-02-14T09:50:06,111 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_CU.pdb' 2026-02-14T09:50:06,112 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GC.pdb' 2026-02-14T09:50:06,113 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GG.pdb' 2026-02-14T09:50:06,115 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_GU.pdb' 2026-02-14T09:50:06,116 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UA.pdb' 2026-02-14T09:50:06,118 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UC.pdb' 2026-02-14T09:50:06,119 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UG.pdb' 2026-02-14T09:50:06,120 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/tWW_UU.pdb' 2026-02-14T09:50:06,123 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AA.pdb' 2026-02-14T09:50:06,124 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AC.pdb' 2026-02-14T09:50:06,126 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AG.pdb' 2026-02-14T09:50:06,127 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_AU.pdb' 2026-02-14T09:50:06,129 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_CC.pdb' 2026-02-14T09:50:06,131 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_CU.pdb' 2026-02-14T09:50:06,132 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_GG.pdb' 2026-02-14T09:50:06,134 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_GU.pdb' 2026-02-14T09:50:06,135 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s33_UU.pdb' 2026-02-14T09:50:06,137 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AA.pdb' 2026-02-14T09:50:06,138 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AC.pdb' 2026-02-14T09:50:06,140 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AG.pdb' 2026-02-14T09:50:06,141 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_AU.pdb' 2026-02-14T09:50:06,143 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CC.pdb' 2026-02-14T09:50:06,144 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CG.pdb' 2026-02-14T09:50:06,146 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_CU.pdb' 2026-02-14T09:50:06,147 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_GG.pdb' 2026-02-14T09:50:06,148 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_GU.pdb' 2026-02-14T09:50:06,150 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s35_UU.pdb' 2026-02-14T09:50:06,151 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AA.pdb' 2026-02-14T09:50:06,153 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AC.pdb' 2026-02-14T09:50:06,154 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AG.pdb' 2026-02-14T09:50:06,155 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_AU.pdb' 2026-02-14T09:50:06,157 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_CC.pdb' 2026-02-14T09:50:06,158 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_CU.pdb' 2026-02-14T09:50:06,160 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_GG.pdb' 2026-02-14T09:50:06,161 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_GU.pdb' 2026-02-14T09:50:06,162 adding 'rna_tools/tools/mini_moderna3/moderna/data/base_pairs/stacking/s55_UU.pdb' 2026-02-14T09:50:06,165 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/1wts_N1C6C5_N6_mm.pdb' 2026-02-14T09:50:06,166 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p.pdb' 2026-02-14T09:50:06,168 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p.pdb' 2026-02-14T09:50:06,169 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_m.pdb' 2026-02-14T09:50:06,170 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_r_P.pdb' 2026-02-14T09:50:06,171 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C1pC2pC3p_O2p_rp.pdb' 2026-02-14T09:50:06,173 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_D.pdb' 2026-02-14T09:50:06,174 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_m.pdb' 2026-02-14T09:50:06,175 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N1C6_m5D.pdb' 2026-02-14T09:50:06,176 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N3C4_acp.pdb' 2026-02-14T09:50:06,178 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C2N3C4_m.pdb' 2026-02-14T09:50:06,179 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_C7.pdb' 2026-02-14T09:50:06,181 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_Y.pdb' 2026-02-14T09:50:06,182 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_f.pdb' 2026-02-14T09:50:06,183 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m.pdb' 2026-02-14T09:50:06,184 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m1Y.pdb' 2026-02-14T09:50:06,186 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m1acp3Y.pdb' 2026-02-14T09:50:06,187 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_m3Y.pdb' 2026-02-14T09:50:06,188 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mc.pdb' 2026-02-14T09:50:06,190 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mcm.pdb' 2026-02-14T09:50:06,191 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mcn.pdb' 2026-02-14T09:50:06,192 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mh.pdb' 2026-02-14T09:50:06,193 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mhc.pdb' 2026-02-14T09:50:06,195 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mhcm.pdb' 2026-02-14T09:50:06,196 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mn.pdb' 2026-02-14T09:50:06,197 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mnm.pdb' 2026-02-14T09:50:06,198 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mnmc.pdb' 2026-02-14T09:50:06,199 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_mt.pdb' 2026-02-14T09:50:06,201 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_oh.pdb' 2026-02-14T09:50:06,202 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_om.pdb' 2026-02-14T09:50:06,203 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_omc.pdb' 2026-02-14T09:50:06,205 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4C5C6_omcm.pdb' 2026-02-14T09:50:06,206 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_QtRNA.pdb' 2026-02-14T09:50:06,207 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_galQtRNA.pdb' 2026-02-14T09:50:06,208 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_gluQtRNA.pdb' 2026-02-14T09:50:06,210 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_manQtRNA.pdb' 2026-02-14T09:50:06,211 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_oQtRNA.pdb' 2026-02-14T09:50:06,212 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_preQ0tRNA.pdb' 2026-02-14T09:50:06,214 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C4N9C8_preQ1tRNA.pdb' 2026-02-14T09:50:06,215 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C5C7C8_arch.pdb' 2026-02-14T09:50:06,216 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C5N7C8_m.pdb' 2026-02-14T09:50:06,217 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/C6N7C8_m.pdb' 2026-02-14T09:50:06,218 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_i.pdb' 2026-02-14T09:50:06,220 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_mi.pdb' 2026-02-14T09:50:06,221 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_o2yW.pdb' 2026-02-14T09:50:06,222 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_ohyW.pdb' 2026-02-14T09:50:06,224 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_ohyW_star.pdb' 2026-02-14T09:50:06,225 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N2_yW.pdb' 2026-02-14T09:50:06,226 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_N2_m.pdb' 2026-02-14T09:50:06,227 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_N2_mm.pdb' 2026-02-14T09:50:06,229 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_k.pdb' 2026-02-14T09:50:06,230 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_m.pdb' 2026-02-14T09:50:06,232 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_s.pdb' 2026-02-14T09:50:06,233 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_se.pdb' 2026-02-14T09:50:06,234 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C2N3_sm.pdb' 2026-02-14T09:50:06,235 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_g.pdb' 2026-02-14T09:50:06,236 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_hn.pdb' 2026-02-14T09:50:06,238 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_i.pdb' 2026-02-14T09:50:06,239 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_io.pdb' 2026-02-14T09:50:06,240 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_m.pdb' 2026-02-14T09:50:06,241 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_m_t.pdb' 2026-02-14T09:50:06,242 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_mm.pdb' 2026-02-14T09:50:06,243 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_N6_t.pdb' 2026-02-14T09:50:06,245 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_O.pdb' 2026-02-14T09:50:06,246 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N1C6C5_ac.pdb' 2026-02-14T09:50:06,247 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_ac.pdb' 2026-02-14T09:50:06,248 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_m.pdb' 2026-02-14T09:50:06,249 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_N4_mm.pdb' 2026-02-14T09:50:06,251 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/N3C4C5_s.pdb' 2026-02-14T09:50:06,252 adding 'rna_tools/tools/mini_moderna3/moderna/data/modification_fragments/ribose_C.pdb' 2026-02-14T09:50:06,254 adding 'rna_tools/tools/mini_moderna3/moderna/data/standard_bases/A.ent' 2026-02-14T09:50:06,255 adding 'rna_tools/tools/mini_moderna3/moderna/data/standard_bases/C.ent' 2026-02-14T09:50:06,256 adding 'rna_tools/tools/mini_moderna3/moderna/data/standard_bases/G.ent' 2026-02-14T09:50:06,257 adding 'rna_tools/tools/mini_moderna3/moderna/data/standard_bases/P_atom.ent' 2026-02-14T09:50:06,258 adding 'rna_tools/tools/mini_moderna3/moderna/data/standard_bases/U.ent' 2026-02-14T09:50:06,260 adding 'rna_tools/tools/mini_moderna3/moderna/examples/__init__.py' 2026-02-14T09:50:06,262 adding 'rna_tools/tools/mini_moderna3/moderna/examples/usage_examples.py' 2026-02-14T09:50:06,264 adding 'rna_tools/tools/mini_moderna3/moderna/fragment_library/LIR.py' 2026-02-14T09:50:06,266 adding 'rna_tools/tools/mini_moderna3/moderna/fragment_library/LIRdb.py' 2026-02-14T09:50:06,269 adding 'rna_tools/tools/mini_moderna3/moderna/fragment_library/SearchLIR.py' 2026-02-14T09:50:06,270 adding 'rna_tools/tools/mini_moderna3/moderna/fragment_library/StructureLibrary.py' 2026-02-14T09:50:06,271 adding 'rna_tools/tools/mini_moderna3/moderna/fragment_library/__init__.py' 2026-02-14T09:50:06,273 adding 'rna_tools/tools/mini_moderna3/moderna/isosteric/IsostericModelling.py' 2026-02-14T09:50:06,275 adding 'rna_tools/tools/mini_moderna3/moderna/isosteric/Isostericity.py' 2026-02-14T09:50:06,277 adding 'rna_tools/tools/mini_moderna3/moderna/isosteric/IsostericityMatrices.py' 2026-02-14T09:50:06,278 adding 'rna_tools/tools/mini_moderna3/moderna/isosteric/__init__.py' 2026-02-14T09:50:06,280 adding 'rna_tools/tools/mini_moderna3/moderna/modifications/BaseExchanger.py' 2026-02-14T09:50:06,281 adding 'rna_tools/tools/mini_moderna3/moderna/modifications/ModificationAdder.py' 2026-02-14T09:50:06,283 adding 'rna_tools/tools/mini_moderna3/moderna/modifications/ModificationRemover.py' 2026-02-14T09:50:06,284 adding 'rna_tools/tools/mini_moderna3/moderna/modifications/ModifyResidue.py' 2026-02-14T09:50:06,285 adding 'rna_tools/tools/mini_moderna3/moderna/modifications/ResidueEditor.py' 2026-02-14T09:50:06,287 adding 'rna_tools/tools/mini_moderna3/moderna/modifications/__init__.py' 2026-02-14T09:50:06,289 adding 'rna_tools/tools/mini_moderna3/moderna/sequence/AlignmentMatcher.py' 2026-02-14T09:50:06,290 adding 'rna_tools/tools/mini_moderna3/moderna/sequence/ModernaAlphabet.py' 2026-02-14T09:50:06,292 adding 'rna_tools/tools/mini_moderna3/moderna/sequence/ModernaSequence.py' 2026-02-14T09:50:06,294 adding 'rna_tools/tools/mini_moderna3/moderna/sequence/RNAAlignment.py' 2026-02-14T09:50:06,295 adding 'rna_tools/tools/mini_moderna3/moderna/sequence/__init__.py' 2026-02-14T09:50:06,296 adding 'rna_tools/tools/mini_moderna3/moderna/sequence/commands.py' 2026-02-14T09:50:06,298 adding 'rna_tools/tools/mini_moderna3/moderna/util/Errors.py' 2026-02-14T09:50:06,300 adding 'rna_tools/tools/mini_moderna3/moderna/util/LogFile.py' 2026-02-14T09:50:06,301 adding 'rna_tools/tools/mini_moderna3/moderna/util/__init__.py' 2026-02-14T09:50:06,302 adding 'rna_tools/tools/mini_moderna3/moderna/util/decorators.py' 2026-02-14T09:50:06,303 adding 'rna_tools/tools/mini_moderna3/moderna/util/validators.py' 2026-02-14T09:50:06,305 adding 'rna_tools/tools/misc/__init__.py' 2026-02-14T09:50:06,306 adding 'rna_tools/tools/misc/reverse.py' 2026-02-14T09:50:06,307 adding 'rna_tools/tools/misc/rna_add_chain.py' 2026-02-14T09:50:06,309 adding 'rna_tools/tools/misc/rna_dict2fasta.py' 2026-02-14T09:50:06,310 adding 'rna_tools/tools/misc/rna_ok' 2026-02-14T09:50:06,311 adding 'rna_tools/tools/misc/rna_ok_mail.py' 2026-02-14T09:50:06,312 adding 'rna_tools/tools/misc/rna_remote_run.py' 2026-02-14T09:50:06,313 adding 'rna_tools/tools/misc/rna_test_cuda.py' 2026-02-14T09:50:06,315 adding 'rna_tools/tools/misc/rna_tools_demo.py' 2026-02-14T09:50:06,316 adding 'rna_tools/tools/misc/rna_tools_which.py' 2026-02-14T09:50:06,317 adding 'rna_tools/tools/misc/rna_topdb.py' 2026-02-14T09:50:06,318 adding 'rna_tools/tools/misc/test.sh' 2026-02-14T09:50:06,320 adding 'rna_tools/tools/misc/translate.py' 2026-02-14T09:50:06,322 adding 'rna_tools/tools/mq/README.md' 2026-02-14T09:50:06,323 adding 'rna_tools/tools/mq/__init__.py' 2026-02-14T09:50:06,326 adding 'rna_tools/tools/mq/rna_mq_collect.py' 2026-02-14T09:50:06,329 adding 'rna_tools/tools/mq/rna_mq_collect_tqdm.py' 2026-02-14T09:50:06,331 adding 'rna_tools/tools/mq/rna_mq_exp.py' 2026-02-14T09:50:06,332 adding 'rna_tools/tools/mq/rna_mq_plot.py' 2026-02-14T09:50:06,333 adding 'rna_tools/tools/mq/rna_mq_remote.sh' 2026-02-14T09:50:06,335 adding 'rna_tools/tools/mq/rna_mq_score.py' 2026-02-14T09:50:06,336 adding 'rna_tools/tools/mq/rna_mq_wx_collect.py' 2026-02-14T09:50:06,337 adding 'rna_tools/tools/mq/test.sh' 2026-02-14T09:50:06,339 adding 'rna_tools/tools/mq/AnalyzeGeometry/AnalyzeGeometry.py' 2026-02-14T09:50:06,340 adding 'rna_tools/tools/mq/AnalyzeGeometry/__init__.py' 2026-02-14T09:50:06,342 adding 'rna_tools/tools/mq/AnalyzeGeometry/rna_mq_analyzegeometry.py' 2026-02-14T09:50:06,343 adding 'rna_tools/tools/mq/AnalyzeGeometry/test.sh' 2026-02-14T09:50:06,345 adding 'rna_tools/tools/mq/ClashScore/ClashScore.py' 2026-02-14T09:50:06,346 adding 'rna_tools/tools/mq/ClashScore/__init__.py' 2026-02-14T09:50:06,347 adding 'rna_tools/tools/mq/ClashScore/rna_mq_clashscore.py' 2026-02-14T09:50:06,349 adding 'rna_tools/tools/mq/ClashScore/test.sh' 2026-02-14T09:50:06,351 adding 'rna_tools/tools/mq/Dfire/Dfire.py' 2026-02-14T09:50:06,352 adding 'rna_tools/tools/mq/Dfire/__init__.py' 2026-02-14T09:50:06,353 adding 'rna_tools/tools/mq/Dfire/rna_mq_dfire.py' 2026-02-14T09:50:06,354 adding 'rna_tools/tools/mq/Dfire/test.output' 2026-02-14T09:50:06,356 adding 'rna_tools/tools/mq/Dfire/test.sh' 2026-02-14T09:50:06,358 adding 'rna_tools/tools/mq/FARFAR2/FARFAR2.py' 2026-02-14T09:50:06,359 adding 'rna_tools/tools/mq/FARFAR2/__init__.py' 2026-02-14T09:50:06,361 adding 'rna_tools/tools/mq/FARFAR2/rna_mq_farfar2.py' 2026-02-14T09:50:06,362 adding 'rna_tools/tools/mq/FARFAR2/test.sh' 2026-02-14T09:50:06,364 adding 'rna_tools/tools/mq/FARFAR2/test_output/.python-version' 2026-02-14T09:50:06,365 adding 'rna_tools/tools/mq/FARFAR2/test_output/ff2.csv' 2026-02-14T09:50:06,366 adding 'rna_tools/tools/mq/FARFAR2/test_output/ff2_hires.csv' 2026-02-14T09:50:06,367 adding 'rna_tools/tools/mq/FARFAR2/test_output/ff2_hires_rna_mq_collect.csv' 2026-02-14T09:50:06,368 adding 'rna_tools/tools/mq/FARFAR2/test_output/ff2_rna_mq_collect.csv' 2026-02-14T09:50:06,370 adding 'rna_tools/tools/mq/FARNA/FARNA.py' 2026-02-14T09:50:06,371 adding 'rna_tools/tools/mq/FARNA/__init__.py' 2026-02-14T09:50:06,373 adding 'rna_tools/tools/mq/FARNA/rna_mq_farna.py' 2026-02-14T09:50:06,374 adding 'rna_tools/tools/mq/FARNA/test.sh' 2026-02-14T09:50:06,375 adding 'rna_tools/tools/mq/FARNA/test_output/1xjrA_rna_mq_collect_FARNA_hires.csv' 2026-02-14T09:50:06,376 adding 'rna_tools/tools/mq/FARNA/test_output/1y26X_output4_01-000001_AA.pdb_rna_mq_collect_FARNA_lores.csv' 2026-02-14T09:50:06,378 adding 'rna_tools/tools/mq/FARNA/test_output/1y26X_output4_01-000001_AA.pdb_rna_mq_farna_lores.csv' 2026-02-14T09:50:06,379 adding 'rna_tools/tools/mq/QRNAS/QRNAS.py' 2026-02-14T09:50:06,381 adding 'rna_tools/tools/mq/QRNAS/__init__.py' 2026-02-14T09:50:06,382 adding 'rna_tools/tools/mq/QRNAS/test.sh' 2026-02-14T09:50:06,388 adding 'rna_tools/tools/mq/QRNAS/test/1a9n.pdb' 2026-02-14T09:50:06,390 adding 'rna_tools/tools/mq/QRNAS/test/__init__.py' 2026-02-14T09:50:06,391 adding 'rna_tools/tools/mq/QRNAS/test/test.output' 2026-02-14T09:50:06,392 adding 'rna_tools/tools/mq/QRNAS/test/test.py' 2026-02-14T09:50:06,412 adding 'rna_tools/tools/mq/QRNAS/test/unmod_Val3_tRNA_model_si.pdb' 2026-02-14T09:50:06,415 adding 'rna_tools/tools/mq/RASP/RASP.py' 2026-02-14T09:50:06,416 adding 'rna_tools/tools/mq/RASP/__init__.py' 2026-02-14T09:50:06,417 adding 'rna_tools/tools/mq/RASP/rasp_for_pymol.py' 2026-02-14T09:50:06,418 adding 'rna_tools/tools/mq/RASP/rna_mq_rasp.py' 2026-02-14T09:50:06,419 adding 'rna_tools/tools/mq/RASP/test.py' 2026-02-14T09:50:06,421 adding 'rna_tools/tools/mq/RASP/test.sh' 2026-02-14T09:50:06,438 adding 'rna_tools/tools/mq/RASP/test/17_Bujnicki_7_rpr.pdb' 2026-02-14T09:50:06,456 adding 'rna_tools/tools/mq/RASP/test/17_Das_1_rpr.pdb' 2026-02-14T09:50:06,473 adding 'rna_tools/tools/mq/RASP/test/17_Das_4_rpr.pdb' 2026-02-14T09:50:06,475 adding 'rna_tools/tools/mq/RASP/test/__init__.py' 2026-02-14T09:50:06,476 adding 'rna_tools/tools/mq/RASP/test/mq.csv' 2026-02-14T09:50:06,477 adding 'rna_tools/tools/mq/RASP/test/test.csv' 2026-02-14T09:50:06,478 adding 'rna_tools/tools/mq/RASP/test/test.py' 2026-02-14T09:50:06,479 adding 'rna_tools/tools/mq/RASP/test/test_sorted_rasp_all.csv' 2026-02-14T09:50:06,481 adding 'rna_tools/tools/mq/RNA3DCNN/RNA3DCNN.py' 2026-02-14T09:50:06,482 adding 'rna_tools/tools/mq/RNA3DCNN/__init__.py' 2026-02-14T09:50:06,484 adding 'rna_tools/tools/mq/RNA3DCNN/rna_mq_rna3dcnn.py' 2026-02-14T09:50:06,485 adding 'rna_tools/tools/mq/RNA3DCNN/test.output' 2026-02-14T09:50:06,486 adding 'rna_tools/tools/mq/RNA3DCNN/test.sh' 2026-02-14T09:50:06,489 adding 'rna_tools/tools/mq/RNAkb/RNAkb.py' 2026-02-14T09:50:06,490 adding 'rna_tools/tools/mq/RNAkb/__init__.py' 2026-02-14T09:50:06,491 adding 'rna_tools/tools/mq/RNAkb/rna_mq_rnakb.py' 2026-02-14T09:50:06,492 adding 'rna_tools/tools/mq/RNAkb/test.sh' 2026-02-14T09:50:06,501 adding 'rna_tools/tools/mq/RNAkb/test_data/1dqf.pdb' 2026-02-14T09:50:06,507 adding 'rna_tools/tools/mq/RNAkb/test_data/1dqf_noCA+ResnShift.pdb' 2026-02-14T09:50:06,513 adding 'rna_tools/tools/mq/RNAkb/test_data/1dqf_noCA.pdb' 2026-02-14T09:50:06,520 adding 'rna_tools/tools/mq/RNAkb/test_data/1duq.pdb' 2026-02-14T09:50:06,523 adding 'rna_tools/tools/mq/RNAkb/test_data/1msy_nt1.pdb' 2026-02-14T09:50:06,530 adding 'rna_tools/tools/mq/RNAkb/test_data/1msy_output4_01-000001_AA.pdb' 2026-02-14T09:50:06,542 adding 'rna_tools/tools/mq/RNAkb/test_data/1ykq.pdb' 2026-02-14T09:50:07,446 adding 'rna_tools/tools/mq/RNAkb/test_data/1z58.pdb' 2026-02-14T09:50:07,480 adding 'rna_tools/tools/mq/RNAkb/test_data/333d.pdb' 2026-02-14T09:50:07,484 adding 'rna_tools/tools/mq/RNAkb/test_data/434d.pdb' 2026-02-14T09:50:07,486 adding 'rna_tools/tools/mq/RNAkb/test_data/C.pdb' 2026-02-14T09:50:07,488 adding 'rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean.pdb' 2026-02-14T09:50:07,491 adding 'rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error.pdb' 2026-02-14T09:50:07,493 adding 'rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_error_fx.pdb' 2026-02-14T09:50:07,496 adding 'rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clean_noC.pdb' 2026-02-14T09:50:07,498 adding 'rna_tools/tools/mq/RNAkb/test_data/cat_chunk003_2r8s_5kcycles_decoys_nonativefrags.cluster1.0_clx.pdb' 2026-02-14T09:50:07,500 adding 'rna_tools/tools/mq/RNAscore/RNAscore.py' 2026-02-14T09:50:07,501 adding 'rna_tools/tools/mq/RNAscore/__init__.py' 2026-02-14T09:50:07,503 adding 'rna_tools/tools/mq/SimRNA/SimRNA.py' 2026-02-14T09:50:07,504 adding 'rna_tools/tools/mq/SimRNA/__init__.py' 2026-02-14T09:50:07,505 adding 'rna_tools/tools/mq/SimRNA/rna_mq_simrna.py' 2026-02-14T09:50:07,507 adding 'rna_tools/tools/mq/SimRNA/test.sh' 2026-02-14T09:50:07,513 adding 'rna_tools/tools/mq/SimRNA/test/1duq_clx_decoy4_clx.pdb' 2026-02-14T09:50:07,515 adding 'rna_tools/tools/mq/SimRNA/test/output.csv' 2026-02-14T09:50:07,516 adding 'rna_tools/tools/mq/SimRNA/test/test.py' 2026-02-14T09:50:07,518 adding 'rna_tools/tools/mq/eSCORE/__init__.py' 2026-02-14T09:50:07,519 adding 'rna_tools/tools/mq/eSCORE/eSCORE.py' 2026-02-14T09:50:07,520 adding 'rna_tools/tools/mq/eSCORE/rna_mq_eSCORE.py' 2026-02-14T09:50:07,521 adding 'rna_tools/tools/mq/eSCORE/test.sh' 2026-02-14T09:50:07,523 adding 'rna_tools/tools/mq/eSCORE/test/escore.txt' 2026-02-14T09:50:07,525 adding 'rna_tools/tools/mq/lib/__init__.py' 2026-02-14T09:50:07,530 adding 'rna_tools/tools/mq/lib/shellgraphics/LICENSE' 2026-02-14T09:50:07,531 adding 'rna_tools/tools/mq/lib/shellgraphics/README.md' 2026-02-14T09:50:07,532 adding 'rna_tools/tools/mq/lib/shellgraphics/__init__.py' 2026-02-14T09:50:07,533 adding 'rna_tools/tools/mq/lib/shellgraphics/output.txt' 2026-02-14T09:50:07,535 adding 'rna_tools/tools/mq/lib/shellgraphics/shellgraphics.py' 2026-02-14T09:50:07,537 adding 'rna_tools/tools/mq/lib/timex/.gitignore' 2026-02-14T09:50:07,543 adding 'rna_tools/tools/mq/lib/timex/LICENSE' 2026-02-14T09:50:07,544 adding 'rna_tools/tools/mq/lib/timex/README.md' 2026-02-14T09:50:07,546 adding 'rna_tools/tools/mq/lib/timex/__init__.py' 2026-02-14T09:50:07,547 adding 'rna_tools/tools/mq/lib/timex/timex.py' 2026-02-14T09:50:07,549 adding 'rna_tools/tools/mq/lib/wrappers/README.md' 2026-02-14T09:50:07,550 adding 'rna_tools/tools/mq/lib/wrappers/SubprocessUtils.py' 2026-02-14T09:50:07,551 adding 'rna_tools/tools/mq/lib/wrappers/__init__.py' 2026-02-14T09:50:07,553 adding 'rna_tools/tools/mq/lib/wrappers/base_wrappers.py' 2026-02-14T09:50:07,555 adding 'rna_tools/tools/mq/lib/wrappers/test/__init__.py' 2026-02-14T09:50:07,556 adding 'rna_tools/tools/mq/lib/wrappers/test/test.py' 2026-02-14T09:50:07,558 adding 'rna_tools/tools/mq/rsRNASP/__init__.py' 2026-02-14T09:50:07,559 adding 'rna_tools/tools/mq/rsRNASP/rna_mq_rsRNASP.py' 2026-02-14T09:50:07,561 adding 'rna_tools/tools/mq/rsRNASP/rsRNASP.py' 2026-02-14T09:50:07,562 adding 'rna_tools/tools/mq/rsRNASP/test.sh' 2026-02-14T09:50:07,569 adding 'rna_tools/tools/mq/test/1a9n.pdb' 2026-02-14T09:50:07,577 adding 'rna_tools/tools/mq/test/1msy_output4_01-000001_AA_edited.pdb' 2026-02-14T09:50:07,591 adding 'rna_tools/tools/mq/test/1xjrA.pdb' 2026-02-14T09:50:07,606 adding 'rna_tools/tools/mq/test/1xjrA_M1.pdb' 2026-02-14T09:50:07,620 adding 'rna_tools/tools/mq/test/1xjrA_M500.pdb' 2026-02-14T09:50:07,633 adding 'rna_tools/tools/mq/test/1xjrA_output4_04-000056_AA.pdb' 2026-02-14T09:50:07,653 adding 'rna_tools/tools/mq/test/1y26X_output4_01-000001_AA.pdb' 2026-02-14T09:50:07,664 adding 'rna_tools/tools/mq/test/1zhoH.pdb' 2026-02-14T09:50:07,678 adding 'rna_tools/tools/mq/test/2pcw_1_2chains.pdb' 2026-02-14T09:50:07,692 adding 'rna_tools/tools/mq/test/3e5f_output4_01-000001_AA+ResnShift.pdb' 2026-02-14T09:50:07,722 adding 'rna_tools/tools/mq/test/6TNA.pdb' 2026-02-14T09:50:07,725 adding 'rna_tools/tools/mq/test/all.csv' 2026-02-14T09:50:07,726 adding 'rna_tools/tools/mq/test/dfire.csv' 2026-02-14T09:50:07,728 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr.pdb' 2026-02-14T09:50:07,730 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_2.pdb' 2026-02-14T09:50:07,732 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_6.pdb' 2026-02-14T09:50:07,734 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChains.pdb' 2026-02-14T09:50:07,737 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChainsAB.pdb' 2026-02-14T09:50:07,739 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_SwapChainsOneChain.pdb' 2026-02-14T09:50:07,742 adding 'rna_tools/tools/mq/test/gcu-t1_yCs_5MPS.pdb2-21g-6-61c+80u-rpr_x4chains.pdb' 2026-02-14T09:50:07,744 adding 'rna_tools/tools/mq/test/ggg-t1_yCs_5MPS.pdb2-21g-6-61g+80g-rpr.pdb' 2026-02-14T09:50:07,753 adding 'rna_tools/tools/mq/test/test.pdb' 2026-02-14T09:50:07,762 adding 'rna_tools/tools/mq/test/test2.pdb' 2026-02-14T09:50:07,764 adding 'rna_tools/tools/mq/tmp/yC_5LJ3_U2U6_core_1st_triplex_6-61A_2-21U_refx/configfile.txt' 2026-02-14T09:50:07,767 adding 'rna_tools/tools/pdb_formatix/PDBFile.py' 2026-02-14T09:50:07,768 adding 'rna_tools/tools/pdb_formatix/README.md' 2026-02-14T09:50:07,769 adding 'rna_tools/tools/pdb_formatix/RosettaUtils.py' 2026-02-14T09:50:07,771 adding 'rna_tools/tools/pdb_formatix/SingleLineUtils.py' 2026-02-14T09:50:07,772 adding 'rna_tools/tools/pdb_formatix/__init__.py' 2026-02-14T09:50:07,773 adding 'rna_tools/tools/pdb_formatix/rebuilder.py' 2026-02-14T09:50:07,774 adding 'rna_tools/tools/pdb_formatix/test-quick-and-dirty.py' 2026-02-14T09:50:07,796 adding 'rna_tools/tools/pdb_formatix/test/1kxkA_rasp.native.pdb' 2026-02-14T09:50:07,810 adding 'rna_tools/tools/pdb_formatix/test/1xjrA_M1+ter.pdb' 2026-02-14T09:50:07,824 adding 'rna_tools/tools/pdb_formatix/test/1xjrA_M1.pdb' 2026-02-14T09:50:07,826 adding 'rna_tools/tools/pdb_formatix/test/__init__.py' 2026-02-14T09:50:07,828 adding 'rna_tools/tools/pdb_formatix/test/protein.pdb' 2026-02-14T09:50:07,829 adding 'rna_tools/tools/pdb_formatix/test/sample_for_distance.pdb' 2026-02-14T09:50:07,831 adding 'rna_tools/tools/pdb_formatix/test/test.py' 2026-02-14T09:50:07,842 adding 'rna_tools/tools/pdb_formatix/test/test0.in' 2026-02-14T09:50:07,852 adding 'rna_tools/tools/pdb_formatix/test/test0.out' 2026-02-14T09:50:07,863 adding 'rna_tools/tools/pdb_formatix/test/test0_3to1.out' 2026-02-14T09:50:07,865 adding 'rna_tools/tools/pdb_formatix/test/test1.in' 2026-02-14T09:50:07,866 adding 'rna_tools/tools/pdb_formatix/test/test1.out' 2026-02-14T09:50:07,928 adding 'rna_tools/tools/pdb_formatix/test/test_nmr.in' 2026-02-14T09:50:07,937 adding 'rna_tools/tools/pdb_formatix/test/test_nmr.out' 2026-02-14T09:50:07,997 adding 'rna_tools/tools/pdb_formatix/test/test_nmr_atom.out' 2026-02-14T09:50:08,001 adding 'rna_tools/tools/pdbs_measure_atom_dists/__init__.py' 2026-02-14T09:50:08,003 adding 'rna_tools/tools/pdbs_measure_atom_dists/pdbs_measure_atom_dists.py' 2026-02-14T09:50:08,004 adding 'rna_tools/tools/pdbs_measure_atom_dists/test.sh' 2026-02-14T09:50:08,006 adding 'rna_tools/tools/pdbs_measure_atom_dists/test_data/ALN_OBJ1_OBJ2.fa' 2026-02-14T09:50:08,009 adding 'rna_tools/tools/pdbs_measure_atom_dists/test_data/obj01.pdb' 2026-02-14T09:50:08,018 adding 'rna_tools/tools/pdbs_measure_atom_dists/test_data/obj02.pdb' 2026-02-14T09:50:08,020 adding 'rna_tools/tools/plotting/__init__.py' 2026-02-14T09:50:08,022 adding 'rna_tools/tools/plotting/rna_plot_boxplotlike.py' 2026-02-14T09:50:08,023 adding 'rna_tools/tools/plotting/rna_plot_dendogram.py' 2026-02-14T09:50:08,024 adding 'rna_tools/tools/plotting/rna_plot_density.py' 2026-02-14T09:50:08,026 adding 'rna_tools/tools/plotting/rna_plot_heatmap.py' 2026-02-14T09:50:08,027 adding 'rna_tools/tools/plotting/rna_plot_hist.py' 2026-02-14T09:50:08,028 adding 'rna_tools/tools/plotting/test.sh' 2026-02-14T09:50:08,030 adding 'rna_tools/tools/plotting/test_data/rmsds.csv' 2026-02-14T09:50:08,033 adding 'rna_tools/tools/plotting/test_data/rmsds_dens.png' 2026-02-14T09:50:08,036 adding 'rna_tools/tools/plotting/test_data/rmsds_hist.png' 2026-02-14T09:50:08,040 adding 'rna_tools/tools/proteins/1djf.pdb' 2026-02-14T09:50:08,042 adding 'rna_tools/tools/proteins/calc_distances.py' 2026-02-14T09:50:08,043 adding 'rna_tools/tools/proteins/test.sh' 2026-02-14T09:50:08,045 adding 'rna_tools/tools/proteins/u2-u6-cwc15-trim2_proteinOnly.pdb' 2026-02-14T09:50:08,047 adding 'rna_tools/tools/pymol_color_by_conserv/conserv_to_csv.py' 2026-02-14T09:50:08,048 adding 'rna_tools/tools/pymol_color_by_conserv/pymol_color_by_conserv.py' 2026-02-14T09:50:08,050 adding 'rna_tools/tools/pymol_color_by_conserv/readme.md' 2026-02-14T09:50:08,051 adding 'rna_tools/tools/pymol_color_by_conserv/test.sh' 2026-02-14T09:50:08,053 adding 'rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15.pml' 2026-02-14T09:50:08,055 adding 'rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15_consensus.csv' 2026-02-14T09:50:08,057 adding 'rna_tools/tools/pymol_color_by_conserv/data/cwc15/cwc15_conserv.csv' 2026-02-14T09:50:08,059 adding 'rna_tools/tools/pymol_color_by_conserv/data/cwc15/psiblast_8183496.aln' 2026-02-14T09:50:08,063 adding 'rna_tools/tools/pymol_color_by_conserv/docs/consensus-file.png' 2026-02-14T09:50:08,385 adding 'rna_tools/tools/pymol_color_by_conserv/docs/cwc15.png' 2026-02-14T09:50:08,436 adding 'rna_tools/tools/pymol_color_by_conserv/docs/jalview.png' 2026-02-14T09:50:08,440 adding 'rna_tools/tools/pymol_drawing/README.md' 2026-02-14T09:50:08,441 adding 'rna_tools/tools/pymol_drawing/__init__.py' 2026-02-14T09:50:08,443 adding 'rna_tools/tools/pymol_drawing/pymol_drawing.py' 2026-02-14T09:50:08,448 adding 'rna_tools/tools/pymol_drawing/docs/draw_circle.png' 2026-02-14T09:50:08,455 adding 'rna_tools/tools/pymol_drawing/docs/draw_dist.png' 2026-02-14T09:50:08,463 adding 'rna_tools/tools/pymol_drawing/docs/draw_vector.png' 2026-02-14T09:50:08,465 adding 'rna_tools/tools/pymol_drawing/test_data/CG.pdb' 2026-02-14T09:50:08,467 adding 'rna_tools/tools/pymol_preview_generator/pymol_preview_generator.py' 2026-02-14T09:50:08,468 adding 'rna_tools/tools/pymol_preview_generator/pymol_preview_install.py' 2026-02-14T09:50:08,470 adding 'rna_tools/tools/pymol_preview_generator/readme.md' 2026-02-14T09:50:08,472 adding 'rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/Info.plist' 2026-02-14T09:50:08,474 adding 'rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/document.wflow' 2026-02-14T09:50:08,476 adding 'rna_tools/tools/pymol_preview_generator/bash/PyMOL Preview.workflow/Contents/QuickLook/Thumbnail.png' 2026-02-14T09:50:08,586 adding 'rna_tools/tools/pymol_preview_generator/docs/demo.gif' 2026-02-14T09:50:08,679 adding 'rna_tools/tools/pymol_preview_generator/docs/demo.png' 2026-02-14T09:50:08,754 adding 'rna_tools/tools/pymol_preview_generator/docs/linux.png' 2026-02-14T09:50:08,760 adding 'rna_tools/tools/pymol_preview_generator/docs/popup-ok.png' 2026-02-14T09:50:08,768 adding 'rna_tools/tools/pymol_preview_generator/docs/popup-progress.png' 2026-02-14T09:50:08,808 adding 'rna_tools/tools/pymol_preview_generator/docs/preview.png' 2026-02-14T09:50:08,844 adding 'rna_tools/tools/pymol_preview_generator/docs/preview_2021-10-24_at_11.29.15.png' 2026-02-14T09:50:08,848 adding 'rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/Info.plist' 2026-02-14T09:50:08,850 adding 'rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/document.wflow' 2026-02-14T09:50:08,852 adding 'rna_tools/tools/pymol_preview_generator/zsh/PyMOL Preview.workflow/Contents/QuickLook/Thumbnail.png' 2026-02-14T09:50:08,854 adding 'rna_tools/tools/renum_pdb_to_aln/__init__.py' 2026-02-14T09:50:08,855 adding 'rna_tools/tools/renum_pdb_to_aln/renum_pdb_to_aln.py' 2026-02-14T09:50:08,856 adding 'rna_tools/tools/renum_pdb_to_aln/test.sh' 2026-02-14T09:50:08,858 adding 'rna_tools/tools/renum_pdb_to_aln/test_data/ALN_OBJ1_OBJ2.fa' 2026-02-14T09:50:08,861 adding 'rna_tools/tools/renum_pdb_to_aln/test_data/obj01.pdb' 2026-02-14T09:50:08,864 adding 'rna_tools/tools/renum_pdb_to_aln/test_data/obj01_out.pdb' 2026-02-14T09:50:08,866 adding 'rna_tools/tools/rna_alignment/__init__.py' 2026-02-14T09:50:08,868 adding 'rna_tools/tools/rna_alignment/random_assignment_of_nucleotides.py' 2026-02-14T09:50:08,870 adding 'rna_tools/tools/rna_alignment/rna_align_coverage.py' 2026-02-14T09:50:08,871 adding 'rna_tools/tools/rna_alignment/rna_align_distance_to_seq.py' 2026-02-14T09:50:08,872 adding 'rna_tools/tools/rna_alignment/rna_align_fetch_cm.py' 2026-02-14T09:50:08,873 adding 'rna_tools/tools/rna_alignment/rna_align_fetch_seed.py' 2026-02-14T09:50:08,875 adding 'rna_tools/tools/rna_alignment/rna_align_find_core.py' 2026-02-14T09:50:08,876 adding 'rna_tools/tools/rna_alignment/rna_align_find_seq_in_alignment.py' 2026-02-14T09:50:08,878 adding 'rna_tools/tools/rna_alignment/rna_align_foldability.py' 2026-02-14T09:50:08,879 adding 'rna_tools/tools/rna_alignment/rna_align_get_ss_from_fasta.py' 2026-02-14T09:50:08,881 adding 'rna_tools/tools/rna_alignment/rna_align_get_ss_from_stk.py' 2026-02-14T09:50:08,882 adding 'rna_tools/tools/rna_alignment/rna_align_seq_to_alignment.py' 2026-02-14T09:50:08,883 adding 'rna_tools/tools/rna_alignment/rna_align_sto2csv.py' 2026-02-14T09:50:09,953 adding 'rna_tools/tools/rna_alignment/rna_alignment.ipynb' 2026-02-14T09:50:10,005 adding 'rna_tools/tools/rna_alignment/rna_alignment.py' 2026-02-14T09:50:10,065 adding 'rna_tools/tools/rna_alignment/rna_alignment_IA1.ipynb' 2026-02-14T09:50:10,155 adding 'rna_tools/tools/rna_alignment/rna_alignment_IE2.ipynb' 2026-02-14T09:50:10,160 adding 'rna_tools/tools/rna_alignment/rna_alignment_r2r.py' 2026-02-14T09:50:10,162 adding 'rna_tools/tools/rna_alignment/test.py' 2026-02-14T09:50:10,163 adding 'rna_tools/tools/rna_alignment/test.sh' 2026-02-14T09:50:10,164 adding 'rna_tools/tools/rna_alignment/test_rchie.sh' 2026-02-14T09:50:10,166 adding 'rna_tools/tools/rna_alignment/test_rna_alignment.py' 2026-02-14T09:50:10,178 adding 'rna_tools/tools/rna_alignment/pngs/rchie.png' 2026-02-14T09:50:10,182 adding 'rna_tools/tools/rna_alignment/pngs/rscape.png' 2026-02-14T09:50:10,184 adding 'rna_tools/tools/rna_alignment/test_data/4lvv.seq' 2026-02-14T09:50:10,185 adding 'rna_tools/tools/rna_alignment/test_data/4lvv_RF01831_cmalign.txt' 2026-02-14T09:50:10,187 adding 'rna_tools/tools/rna_alignment/test_data/4lvv_cmalign.txt' 2026-02-14T09:50:10,209 adding 'rna_tools/tools/rna_alignment/test_data/IA1.gissd.sto' 2026-02-14T09:50:10,218 adding 'rna_tools/tools/rna_alignment/test_data/IE2.gissd.sto' 2026-02-14T09:50:10,246 adding 'rna_tools/tools/rna_alignment/test_data/RF00001.blocked.stk' 2026-02-14T09:50:10,251 adding 'rna_tools/tools/rna_alignment/test_data/RF00002.stockholm.stk' 2026-02-14T09:50:10,252 adding 'rna_tools/tools/rna_alignment/test_data/RF00167.stockholm.sto' 2026-02-14T09:50:10,266 adding 'rna_tools/tools/rna_alignment/test_data/RF00379.cm' 2026-02-14T09:50:10,273 adding 'rna_tools/tools/rna_alignment/test_data/RF00379.stockholm.stk' 2026-02-14T09:50:10,284 adding 'rna_tools/tools/rna_alignment/test_data/RF01831.cm' 2026-02-14T09:50:10,286 adding 'rna_tools/tools/rna_alignment/test_data/RF01831.short.stk' 2026-02-14T09:50:10,290 adding 'rna_tools/tools/rna_alignment/test_data/RF01831.stockholm.sto' 2026-02-14T09:50:10,293 adding 'rna_tools/tools/rna_alignment/test_data/RF02221.stockholm.sto' 2026-02-14T09:50:10,294 adding 'rna_tools/tools/rna_alignment/test_data/ade.fa' 2026-02-14T09:50:10,296 adding 'rna_tools/tools/rna_alignment/test_data/ade_gapped.fa' 2026-02-14T09:50:10,297 adding 'rna_tools/tools/rna_alignment/test_data/af27.fa' 2026-02-14T09:50:10,298 adding 'rna_tools/tools/rna_alignment/test_data/aln1.fasta' 2026-02-14T09:50:10,299 adding 'rna_tools/tools/rna_alignment/test_data/aln1_out.fasta' 2026-02-14T09:50:10,300 adding 'rna_tools/tools/rna_alignment/test_data/fasta.fasta' 2026-02-14T09:50:10,301 adding 'rna_tools/tools/rna_alignment/test_data/fasta_out.fasta' 2026-02-14T09:50:10,302 adding 'rna_tools/tools/rna_alignment/test_data/gmp.csv' 2026-02-14T09:50:10,303 adding 'rna_tools/tools/rna_alignment/test_data/gmp.sto' 2026-02-14T09:50:10,305 adding 'rna_tools/tools/rna_alignment/test_data/rfam_hit.txt' 2026-02-14T09:50:10,306 adding 'rna_tools/tools/rna_alignment/test_data/target.seq' 2026-02-14T09:50:10,315 adding 'rna_tools/tools/rna_alignment/test_data/u6_isl_rfam.sto' 2026-02-14T09:50:10,318 adding 'rna_tools/tools/rna_alignment/test_data/xrrna_rfam.sto' 2026-02-14T09:50:10,319 adding 'rna_tools/tools/rna_alignment/test_data/xx.fa' 2026-02-14T09:50:10,371 adding 'rna_tools/tools/rna_alignment/test_data/foldability/rp17_foldability.png' 2026-02-14T09:50:10,376 adding 'rna_tools/tools/rna_alignment/test_data/rchie_test_files/bpseq.txt' 2026-02-14T09:50:10,378 adding 'rna_tools/tools/rna_alignment/test_data/rchie_test_files/connect.txt' 2026-02-14T09:50:10,379 adding 'rna_tools/tools/rna_alignment/test_data/rchie_test_files/fasta.txt' 2026-02-14T09:50:10,380 adding 'rna_tools/tools/rna_alignment/test_data/rchie_test_files/helix.txt' 2026-02-14T09:50:10,381 adding 'rna_tools/tools/rna_alignment/test_data/rchie_test_files/vienna.txt' 2026-02-14T09:50:10,383 adding 'rna_tools/tools/rna_alignment/test_output/RF00167_subset.sto' 2026-02-14T09:50:10,385 adding 'rna_tools/tools/rna_alignment/test_output/ade_gapped.fa' 2026-02-14T09:50:10,386 adding 'rna_tools/tools/rna_alignment/test_output/mini.sto' 2026-02-14T09:50:10,387 adding 'rna_tools/tools/rna_alignment/test_output/out.sto' 2026-02-14T09:50:10,397 adding 'rna_tools/tools/rna_alignment/test_output/plot.png' 2026-02-14T09:50:10,398 adding 'rna_tools/tools/rna_alignment/test_output/subset.sto' 2026-02-14T09:50:10,402 adding 'rna_tools/tools/rna_alignment/utils/R2R.cpp' 2026-02-14T09:50:10,403 adding 'rna_tools/tools/rna_alignment/utils/R2R.cpp.readme.md' 2026-02-14T09:50:10,404 adding 'rna_tools/tools/rna_alignment/utils/__init__.py' 2026-02-14T09:50:10,406 adding 'rna_tools/tools/rna_alignment/utils/mfa-get-seq-for-species.py' 2026-02-14T09:50:10,407 adding 'rna_tools/tools/rna_alignment/utils/rna_align_strip_stk.py' 2026-02-14T09:50:10,409 adding 'rna_tools/tools/rna_alignment/utils/rna_alignment_calc_energy.py' 2026-02-14T09:50:10,411 adding 'rna_tools/tools/rna_alignment/utils/rna_alignment_get_species.py' 2026-02-14T09:50:10,412 adding 'rna_tools/tools/rna_alignment/utils/rna_alignment_merge_by_species.py' 2026-02-14T09:50:10,413 adding 'rna_tools/tools/rna_alignment/utils/rna_alignment_process_id.py' 2026-02-14T09:50:10,415 adding 'rna_tools/tools/rna_alignment/utils/rna_alignment_r2r.py' 2026-02-14T09:50:10,416 adding 'rna_tools/tools/rna_alignment/utils/rna_alignment_sto_remove_uniq_ids.py' 2026-02-14T09:50:10,417 adding 'rna_tools/tools/rna_alignment/utils/test.sh' 2026-02-14T09:50:10,419 adding 'rna_tools/tools/rna_alignment/utils/test_data/RF00026_demo.fa' 2026-02-14T09:50:10,421 adding 'rna_tools/tools/rna_alignment/utils/test_data/mustela.fa' 2026-02-14T09:50:10,422 adding 'rna_tools/tools/rna_alignment/utils/test_data/mustela_format.fa' 2026-02-14T09:50:10,423 adding 'rna_tools/tools/rna_alignment/utils/test_data/mutant_list.stk' 2026-02-14T09:50:10,424 adding 'rna_tools/tools/rna_alignment/utils/test_data/mutant_list.txt' 2026-02-14T09:50:10,425 adding 'rna_tools/tools/rna_alignment/utils/test_data/pustela.fa' 2026-02-14T09:50:10,427 adding 'rna_tools/tools/rna_alignment/utils/test_data/u5_rfam_u5only.stk' 2026-02-14T09:50:10,429 adding 'rna_tools/tools/rna_binding_affinity/rna_dG2kd.py' 2026-02-14T09:50:10,430 adding 'rna_tools/tools/rna_binding_affinity/rna_kd2dG.py' 2026-02-14T09:50:10,431 adding 'rna_tools/tools/rna_binding_affinity/rna_kd2pkd.py' 2026-02-14T09:50:10,432 adding 'rna_tools/tools/rna_binding_affinity/rna_pkd2dG.py' 2026-02-14T09:50:10,433 adding 'rna_tools/tools/rna_binding_affinity/rna_pkd2kd.py' 2026-02-14T09:50:10,435 adding 'rna_tools/tools/rna_binding_affinity/test.sh' 2026-02-14T09:50:10,436 adding 'rna_tools/tools/rna_bp/__init__.py' 2026-02-14T09:50:10,438 adding 'rna_tools/tools/rna_bp/base_pair.py' 2026-02-14T09:50:10,440 adding 'rna_tools/tools/rna_calc_evo_rmsd/RNAalignment.py' 2026-02-14T09:50:10,442 adding 'rna_tools/tools/rna_calc_evo_rmsd/RNAmodel.py' 2026-02-14T09:50:10,443 adding 'rna_tools/tools/rna_calc_evo_rmsd/__init__.py' 2026-02-14T09:50:10,444 adding 'rna_tools/tools/rna_calc_evo_rmsd/evoclust_rmsd.csv' 2026-02-14T09:50:10,446 adding 'rna_tools/tools/rna_calc_evo_rmsd/evoclust_rmsd.png' 2026-02-14T09:50:10,447 adding 'rna_tools/tools/rna_calc_evo_rmsd/output.txt' 2026-02-14T09:50:10,449 adding 'rna_tools/tools/rna_calc_evo_rmsd/readme.md' 2026-02-14T09:50:10,451 adding 'rna_tools/tools/rna_calc_evo_rmsd/rna_calc_evo_rmsd.py' 2026-02-14T09:50:10,452 adding 'rna_tools/tools/rna_calc_evo_rmsd/test.sh' 2026-02-14T09:50:10,477 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/1ehz_std.pdb' 2026-02-14T09:50:10,515 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/4qk8_cl.pdb' 2026-02-14T09:50:10,551 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/4qlm_cl.pdb' 2026-02-14T09:50:10,575 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/6Y2L_2_std.pdb' 2026-02-14T09:50:10,577 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/aln.sto' 2026-02-14T09:50:10,578 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/aln_nox.sto' 2026-02-14T09:50:10,579 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/mapping.txt' 2026-02-14T09:50:10,580 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/test.sh' 2026-02-14T09:50:10,582 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/trna.sto' 2026-02-14T09:50:10,583 adding 'rna_tools/tools/rna_calc_evo_rmsd/test_data/trna_no_selector.sto' 2026-02-14T09:50:10,585 adding 'rna_tools/tools/rna_calc_gdt/rna_calc_gdt.py' 2026-02-14T09:50:10,586 adding 'rna_tools/tools/rna_calc_gdt/test.sh' 2026-02-14T09:50:10,588 adding 'rna_tools/tools/rna_calc_hbonds/mdanalysis_hbonds.py' 2026-02-14T09:50:10,589 adding 'rna_tools/tools/rna_calc_hbonds/mdtraj_hbonds.py' 2026-02-14T09:50:10,590 adding 'rna_tools/tools/rna_calc_hbonds/pymol_list_hbonds.py' 2026-02-14T09:50:10,591 adding 'rna_tools/tools/rna_calc_hbonds/pytraj_hbond.py' 2026-02-14T09:50:10,593 adding 'rna_tools/tools/rna_calc_hbonds/readme.md' 2026-02-14T09:50:10,594 adding 'rna_tools/tools/rna_calc_hbonds/rna_calc_hbonds.py' 2026-02-14T09:50:10,596 adding 'rna_tools/tools/rna_calc_hbonds/test.sh' 2026-02-14T09:50:10,614 adding 'rna_tools/tools/rna_calc_hbonds/docs/hbonds_pymol.jpg' 2026-02-14T09:50:10,617 adding 'rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA.csv' 2026-02-14T09:50:10,618 adding 'rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA.pdb' 2026-02-14T09:50:10,619 adding 'rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA_ha.csv' 2026-02-14T09:50:10,621 adding 'rna_tools/tools/rna_calc_hbonds/test_data/7jnh-AUA_ha.pdb' 2026-02-14T09:50:10,623 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr.pdb' 2026-02-14T09:50:10,628 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr.pse' 2026-02-14T09:50:10,630 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera.pdb' 2026-02-14T09:50:10,631 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera_onlyBases.csv' 2026-02-14T09:50:10,633 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addChimera_onlyBases.pdb' 2026-02-14T09:50:10,635 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_addh.pdb' 2026-02-14T09:50:10,637 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_bases_only.pdb' 2026-02-14T09:50:10,638 adding 'rna_tools/tools/rna_calc_hbonds/test_data/Triple_cWW_cHW_UAU_rpr_bases_only_addhpymol.pdb' 2026-02-14T09:50:10,639 adding 'rna_tools/tools/rna_calc_inf/__init__.py' 2026-02-14T09:50:10,642 adding 'rna_tools/tools/rna_calc_inf/readme.md' 2026-02-14T09:50:10,643 adding 'rna_tools/tools/rna_calc_inf/rna_calc_dinf.py' 2026-02-14T09:50:10,645 adding 'rna_tools/tools/rna_calc_inf/rna_calc_inf.py' 2026-02-14T09:50:10,646 adding 'rna_tools/tools/rna_calc_inf/test.sh' 2026-02-14T09:50:10,647 adding 'rna_tools/tools/rna_calc_inf/test_dinf.sh' 2026-02-14T09:50:10,667 adding 'rna_tools/tools/rna_calc_inf/doc/1y26_dinf.png' 2026-02-14T09:50:10,712 adding 'rna_tools/tools/rna_calc_inf/doc/1y26_dinf2.png' 2026-02-14T09:50:10,734 adding 'rna_tools/tools/rna_calc_inf/test_data/13_0_solution_4XW7_rpr.pdb' 2026-02-14T09:50:10,754 adding 'rna_tools/tools/rna_calc_inf/test_data/13_Bujnicki_1_rpr.pdb' 2026-02-14T09:50:10,776 adding 'rna_tools/tools/rna_calc_inf/test_data/1Y26.pdb' 2026-02-14T09:50:10,779 adding 'rna_tools/tools/rna_calc_inf/test_data/1Y26_dinf' 2026-02-14T09:50:10,781 adding 'rna_tools/tools/rna_calc_inf/test_data/1Y26_dinf_comparison.txt' 2026-02-14T09:50:10,826 adding 'rna_tools/tools/rna_calc_inf/test_data/1prot.pdb' 2026-02-14T09:50:10,850 adding 'rna_tools/tools/rna_calc_inf/test_data/1y26X_M451.pdb' 2026-02-14T09:50:10,852 adding 'rna_tools/tools/rna_calc_inf/test_data/1y26X_M451_dinf' 2026-02-14T09:50:10,853 adding 'rna_tools/tools/rna_calc_inf/test_data/pistol.fa' 2026-02-14T09:50:10,854 adding 'rna_tools/tools/rna_calc_inf/test_data/pistol_inf_from_SeqSS.csv' 2026-02-14T09:50:10,855 adding 'rna_tools/tools/rna_calc_inf/test_data/pistol_inf_m1.csv' 2026-02-14T09:50:10,856 adding 'rna_tools/tools/rna_calc_inf/test_data/pistol_inf_m10.csv' 2026-02-14T09:50:10,857 adding 'rna_tools/tools/rna_calc_inf/test_data/pistol_inf_selection.csv' 2026-02-14T09:50:10,859 adding 'rna_tools/tools/rna_calc_inf/test_data/pistol_inf_stacking.csv' 2026-02-14T09:50:10,860 adding 'rna_tools/tools/rna_calc_inf/test_data/test.pdb' 2026-02-14T09:50:10,880 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/13_0_solution_4XW7_rpr.pdb' 2026-02-14T09:50:10,900 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/13_0_solution_4XW7_rpr_del46-56.pdb' 2026-02-14T09:50:10,921 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/13_Adamiak_1_rpr.pdb' 2026-02-14T09:50:10,939 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/13_Adamiak_1_rpr_del46-56.pdb' 2026-02-14T09:50:10,959 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/13_Bujnicki_1_rpr.pdb' 2026-02-14T09:50:10,977 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/13_Bujnicki_1_rpr_del46-56.pdb' 2026-02-14T09:50:10,979 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/del.inf' 2026-02-14T09:50:10,980 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/inf.csv' 2026-02-14T09:50:10,981 adding 'rna_tools/tools/rna_calc_inf/test_data/rp13/orignal.inf' 2026-02-14T09:50:10,984 adding 'rna_tools/tools/rna_calc_rmsd/README.md' 2026-02-14T09:50:10,985 adding 'rna_tools/tools/rna_calc_rmsd/__init__.py' 2026-02-14T09:50:10,987 adding 'rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd.py' 2026-02-14T09:50:10,989 adding 'rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_all_vs_all.py' 2026-02-14T09:50:10,994 adding 'rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_biopython.py' 2026-02-14T09:50:10,995 adding 'rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_multi_targets.py' 2026-02-14T09:50:10,997 adding 'rna_tools/tools/rna_calc_rmsd/rna_calc_rmsd_pymol.py' 2026-02-14T09:50:11,000 adding 'rna_tools/tools/rna_calc_rmsd/rna_plot_alignment_bounds.py' 2026-02-14T09:50:11,001 adding 'rna_tools/tools/rna_calc_rmsd/test.sh' 2026-02-14T09:50:11,003 adding 'rna_tools/tools/rna_calc_rmsd/lib/__init__.py' 2026-02-14T09:50:11,005 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/.gitignore' 2026-02-14T09:50:11,006 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/LICENSE' 2026-02-14T09:50:11,007 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/README.md' 2026-02-14T09:50:11,008 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/__init__.py' 2026-02-14T09:50:11,010 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/calculate_rmsd.py' 2026-02-14T09:50:11,011 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/rmsds.csv' 2026-02-14T09:50:11,018 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/1ypa.pdb' 2026-02-14T09:50:11,023 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/3ci2.pdb' 2026-02-14T09:50:11,025 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane.xyz' 2026-02-14T09:50:11,026 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_bond.xyz' 2026-02-14T09:50:11,027 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_mini.xyz' 2026-02-14T09:50:11,028 adding 'rna_tools/tools/rna_calc_rmsd/lib/rmsd/examples/ethane_translate.xyz' 2026-02-14T09:50:11,030 adding 'rna_tools/tools/rna_calc_rmsd/test_data/21_solution_0_ChainA.csv' 2026-02-14T09:50:11,031 adding 'rna_tools/tools/rna_calc_rmsd/test_data/21_solution_0_ChainB.csv' 2026-02-14T09:50:11,032 adding 'rna_tools/tools/rna_calc_rmsd/test_data/21_solution_1_ChainA.csv' 2026-02-14T09:50:11,033 adding 'rna_tools/tools/rna_calc_rmsd/test_data/21_solution_1_ChainB.csv' 2026-02-14T09:50:11,034 adding 'rna_tools/tools/rna_calc_rmsd/test_data/21_solution_2.csv' 2026-02-14T09:50:11,047 adding 'rna_tools/tools/rna_calc_rmsd/test_data/plot.ipynb' 2026-02-14T09:50:11,049 adding 'rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir.tsv' 2026-02-14T09:50:11,050 adding 'rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target.tsv' 2026-02-14T09:50:11,051 adding 'rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target_align.tsv' 2026-02-14T09:50:11,053 adding 'rna_tools/tools/rna_calc_rmsd/test_data/rmsd_calc_dir_to_target_fit.tsv' 2026-02-14T09:50:11,054 adding 'rna_tools/tools/rna_calc_rmsd/test_data/rna_calc_rmsd_multi_targets_output.csv' 2026-02-14T09:50:11,071 adding 'rna_tools/tools/rna_calc_rmsd/test_data/struc1.pdb' 2026-02-14T09:50:11,088 adding 'rna_tools/tools/rna_calc_rmsd/test_data/struc2.pdb' 2026-02-14T09:50:11,106 adding 'rna_tools/tools/rna_calc_rmsd/test_data/struc3.pdb' 2026-02-14T09:50:11,123 adding 'rna_tools/tools/rna_calc_rmsd/test_data/struc4.pdb' 2026-02-14T09:50:11,621 adding 'rna_tools/tools/rna_calc_rmsd/test_data/crops/3jbv_A.pdb' 2026-02-14T09:50:12,138 adding 'rna_tools/tools/rna_calc_rmsd/test_data/crops/3jbv_A_rpr.pdb' 2026-02-14T09:50:12,225 adding 'rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_250.pdb' 2026-02-14T09:50:12,298 adding 'rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_250_3.pdb' 2026-02-14T09:50:12,371 adding 'rna_tools/tools/rna_calc_rmsd/test_data/crops/rRNA_3jbv_A_PrepCaching_geo0_dmb20.0_fcd20.0_gpu1_cpu4_eblk24_blk4_bba1_Pem_rosettaViol0_bbbl0_ga1_n100_s49_df3-18b-fasr_one_prep_pred_3jbv_A_294.pdb' 2026-02-14T09:50:12,375 adding 'rna_tools/tools/rna_calc_rmsd/test_data/crops/seqs.fasta' 2026-02-14T09:50:12,388 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_3dRNA_1_rpr.pdb' 2026-02-14T09:50:12,400 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_Adamiak_1_rpr.pdb' 2026-02-14T09:50:12,411 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_ChenHighLig_1_rpr.pdb' 2026-02-14T09:50:12,423 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/21_Das_1_rpr.pdb' 2026-02-14T09:50:12,437 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_0_ChainA.pdb' 2026-02-14T09:50:12,450 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_0_ChainB.pdb' 2026-02-14T09:50:12,463 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_1_ChainA.pdb' 2026-02-14T09:50:12,477 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_1_ChainB.pdb' 2026-02-14T09:50:12,490 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp21/solutions/21_solution_2.pdb' 2026-02-14T09:50:12,492 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7.aln' 2026-02-14T09:50:12,555 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7_solution_0.pdb' 2026-02-14T09:50:12,616 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/7_solution_1.pdb' 2026-02-14T09:50:12,671 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models/7_Ding_1.pdb' 2026-02-14T09:50:12,773 adding 'rna_tools/tools/rna_calc_rmsd/test_data/multi-targets/rp7/models/7_Major_1.pdb' 2026-02-14T09:50:12,795 adding 'rna_tools/tools/rna_calc_rmsd/test_data/pistol/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb' 2026-02-14T09:50:12,814 adding 'rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb' 2026-02-14T09:50:12,830 adding 'rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust01-000001_AA.pdb' 2026-02-14T09:50:12,845 adding 'rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust02-000001_AA.pdb' 2026-02-14T09:50:12,861 adding 'rna_tools/tools/rna_calc_rmsd/test_data/pistol/clusters/pistol_thrs0.50A_clust03-000001_AA.pdb' 2026-02-14T09:50:12,863 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/backbone+sugar.csv' 2026-02-14T09:50:12,865 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd.csv' 2026-02-14T09:50:12,866 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_all.csv' 2026-02-14T09:50:12,867 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_bases.csv' 2026-02-14T09:50:12,868 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/rmsd_c1p.csv' 2026-02-14T09:50:12,881 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_addh_MD_100.pdb_rpr.pdb_fixChains.pdb' 2026-02-14T09:50:12,893 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_addh_MD_1_rpr_rchain.pdb_fixChains.pdb' 2026-02-14T09:50:12,896 adding 'rna_tools/tools/rna_calc_rmsd/test_data/ways/yC_5LJ3_U2U6_core_mdrFx_onlyTriplex_rpr.pdb' 2026-02-14T09:50:12,898 adding 'rna_tools/tools/rna_calc_rmsd/test_output/pistol_rmsd.csv' 2026-02-14T09:50:12,899 adding 'rna_tools/tools/rna_calc_rmsd/test_output/pistol_rmsd_name-rmsd-column.csv' 2026-02-14T09:50:12,901 adding 'rna_tools/tools/rna_calc_rmsd_trafl/__init__.py' 2026-02-14T09:50:12,902 adding 'rna_tools/tools/rna_calc_rmsd_trafl/rna_cal_rmsd_trafl_plot.py' 2026-02-14T09:50:12,904 adding 'rna_tools/tools/rna_calc_rmsd_trafl/rna_calc_rmsd_trafl.py' 2026-02-14T09:50:12,906 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/__init__.py' 2026-02-14T09:50:12,907 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/readme.md' 2026-02-14T09:50:12,908 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/rna_pk_simrna_to_one_line.py' 2026-02-14T09:50:12,910 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/rna_ss_pk_to_simrna.py' 2026-02-14T09:50:12,911 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/test.sh' 2026-02-14T09:50:12,925 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/doc/varna_2pk.png' 2026-02-14T09:50:12,928 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna.ss' 2026-02-14T09:50:12,929 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna3.ss' 2026-02-14T09:50:12,930 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/test_data/simrna_2chains.ss' 2026-02-14T09:50:12,931 adding 'rna_tools/tools/rna_convert_pseudoknot_formats/test_data/ss_with_pk.ss' 2026-02-14T09:50:12,933 adding 'rna_tools/tools/rna_filter/.gitignore' 2026-02-14T09:50:12,935 adding 'rna_tools/tools/rna_filter/README.md' 2026-02-14T09:50:12,936 adding 'rna_tools/tools/rna_filter/__init__.py' 2026-02-14T09:50:12,937 adding 'rna_tools/tools/rna_filter/pymol_dists.py' 2026-02-14T09:50:12,938 adding 'rna_tools/tools/rna_filter/rna_csv2pairs.py' 2026-02-14T09:50:12,940 adding 'rna_tools/tools/rna_filter/rna_dca_mapping.py' 2026-02-14T09:50:12,941 adding 'rna_tools/tools/rna_filter/rna_dca_select_interactions.py' 2026-02-14T09:50:12,943 adding 'rna_tools/tools/rna_filter/rna_ec2x.py' 2026-02-14T09:50:12,945 adding 'rna_tools/tools/rna_filter/rna_filter.py' 2026-02-14T09:50:12,947 adding 'rna_tools/tools/rna_filter/rna_get_distances.py' 2026-02-14T09:50:12,948 adding 'rna_tools/tools/rna_filter/rna_get_dists.py' 2026-02-14T09:50:12,950 adding 'rna_tools/tools/rna_filter/rna_pairs2SimRNArestrs.py' 2026-02-14T09:50:12,951 adding 'rna_tools/tools/rna_filter/rna_pairs2rfilter.py' 2026-02-14T09:50:12,952 adding 'rna_tools/tools/rna_filter/rna_pairs_diff.py' 2026-02-14T09:50:12,954 adding 'rna_tools/tools/rna_filter/rna_restrs2SimRNArestrs.py' 2026-02-14T09:50:12,955 adding 'rna_tools/tools/rna_filter/rna_restrs2mqapRNA.py' 2026-02-14T09:50:12,956 adding 'rna_tools/tools/rna_filter/rna_ss_get_bps.py' 2026-02-14T09:50:12,958 adding 'rna_tools/tools/rna_filter/simrna_get_restraints.py' 2026-02-14T09:50:12,959 adding 'rna_tools/tools/rna_filter/test.sh' 2026-02-14T09:50:12,960 adding 'rna_tools/tools/rna_filter/test_dca.sh' 2026-02-14T09:50:12,962 adding 'rna_tools/tools/rna_filter/test_rna_filter.py' 2026-02-14T09:50:12,964 adding 'rna_tools/tools/rna_filter/test_data/CG.pdb' 2026-02-14T09:50:12,965 adding 'rna_tools/tools/rna_filter/test_data/CG.trafl' 2026-02-14T09:50:12,966 adding 'rna_tools/tools/rna_filter/test_data/restraints.txt' 2026-02-14T09:50:12,967 adding 'rna_tools/tools/rna_filter/test_data/rna_filter.txt' 2026-02-14T09:50:12,969 adding 'rna_tools/tools/rna_get_restraints/.gitignore' 2026-02-14T09:50:12,970 adding 'rna_tools/tools/rna_get_restraints/README.md' 2026-02-14T09:50:12,972 adding 'rna_tools/tools/rna_get_restraints/rna_farna_get_restraints_vs_all.py' 2026-02-14T09:50:12,973 adding 'rna_tools/tools/rna_get_restraints/rna_simrna_get_restraints_vs_all.py' 2026-02-14T09:50:12,974 adding 'rna_tools/tools/rna_get_restraints/test.sh' 2026-02-14T09:50:12,976 adding 'rna_tools/tools/rna_helix_vis/README.md' 2026-02-14T09:50:12,977 adding 'rna_tools/tools/rna_helix_vis/__init__.py' 2026-02-14T09:50:12,978 adding 'rna_tools/tools/rna_helix_vis/rna_helix_vis.py' 2026-02-14T09:50:12,998 adding 'rna_tools/tools/rna_helix_vis/doc/rna_helix_vis.png' 2026-02-14T09:50:13,001 adding 'rna_tools/tools/rna_helix_vis/test_data/rp14.ss' 2026-02-14T09:50:13,028 adding 'rna_tools/tools/rna_helix_vis/test_data/rp14_farna_eloop.out.1.pdb' 2026-02-14T09:50:13,030 adding 'rna_tools/tools/rna_multimodels/check.sh' 2026-02-14T09:50:13,032 adding 'rna_tools/tools/rna_multimodels/readme.md' 2026-02-14T09:50:13,033 adding 'rna_tools/tools/rna_multimodels/rna_pdb_merge_into_one.py' 2026-02-14T09:50:13,034 adding 'rna_tools/tools/rna_multimodels/test_util.py' 2026-02-14T09:50:13,074 adding 'rna_tools/tools/rna_multimodels/data/rp17_n3_ideal.pdb' 2026-02-14T09:50:13,079 adding 'rna_tools/tools/rna_multimodels/data/seq.fa' 2026-02-14T09:50:13,096 adding 'rna_tools/tools/rna_multimodels/test_in/17_Adamiak_1_rpr.pdb' 2026-02-14T09:50:13,114 adding 'rna_tools/tools/rna_multimodels/test_in/17_Bujnicki_1_rpr.pdb' 2026-02-14T09:50:13,131 adding 'rna_tools/tools/rna_multimodels/test_in/17_Chen_1_rpr.pdb' 2026-02-14T09:50:13,183 adding 'rna_tools/tools/rna_multimodels/test_out/rp17.pdb' 2026-02-14T09:50:13,187 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/README.md' 2026-02-14T09:50:13,188 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/__init__.py' 2026-02-14T09:50:13,189 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/rna_pdb_edit_occupancy_bfactor.py' 2026-02-14T09:50:13,191 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test.sh' 2026-02-14T09:50:13,214 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel.pdb' 2026-02-14T09:50:13,243 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel_out.pdb' 2026-02-14T09:50:13,271 adding 'rna_tools/tools/rna_pdb_edit_occupancy_bfactor/test_data/3w3s_homologymodel_select_atoms_out.pdb' 2026-02-14T09:50:13,274 adding 'rna_tools/tools/rna_pdb_merge_structure_with_fragments/README.md' 2026-02-14T09:50:13,275 adding 'rna_tools/tools/rna_pdb_merge_structure_with_fragments/__init__.py' 2026-02-14T09:50:13,277 adding 'rna_tools/tools/rna_pdb_merge_structure_with_fragments/rna_pdb_merge_structure_with_fragments.py' 2026-02-14T09:50:13,285 adding 'rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/1xjr_root.pdb' 2026-02-14T09:50:13,296 adding 'rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/1xjr_simrna_nstep_1.pdb' 2026-02-14T09:50:13,307 adding 'rna_tools/tools/rna_pdb_merge_structure_with_fragments/test_data/rna_sq_renumber.pdb' 2026-02-14T09:50:13,309 adding 'rna_tools/tools/rna_prediction_significance/.gitignore' 2026-02-14T09:50:13,316 adding 'rna_tools/tools/rna_prediction_significance/LICENSE' 2026-02-14T09:50:13,317 adding 'rna_tools/tools/rna_prediction_significance/README.md' 2026-02-14T09:50:13,318 adding 'rna_tools/tools/rna_prediction_significance/__init__.py' 2026-02-14T09:50:13,320 adding 'rna_tools/tools/rna_prediction_significance/rna_prediction_significance.py' 2026-02-14T09:50:13,322 adding 'rna_tools/tools/rna_prediction_significance/opt/RNA_PredictionSignificance.cpp' 2026-02-14T09:50:13,324 adding 'rna_tools/tools/rna_refinement/.gitignore' 2026-02-14T09:50:13,325 adding 'rna_tools/tools/rna_refinement/__init__.py' 2026-02-14T09:50:13,327 adding 'rna_tools/tools/rna_refinement/rna_refinement.py' 2026-02-14T09:50:13,328 adding 'rna_tools/tools/rna_refinement/test.sh' 2026-02-14T09:50:13,344 adding 'rna_tools/tools/rna_refinement/test_data/179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA.pdb' 2026-02-14T09:50:13,359 adding 'rna_tools/tools/rna_refinement/test_data/19_Bujnicki_Human_4_rpr_n0-000001.pdb_thrs0.50A_clust99-000001_AA.pdb' 2026-02-14T09:50:13,384 adding 'rna_tools/tools/rna_refinement/test_data/19_Bujnicki_Human_4_rpr_n0-000001_refx.pdb_thrs0.50A_clust99-000001_AA_refx.pdb' 2026-02-14T09:50:13,403 adding 'rna_tools/tools/rna_refinement/test_data/input.pdb' 2026-02-14T09:50:13,433 adding 'rna_tools/tools/rna_refinement/test_data/input_refx.pdb' 2026-02-14T09:50:13,463 adding 'rna_tools/tools/rna_refinement/test_data/output.pdb' 2026-02-14T09:50:13,489 adding 'rna_tools/tools/rna_refinement/test_data/rp17_179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA._refx.pdb' 2026-02-14T09:50:13,514 adding 'rna_tools/tools/rna_refinement/test_data/rp17_179c48aa-c0d3-4bd6-8e06-12081da22998_ALL_thrs6.20A_clust01-000001_AA._refx_refx.pdb' 2026-02-14T09:50:13,519 adding 'rna_tools/tools/rna_rfam/list.txt' 2026-02-14T09:50:13,521 adding 'rna_tools/tools/rna_rfam/rna_download_rfam.py' 2026-02-14T09:50:13,522 adding 'rna_tools/tools/rna_rfam/test.sh' 2026-02-14T09:50:13,524 adding 'rna_tools/tools/rna_rosetta/.gitignore' 2026-02-14T09:50:13,526 adding 'rna_tools/tools/rna_rosetta/__init__.py' 2026-02-14T09:50:13,527 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_check_progress.py' 2026-02-14T09:50:13,529 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_cluster.py' 2026-02-14T09:50:13,530 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_easy_cat.py' 2026-02-14T09:50:13,532 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_extract.py' 2026-02-14T09:50:13,533 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_extract_lowscore_decoys.py' 2026-02-14T09:50:13,535 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_get_score.py' 2026-02-14T09:50:13,536 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_head.py' 2026-02-14T09:50:13,538 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_min.py' 2026-02-14T09:50:13,540 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_n.py' 2026-02-14T09:50:13,542 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_run.py' 2026-02-14T09:50:13,543 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_silent_file_sort_and_select.py' 2026-02-14T09:50:13,544 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_silent_random.py' 2026-02-14T09:50:13,546 adding 'rna_tools/tools/rna_rosetta/rna_rosetta_silent_split.py' 2026-02-14T09:50:13,547 adding 'rna_tools/tools/rna_rosetta/test.py' 2026-02-14T09:50:13,548 adding 'rna_tools/tools/rna_rosetta/test.sh' 2026-02-14T09:50:13,555 adding 'rna_tools/tools/rna_rosetta/test_data/S_000005_032.out' 2026-02-14T09:50:13,562 adding 'rna_tools/tools/rna_rosetta/test_data/S_000020_024.out' 2026-02-14T09:50:13,569 adding 'rna_tools/tools/rna_rosetta/test_data/S_000027_058.out' 2026-02-14T09:50:13,576 adding 'rna_tools/tools/rna_rosetta/test_data/S_000035_003.out' 2026-02-14T09:50:13,578 adding 'rna_tools/tools/rna_rosetta/test_data/a04.fa' 2026-02-14T09:50:13,579 adding 'rna_tools/tools/rna_rosetta/test_data/a99.fa' 2026-02-14T09:50:13,580 adding 'rna_tools/tools/rna_rosetta/test_data/ade.fa' 2026-02-14T09:50:13,616 adding 'rna_tools/tools/rna_rosetta/test_data/selected.out' 2026-02-14T09:50:13,632 adding 'rna_tools/tools/rna_rosetta/test_data/selected.out.rand2.out' 2026-02-14T09:50:13,669 adding 'rna_tools/tools/rna_rosetta/test_data/selected.out.rand5.out' 2026-02-14T09:50:13,676 adding 'rna_tools/tools/rna_rosetta/test_data/silent_sort.out' 2026-02-14T09:50:13,677 adding 'rna_tools/tools/rna_rosetta/test_data/tetraloop.fa' 2026-02-14T09:50:13,679 adding 'rna_tools/tools/rna_rosetta/test_data/tl/CMDLINES' 2026-02-14T09:50:13,680 adding 'rna_tools/tools/rna_rosetta/test_data/tl/helix0.fasta' 2026-02-14T09:50:13,714 adding 'rna_tools/tools/rna_rosetta/test_data/tl/helix0.out' 2026-02-14T09:50:13,717 adding 'rna_tools/tools/rna_rosetta/test_data/tl/helix0.params' 2026-02-14T09:50:13,718 adding 'rna_tools/tools/rna_rosetta/test_data/tl/input.fa' 2026-02-14T09:50:13,719 adding 'rna_tools/tools/rna_rosetta/test_data/tl/qsubMINI' 2026-02-14T09:50:13,720 adding 'rna_tools/tools/rna_rosetta/test_data/tl/seq.fa' 2026-02-14T09:50:13,721 adding 'rna_tools/tools/rna_rosetta/test_data/tl/ss.fa' 2026-02-14T09:50:13,722 adding 'rna_tools/tools/rna_rosetta/test_data/tl/tl.fasta' 2026-02-14T09:50:13,723 adding 'rna_tools/tools/rna_rosetta/test_data/tl/tl.params' 2026-02-14T09:50:13,725 adding 'rna_tools/tools/rna_sali2dotbracket/README.MD' 2026-02-14T09:50:13,726 adding 'rna_tools/tools/rna_sali2dotbracket/__init__.py' 2026-02-14T09:50:13,728 adding 'rna_tools/tools/rna_sali2dotbracket/rna_sali2dotbracket.py' 2026-02-14T09:50:13,743 adding 'rna_tools/tools/rna_sali2dotbracket/test_data/IA1.sali' 2026-02-14T09:50:13,759 adding 'rna_tools/tools/rna_sali2dotbracket/test_data/IA1_dotbracket.txt' 2026-02-14T09:50:13,768 adding 'rna_tools/tools/rna_seq_identity/RF03167.cm' 2026-02-14T09:50:13,769 adding 'rna_tools/tools/rna_seq_identity/output.sto' 2026-02-14T09:50:13,770 adding 'rna_tools/tools/rna_seq_identity/pairwase.py' 2026-02-14T09:50:13,772 adding 'rna_tools/tools/rna_seq_identity/readme.md' 2026-02-14T09:50:13,773 adding 'rna_tools/tools/rna_seq_identity/seq1.fa' 2026-02-14T09:50:13,774 adding 'rna_tools/tools/rna_seq_identity/seq12.fa' 2026-02-14T09:50:13,775 adding 'rna_tools/tools/rna_seq_identity/seq2.fa' 2026-02-14T09:50:13,776 adding 'rna_tools/tools/rna_seq_identity/test.sh' 2026-02-14T09:50:13,778 adding 'rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/select_seq_fromBLAStn_6outfm.py' 2026-02-14T09:50:13,780 adding 'rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test.sh' 2026-02-14T09:50:13,781 adding 'rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/db_nt.fasta' 2026-02-14T09:50:13,783 adding 'rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/db_nt_out.fasta' 2026-02-14T09:50:13,784 adding 'rna_tools/tools/rna_seq_search_BLASTn_outfmt-6/test_data/output_55' 2026-02-14T09:50:13,786 adding 'rna_tools/tools/rna_x3dna/__init__.py' 2026-02-14T09:50:13,787 adding 'rna_tools/tools/rna_x3dna/readme.rst' 2026-02-14T09:50:13,789 adding 'rna_tools/tools/rna_x3dna/rna_x3dna.py' 2026-02-14T09:50:13,790 adding 'rna_tools/tools/rna_x3dna/test.sh' 2026-02-14T09:50:13,809 adding 'rna_tools/tools/rna_x3dna/test_data/1xjr.pdb' 2026-02-14T09:50:13,811 adding 'rna_tools/tools/rna_x3dna/test_data/1xjr_output.pdb' 2026-02-14T09:50:13,841 adding 'rna_tools/tools/rna_x3dna/test_data/6TNA.pdb' 2026-02-14T09:50:13,844 adding 'rna_tools/tools/rna_x3dna/test_data/CG.pdb' 2026-02-14T09:50:13,871 adding 'rna_tools/tools/rna_x3dna/test_data/rp2_bujnicki_1_rpr.pdb' 2026-02-14T09:50:13,874 adding 'rna_tools/tools/rnapuzzle_sender/.gitignore' 2026-02-14T09:50:13,875 adding 'rna_tools/tools/rnapuzzle_sender/rnapuzzle_sender.py' 2026-02-14T09:50:13,876 adding 'rna_tools/tools/rnapuzzle_sender/test.sh' 2026-02-14T09:50:13,897 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank1.pdb' 2026-02-14T09:50:13,917 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank10.pdb' 2026-02-14T09:50:13,938 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank2.pdb' 2026-02-14T09:50:13,959 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank3.pdb' 2026-02-14T09:50:13,981 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank4.pdb' 2026-02-14T09:50:14,002 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank5.pdb' 2026-02-14T09:50:14,023 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank6.pdb' 2026-02-14T09:50:14,044 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank7.pdb' 2026-02-14T09:50:14,064 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank8.pdb' 2026-02-14T09:50:14,084 adding 'rna_tools/tools/rnapuzzle_sender/files/DASLAB_Problem13_Rank9.pdb' 2026-02-14T09:50:14,126 adding 'rna_tools/tools/rnapuzzle_sender/test_of_email_content/model1.pdb' 2026-02-14T09:50:14,614 adding 'rna_tools/tools/rnapuzzle_sender/test_of_email_content/test.pdb' 2026-02-14T09:50:15,050 adding 'rna_tools/tools/rnapuzzle_sender/test_of_email_content/test.txt' 2026-02-14T09:50:15,106 adding 'rna_tools/tools/rnapuzzle_sender/test_of_email_content/test02.pdb' 2026-02-14T09:50:15,150 adding 'rna_tools/tools/rnapuzzle_sender/test_of_email_content/test3.pdb' 2026-02-14T09:50:15,156 adding 'rna_tools/tools/rnashape2ascii/LICENSE' 2026-02-14T09:50:15,157 adding 'rna_tools/tools/rnashape2ascii/README.md' 2026-02-14T09:50:15,159 adding 'rna_tools/tools/rnashape2ascii/rnashape2ascii.py' 2026-02-14T09:50:15,161 adding 'rna_tools/tools/rnashape2ascii/test.sh' 2026-02-14T09:50:15,163 adding 'rna_tools/tools/rnashape2ascii/test_data/RNAPZ12_1M7_0000.rdat' 2026-02-14T09:50:15,165 adding 'rna_tools/tools/rnashape2ascii/test_data/r1_raw.txt' 2026-02-14T09:50:15,167 adding 'rna_tools/tools/sandbox/rna_compare/rmsds.csv' 2026-02-14T09:50:15,169 adding 'rna_tools/tools/sandbox/rna_compare/rna_compare.py' 2026-02-14T09:50:15,192 adding 'rna_tools/tools/sandbox/rna_compare/test_data/1y26_clean.pdb' 2026-02-14T09:50:15,212 adding 'rna_tools/tools/sandbox/rna_compare/test_data/ade_pk_82a6_100low-000006_AA.pdb' 2026-02-14T09:50:15,215 adding 'rna_tools/tools/simrna_trajectory/.gitignore' 2026-02-14T09:50:15,216 adding 'rna_tools/tools/simrna_trajectory/__init__.py' 2026-02-14T09:50:15,218 adding 'rna_tools/tools/simrna_trajectory/rna_simrna_cluster.py' 2026-02-14T09:50:15,220 adding 'rna_tools/tools/simrna_trajectory/rna_simrna_energy_plot.py' 2026-02-14T09:50:15,222 adding 'rna_tools/tools/simrna_trajectory/rna_simrna_extract.py' 2026-02-14T09:50:15,223 adding 'rna_tools/tools/simrna_trajectory/rna_simrna_lowest.py' 2026-02-14T09:50:15,225 adding 'rna_tools/tools/simrna_trajectory/rna_simrna_subset.py' 2026-02-14T09:50:15,227 adding 'rna_tools/tools/simrna_trajectory/simrna_trajectory.py' 2026-02-14T09:50:15,500 adding 'rna_tools/tools/simrna_trajectory/subset.trafl' 2026-02-14T09:50:15,502 adding 'rna_tools/tools/simrna_trajectory/test_rmsd.py' 2026-02-14T09:50:15,507 adding 'rna_tools/tools/simrna_trajectory/test_rna_simrna.py' 2026-02-14T09:50:15,561 adding 'rna_tools/tools/simrna_trajectory/test_data/mini.trafl' 2026-02-14T09:50:15,563 adding 'rna_tools/tools/triplexibility/.gitignore' 2026-02-14T09:50:15,564 adding 'rna_tools/tools/triplexibility/download-all-pdbs.py' 2026-02-14T09:50:15,566 adding 'rna_tools/tools/triplexibility/download-all-triples.py' 2026-02-14T09:50:15,567 adding 'rna_tools/tools/triplexibility/download-all.py' 2026-02-14T09:50:15,568 adding 'rna_tools/tools/triplexibility/lib.py' 2026-02-14T09:50:15,570 adding 'rna_tools/tools/triplexibility/process_triple.py' 2026-02-14T09:50:15,571 adding 'rna_tools/tools/triplexibility/readme.md' 2026-02-14T09:50:15,572 adding 'rna_tools/tools/triplexibility/splix.py' 2026-02-14T09:50:15,573 adding 'rna_tools/tools/triplexibility/test.sh' 2026-02-14T09:50:15,575 adding 'rna_tools/tools/triplexibility/test_all.sh' 2026-02-14T09:50:15,611 adding 'rna_tools/tools/triplexibility/triple-db.csv' 2026-02-14T09:50:15,615 adding 'rna_tools/tools/triplexibility/triplexibility.py' 2026-02-14T09:50:15,617 adding 'rna_tools/tools/triplexibility/triplexibility2.py' 2026-02-14T09:50:15,618 adding 'rna_tools/tools/triplexibility/trx-mutget-t1-1.py' 2026-02-14T09:50:15,619 adding 'rna_tools/tools/triplexibility/trx-mutget-t1-2.py' 2026-02-14T09:50:15,621 adding 'rna_tools/tools/triplexibility/trx.ipynb' 2026-02-14T09:50:15,622 adding 'rna_tools/tools/triplexibility/trx.py' 2026-02-14T09:50:15,624 adding 'rna_tools/tools/triplexibility/trx_analysis.py' 2026-02-14T09:50:15,625 adding 'rna_tools/tools/triplexibility/trx_analysis.txt' 2026-02-14T09:50:15,626 adding 'rna_tools/tools/triplexibility/trx_mutagen.py' 2026-02-14T09:50:15,627 adding 'rna_tools/tools/triplexibility/trx_mutagen_allvsall.py' 2026-02-14T09:50:15,629 adding 'rna_tools/tools/triplexibility/trx_score.py' 2026-02-14T09:50:15,630 adding 'rna_tools/tools/triplexibility/trx_score_allvsall.py' 2026-02-14T09:50:15,631 adding 'rna_tools/tools/triplexibility/trx_score_growth.py' 2026-02-14T09:50:15,633 adding 'rna_tools/tools/triplexibility/trx_score_onCol.py' 2026-02-14T09:50:15,634 adding 'rna_tools/tools/triplexibility/trx_score_onCol_allvsall.py' 2026-02-14T09:50:15,636 adding 'rna_tools/tools/triplexibility/data/XcWWX.csv' 2026-02-14T09:50:15,637 adding 'rna_tools/tools/triplexibility/data/cWW_cHS_GCU.csv' 2026-02-14T09:50:15,638 adding 'rna_tools/tools/triplexibility/data/db.csv' 2026-02-14T09:50:15,640 adding 'rna_tools/tools/triplexibility/data/db_trx2.csv' 2026-02-14T09:50:15,642 adding 'rna_tools/tools/triplexibility/data/t1-1-Triple_cWW_cHS_GCU_exemplar_rpr_fx.csv' 2026-02-14T09:50:15,643 adding 'rna_tools/tools/triplexibility/data/t1-1-Triple_cWW_cHS_GCU_exemplar_rpr_fx.pdb' 2026-02-14T09:50:15,645 adding 'rna_tools/tools/triplexibility/db/gendb.py' 2026-02-14T09:50:15,647 adding 'rna_tools/tools/webserver-engine/.gitignore' 2026-02-14T09:50:15,649 adding 'rna_tools/tools/webserver-engine/README.md' 2026-02-14T09:50:15,650 adding 'rna_tools/tools/webserver-engine/__init__.py' 2026-02-14T09:50:15,651 adding 'rna_tools/tools/webserver-engine/ac' 2026-02-14T09:50:15,653 adding 'rna_tools/tools/webserver-engine/checker.py' 2026-02-14T09:50:15,654 adding 'rna_tools/tools/webserver-engine/checker.sh' 2026-02-14T09:50:15,655 adding 'rna_tools/tools/webserver-engine/cleanup.py' 2026-02-14T09:50:15,657 adding 'rna_tools/tools/webserver-engine/daemon.py' 2026-02-14T09:50:15,658 adding 'rna_tools/tools/webserver-engine/daemon.sh' 2026-02-14T09:50:15,660 adding 'rna_tools/tools/webserver-engine/ddev.sh' 2026-02-14T09:50:15,661 adding 'rna_tools/tools/webserver-engine/install.txt' 2026-02-14T09:50:15,662 adding 'rna_tools/tools/webserver-engine/manage.py' 2026-02-14T09:50:15,663 adding 'rna_tools/tools/webserver-engine/notes.md' 2026-02-14T09:50:15,664 adding 'rna_tools/tools/webserver-engine/runme_dev.sh' 2026-02-14T09:50:15,666 adding 'rna_tools/tools/webserver-engine/sendmail.py' 2026-02-14T09:50:15,667 adding 'rna_tools/tools/webserver-engine/wsgi.py' 2026-02-14T09:50:15,670 adding 'rna_tools/tools/webserver-engine/admin/css/base.css' 2026-02-14T09:50:15,671 adding 'rna_tools/tools/webserver-engine/admin/css/changelists.css' 2026-02-14T09:50:15,673 adding 'rna_tools/tools/webserver-engine/admin/css/dashboard.css' 2026-02-14T09:50:15,674 adding 'rna_tools/tools/webserver-engine/admin/css/forms.css' 2026-02-14T09:50:15,675 adding 'rna_tools/tools/webserver-engine/admin/css/ie.css' 2026-02-14T09:50:15,677 adding 'rna_tools/tools/webserver-engine/admin/css/rtl.css' 2026-02-14T09:50:15,678 adding 'rna_tools/tools/webserver-engine/admin/css/widgets.css' 2026-02-14T09:50:15,681 adding 'rna_tools/tools/webserver-engine/admin/img/changelist-bg.gif' 2026-02-14T09:50:15,682 adding 'rna_tools/tools/webserver-engine/admin/img/changelist-bg_rtl.gif' 2026-02-14T09:50:15,683 adding 'rna_tools/tools/webserver-engine/admin/img/chooser-bg.gif' 2026-02-14T09:50:15,684 adding 'rna_tools/tools/webserver-engine/admin/img/chooser_stacked-bg.gif' 2026-02-14T09:50:15,685 adding 'rna_tools/tools/webserver-engine/admin/img/default-bg-reverse.gif' 2026-02-14T09:50:15,687 adding 'rna_tools/tools/webserver-engine/admin/img/default-bg.gif' 2026-02-14T09:50:15,688 adding 'rna_tools/tools/webserver-engine/admin/img/deleted-overlay.gif' 2026-02-14T09:50:15,689 adding 'rna_tools/tools/webserver-engine/admin/img/icon-no.gif' 2026-02-14T09:50:15,690 adding 'rna_tools/tools/webserver-engine/admin/img/icon-unknown.gif' 2026-02-14T09:50:15,691 adding 'rna_tools/tools/webserver-engine/admin/img/icon-yes.gif' 2026-02-14T09:50:15,692 adding 'rna_tools/tools/webserver-engine/admin/img/icon_addlink.gif' 2026-02-14T09:50:15,694 adding 'rna_tools/tools/webserver-engine/admin/img/icon_alert.gif' 2026-02-14T09:50:15,695 adding 'rna_tools/tools/webserver-engine/admin/img/icon_calendar.gif' 2026-02-14T09:50:15,696 adding 'rna_tools/tools/webserver-engine/admin/img/icon_changelink.gif' 2026-02-14T09:50:15,697 adding 'rna_tools/tools/webserver-engine/admin/img/icon_clock.gif' 2026-02-14T09:50:15,699 adding 'rna_tools/tools/webserver-engine/admin/img/icon_deletelink.gif' 2026-02-14T09:50:15,700 adding 'rna_tools/tools/webserver-engine/admin/img/icon_error.gif' 2026-02-14T09:50:15,701 adding 'rna_tools/tools/webserver-engine/admin/img/icon_searchbox.png' 2026-02-14T09:50:15,702 adding 'rna_tools/tools/webserver-engine/admin/img/icon_success.gif' 2026-02-14T09:50:15,704 adding 'rna_tools/tools/webserver-engine/admin/img/inline-delete-8bit.png' 2026-02-14T09:50:15,705 adding 'rna_tools/tools/webserver-engine/admin/img/inline-delete.png' 2026-02-14T09:50:15,707 adding 'rna_tools/tools/webserver-engine/admin/img/inline-restore-8bit.png' 2026-02-14T09:50:15,708 adding 'rna_tools/tools/webserver-engine/admin/img/inline-restore.png' 2026-02-14T09:50:15,709 adding 'rna_tools/tools/webserver-engine/admin/img/inline-splitter-bg.gif' 2026-02-14T09:50:15,710 adding 'rna_tools/tools/webserver-engine/admin/img/nav-bg-grabber.gif' 2026-02-14T09:50:15,711 adding 'rna_tools/tools/webserver-engine/admin/img/nav-bg-reverse.gif' 2026-02-14T09:50:15,713 adding 'rna_tools/tools/webserver-engine/admin/img/nav-bg-selected.gif' 2026-02-14T09:50:15,714 adding 'rna_tools/tools/webserver-engine/admin/img/nav-bg.gif' 2026-02-14T09:50:15,715 adding 'rna_tools/tools/webserver-engine/admin/img/selector-icons.gif' 2026-02-14T09:50:15,717 adding 'rna_tools/tools/webserver-engine/admin/img/selector-search.gif' 2026-02-14T09:50:15,718 adding 'rna_tools/tools/webserver-engine/admin/img/sorting-icons.gif' 2026-02-14T09:50:15,719 adding 'rna_tools/tools/webserver-engine/admin/img/tool-left.gif' 2026-02-14T09:50:15,720 adding 'rna_tools/tools/webserver-engine/admin/img/tool-left_over.gif' 2026-02-14T09:50:15,722 adding 'rna_tools/tools/webserver-engine/admin/img/tool-right.gif' 2026-02-14T09:50:15,723 adding 'rna_tools/tools/webserver-engine/admin/img/tool-right_over.gif' 2026-02-14T09:50:15,724 adding 'rna_tools/tools/webserver-engine/admin/img/tooltag-add.gif' 2026-02-14T09:50:15,725 adding 'rna_tools/tools/webserver-engine/admin/img/tooltag-add_over.gif' 2026-02-14T09:50:15,727 adding 'rna_tools/tools/webserver-engine/admin/img/tooltag-arrowright.gif' 2026-02-14T09:50:15,728 adding 'rna_tools/tools/webserver-engine/admin/img/tooltag-arrowright_over.gif' 2026-02-14T09:50:15,730 adding 'rna_tools/tools/webserver-engine/admin/img/gis/move_vertex_on.png' 2026-02-14T09:50:15,732 adding 'rna_tools/tools/webserver-engine/admin/js/LICENSE-JQUERY.txt' 2026-02-14T09:50:15,733 adding 'rna_tools/tools/webserver-engine/admin/js/SelectBox.js' 2026-02-14T09:50:15,735 adding 'rna_tools/tools/webserver-engine/admin/js/SelectFilter2.js' 2026-02-14T09:50:15,737 adding 'rna_tools/tools/webserver-engine/admin/js/actions.js' 2026-02-14T09:50:15,738 adding 'rna_tools/tools/webserver-engine/admin/js/actions.min.js' 2026-02-14T09:50:15,739 adding 'rna_tools/tools/webserver-engine/admin/js/calendar.js' 2026-02-14T09:50:15,741 adding 'rna_tools/tools/webserver-engine/admin/js/collapse.js' 2026-02-14T09:50:15,742 adding 'rna_tools/tools/webserver-engine/admin/js/collapse.min.js' 2026-02-14T09:50:15,743 adding 'rna_tools/tools/webserver-engine/admin/js/compress.py' 2026-02-14T09:50:15,745 adding 'rna_tools/tools/webserver-engine/admin/js/core.js' 2026-02-14T09:50:15,746 adding 'rna_tools/tools/webserver-engine/admin/js/getElementsBySelector.js' 2026-02-14T09:50:15,748 adding 'rna_tools/tools/webserver-engine/admin/js/inlines.js' 2026-02-14T09:50:15,749 adding 'rna_tools/tools/webserver-engine/admin/js/inlines.min.js' 2026-02-14T09:50:15,750 adding 'rna_tools/tools/webserver-engine/admin/js/jquery.init.js' 2026-02-14T09:50:15,776 adding 'rna_tools/tools/webserver-engine/admin/js/jquery.js' 2026-02-14T09:50:15,787 adding 'rna_tools/tools/webserver-engine/admin/js/jquery.min.js' 2026-02-14T09:50:15,788 adding 'rna_tools/tools/webserver-engine/admin/js/prepopulate.js' 2026-02-14T09:50:15,790 adding 'rna_tools/tools/webserver-engine/admin/js/prepopulate.min.js' 2026-02-14T09:50:15,791 adding 'rna_tools/tools/webserver-engine/admin/js/timeparse.js' 2026-02-14T09:50:15,793 adding 'rna_tools/tools/webserver-engine/admin/js/urlify.js' 2026-02-14T09:50:15,795 adding 'rna_tools/tools/webserver-engine/admin/js/admin/DateTimeShortcuts.js' 2026-02-14T09:50:15,797 adding 'rna_tools/tools/webserver-engine/admin/js/admin/RelatedObjectLookups.js' 2026-02-14T09:50:15,798 adding 'rna_tools/tools/webserver-engine/admin/js/admin/ordering.js' 2026-02-14T09:50:15,800 adding 'rna_tools/tools/webserver-engine/app/__init__.py' 2026-02-14T09:50:15,801 adding 'rna_tools/tools/webserver-engine/app/admin.py' 2026-02-14T09:50:15,803 adding 'rna_tools/tools/webserver-engine/app/models.py' 2026-02-14T09:50:15,807 adding 'rna_tools/tools/webserver-engine/app/views.py' 2026-02-14T09:50:15,809 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-acknowledgeinput.min.js' 2026-02-14T09:50:16,217 adding 'rna_tools/tools/webserver-engine/app/static/app/jsmol.zip' 2026-02-14T09:50:16,241 adding 'rna_tools/tools/webserver-engine/app/static/app/rto.css' 2026-02-14T09:50:16,243 adding 'rna_tools/tools/webserver-engine/app/static/app/rto.js' 2026-02-14T09:50:16,245 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/README.md' 2026-02-14T09:50:16,246 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/extra.html' 2026-02-14T09:50:16,251 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/index.html' 2026-02-14T09:50:16,255 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/old_index.html' 2026-02-14T09:50:16,265 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/bootstrap.min.css' 2026-02-14T09:50:16,268 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/docs.css' 2026-02-14T09:50:16,270 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font-awesome-ie7.min.css' 2026-02-14T09:50:16,272 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font-awesome.min.css' 2026-02-14T09:50:16,279 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/FontAwesome.otf' 2026-02-14T09:50:16,282 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.eot' 2026-02-14T09:50:16,310 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.svg' 2026-02-14T09:50:16,319 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.ttf' 2026-02-14T09:50:16,323 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/css/font/fontawesome-webfont.woff' 2026-02-14T09:50:16,325 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-114-precomposed.png' 2026-02-14T09:50:16,328 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-144-precomposed.png' 2026-02-14T09:50:16,329 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-57-precomposed.png' 2026-02-14T09:50:16,331 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/apple-touch-icon-72-precomposed.png' 2026-02-14T09:50:16,332 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/favicon.ico' 2026-02-14T09:50:16,334 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/ico/favicon.png' 2026-02-14T09:50:16,336 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/img/bs-docs-masthead-pattern.png' 2026-02-14T09:50:16,339 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/bootstrap.min.js' 2026-02-14T09:50:16,341 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/demo.js' 2026-02-14T09:50:16,342 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/docs.js' 2026-02-14T09:50:16,355 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-1.8.3.min.js' 2026-02-14T09:50:16,369 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-1.9.0.min.js' 2026-02-14T09:50:16,395 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/jquery-ui-1.10.0.custom.min.js' 2026-02-14T09:50:16,399 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify/prettify.css' 2026-02-14T09:50:16,401 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/assets/js/google-code-prettify/prettify.js' 2026-02-14T09:50:16,403 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/demo.css' 2026-02-14T09:50:16,417 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery-ui-1.10.0.custom.css' 2026-02-14T09:50:16,466 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery-ui-1.9.2.custom.css' 2026-02-14T09:50:16,467 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery.ui.1.10.0.ie.css' 2026-02-14T09:50:16,467 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/jquery.ui.1.9.2.ie.css' 2026-02-14T09:50:16,469 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_flat_0_aaaaaa_40x100.png' 2026-02-14T09:50:16,470 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_55_fbf9ee_1x400.png' 2026-02-14T09:50:16,471 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_65_ffffff_1x400.png' 2026-02-14T09:50:16,472 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_dadada_1x400.png' 2026-02-14T09:50:16,473 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_e6e6e6_1x400.png' 2026-02-14T09:50:16,474 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_glass_75_ffffff_1x400.png' 2026-02-14T09:50:16,475 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_highlight-soft_75_cccccc_1x100.png' 2026-02-14T09:50:16,477 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-bg_inset-soft_95_fef1ec_1x100.png' 2026-02-14T09:50:16,478 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_222222_256x240.png' 2026-02-14T09:50:16,480 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_2e83ff_256x240.png' 2026-02-14T09:50:16,481 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_454545_256x240.png' 2026-02-14T09:50:16,483 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_888888_256x240.png' 2026-02-14T09:50:16,484 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_cd0a0a_256x240.png' 2026-02-14T09:50:16,486 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/css/custom-theme/images/ui-icons_f6cf3b_256x240.png' 2026-02-14T09:50:16,489 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/demo.js' 2026-02-14T09:50:16,502 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/jquery-1.8.3.min.js' 2026-02-14T09:50:16,530 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/js/jquery-ui-1.9.2.custom.min.js' 2026-02-14T09:50:16,533 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/index.html' 2026-02-14T09:50:16,536 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/css/ui.daterangepicker.css' 2026-02-14T09:50:16,540 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/date.js' 2026-02-14T09:50:16,542 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/daterangepicker.jQuery.compressed.js' 2026-02-14T09:50:16,544 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-Date-Range-Picker/js/daterangepicker.jQuery.js' 2026-02-14T09:50:16,547 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/css/enhanced.css' 2026-02-14T09:50:16,548 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-generic.gif' 2026-02-14T09:50:16,550 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-image.gif' 2026-02-14T09:50:16,551 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-media.gif' 2026-02-14T09:50:16,552 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/images/icon-zip.gif' 2026-02-14T09:50:16,554 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js/enhance.min.js' 2026-02-14T09:50:16,556 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/jQuery-UI-FileInput/js/fileinput.jquery.js' 2026-02-14T09:50:16,558 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.bgiframe-2.1.3-pre.js' 2026-02-14T09:50:16,559 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.mousewheel.min.js' 2026-02-14T09:50:16,562 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.wijmo-open.1.5.0.css' 2026-02-14T09:50:16,588 adding 'rna_tools/tools/webserver-engine/app/static/app/addyosmani-jquery-ui-bootstrap-71f2e47/third-party/wijmo/jquery.wijmo-open.1.5.0.min.js' 2026-02-14T09:50:16,593 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap-responsive.css' 2026-02-14T09:50:16,595 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap-responsive.min.css' 2026-02-14T09:50:16,605 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap.css' 2026-02-14T09:50:16,615 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/css/bootstrap.min.css' 2026-02-14T09:50:16,618 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/img/glyphicons-halflings-white.png' 2026-02-14T09:50:16,620 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/img/glyphicons-halflings.png' 2026-02-14T09:50:16,626 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/bootstrap.js' 2026-02-14T09:50:16,630 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/bootstrap.min.js' 2026-02-14T09:50:16,642 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap/js/jquery.js' 2026-02-14T09:50:16,645 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/LICENSE-MIT' 2026-02-14T09:50:16,646 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/README.md' 2026-02-14T09:50:16,648 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src/bootstrap-filestyle.js' 2026-02-14T09:50:16,650 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/src/bootstrap-filestyle.min.js' 2026-02-14T09:50:16,652 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/index.html' 2026-02-14T09:50:16,653 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload.php' 2026-02-14T09:50:16,662 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/css/bootstrap.min.css' 2026-02-14T09:50:16,665 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img/glyphicons-halflings-white.png' 2026-02-14T09:50:16,667 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/img/glyphicons-halflings.png' 2026-02-14T09:50:16,669 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js/aplication.js' 2026-02-14T09:50:16,672 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/js/bootstrap.min.js' 2026-02-14T09:50:16,673 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-filestyle/test/upload/.folder' 2026-02-14T09:50:16,675 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.css' 2026-02-14T09:50:16,676 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.js' 2026-02-14T09:50:16,678 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.min.css' 2026-02-14T09:50:16,679 adding 'rna_tools/tools/webserver-engine/app/static/app/bootstrap-fileupload/bootstrap-fileupload.min.js' 2026-02-14T09:50:16,713 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/1EHZ.cif' 2026-02-14T09:50:16,749 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/1EHZ.pdb' 2026-02-14T09:50:16,751 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/1l2x_restraints.txt' 2026-02-14T09:50:16,754 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/1l2x_rna_clust0.pdb' 2026-02-14T09:50:16,775 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/1xjr.cif' 2026-02-14T09:50:16,791 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/1xjr.pdb' 2026-02-14T09:50:16,802 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/21_3dRNA_1_rpr.pdb' 2026-02-14T09:50:16,814 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/21_Adamiak_1_rpr.pdb' 2026-02-14T09:50:16,826 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/21_ChenHighLig_1_rpr.pdb' 2026-02-14T09:50:16,837 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/21_Das_1_rpr.pdb' 2026-02-14T09:50:16,850 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/21_solution_2_rpr.pdb' 2026-02-14T09:50:16,875 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/2gdi.pdb' 2026-02-14T09:50:16,877 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/2gdi.txt' 2026-02-14T09:50:16,878 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_pred.txt' 2026-02-14T09:50:16,879 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_rnafold.txt' 2026-02-14T09:50:16,881 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/2gdi_s.txt' 2026-02-14T09:50:16,898 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/5k7c_clean_onechain_renumber_as_puzzle_srr.pdb' 2026-02-14T09:50:16,900 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/5k7c_clean_onechain_renumber_as_puzzle_srr_min.pdb' 2026-02-14T09:50:16,901 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/MissingAtomsAdded_rpr.pdb' 2026-02-14T09:50:16,903 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/gtp.pdb' 2026-02-14T09:50:16,904 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/missing_op1op2_r43OK.pdb' 2026-02-14T09:50:16,906 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/pistol_thrs0.50A_clust272-000001_AA_min.pdb' 2026-02-14T09:50:16,913 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/rp21.zip' 2026-02-14T09:50:16,914 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/tRNA.txt' 2026-02-14T09:50:16,916 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/tRNA_saxs.dat' 2026-02-14T09:50:16,917 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop.pdb' 2026-02-14T09:50:16,920 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop_helix.pdb' 2026-02-14T09:50:16,922 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/tetraloop_mdr.pdb' 2026-02-14T09:50:16,923 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/to-replace.pdb' 2026-02-14T09:50:16,925 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/triple-ACA.pdb' 2026-02-14T09:50:16,926 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/unmodified_tRNAPhe_restraints.txt' 2026-02-14T09:50:16,955 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_CWC2_C.pdb' 2026-02-14T09:50:17,001 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Cwc2_Exon_Intron.pdb' 2026-02-14T09:50:17,007 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_C.pdb' 2026-02-14T09:50:17,021 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_Intron.pdb' 2026-02-14T09:50:17,037 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Exon_Intron_rpr.pdb' 2026-02-14T09:50:17,047 adding 'rna_tools/tools/webserver-engine/app/static/app/demo/yC_5lj3_Intron_C.pdb' 2026-02-14T09:50:17,050 adding 'rna_tools/tools/webserver-engine/app/static/app/dropzone/dropzone.min.css' 2026-02-14T09:50:17,072 adding 'rna_tools/tools/webserver-engine/app/static/app/dropzone/dropzone.min.js' 2026-02-14T09:50:17,076 adding 'rna_tools/tools/webserver-engine/app/static/app/help/1evv-ss-w11rst2_A.rest' 2026-02-14T09:50:17,085 adding 'rna_tools/tools/webserver-engine/app/static/app/help/submit_seq_w_ss_restraints.png' 2026-02-14T09:50:17,089 adding 'rna_tools/tools/webserver-engine/app/static/app/img/01.jpg' 2026-02-14T09:50:17,108 adding 'rna_tools/tools/webserver-engine/app/static/app/img/01.png' 2026-02-14T09:50:17,120 adding 'rna_tools/tools/webserver-engine/app/static/app/img/01b.png' 2026-02-14T09:50:17,125 adding 'rna_tools/tools/webserver-engine/app/static/app/img/01c.jpg' 2026-02-14T09:50:17,144 adding 'rna_tools/tools/webserver-engine/app/static/app/img/02.png' 2026-02-14T09:50:17,175 adding 'rna_tools/tools/webserver-engine/app/static/app/img/02x.png' 2026-02-14T09:50:17,203 adding 'rna_tools/tools/webserver-engine/app/static/app/img/03.png' 2026-02-14T09:50:17,233 adding 'rna_tools/tools/webserver-engine/app/static/app/img/diffpdb.jpg' 2026-02-14T09:50:17,236 adding 'rna_tools/tools/webserver-engine/app/static/app/img/folder.gif' 2026-02-14T09:50:17,243 adding 'rna_tools/tools/webserver-engine/app/static/app/img/qrnas.png' 2026-02-14T09:50:17,245 adding 'rna_tools/tools/webserver-engine/app/templates/about.html' 2026-02-14T09:50:17,247 adding 'rna_tools/tools/webserver-engine/app/templates/analysis.html' 2026-02-14T09:50:17,248 adding 'rna_tools/tools/webserver-engine/app/templates/assess.html' 2026-02-14T09:50:17,250 adding 'rna_tools/tools/webserver-engine/app/templates/base.html' 2026-02-14T09:50:17,252 adding 'rna_tools/tools/webserver-engine/app/templates/calc-inf.html' 2026-02-14T09:50:17,253 adding 'rna_tools/tools/webserver-engine/app/templates/calc-rmsd.html' 2026-02-14T09:50:17,255 adding 'rna_tools/tools/webserver-engine/app/templates/cat.html' 2026-02-14T09:50:17,257 adding 'rna_tools/tools/webserver-engine/app/templates/clarna.html' 2026-02-14T09:50:17,258 adding 'rna_tools/tools/webserver-engine/app/templates/contact.html' 2026-02-14T09:50:17,259 adding 'rna_tools/tools/webserver-engine/app/templates/delete.html' 2026-02-14T09:50:17,261 adding 'rna_tools/tools/webserver-engine/app/templates/diffpdb.html' 2026-02-14T09:50:17,262 adding 'rna_tools/tools/webserver-engine/app/templates/dont_exits.html' 2026-02-14T09:50:17,264 adding 'rna_tools/tools/webserver-engine/app/templates/edit.html' 2026-02-14T09:50:17,265 adding 'rna_tools/tools/webserver-engine/app/templates/errors.html' 2026-02-14T09:50:17,267 adding 'rna_tools/tools/webserver-engine/app/templates/extract.html' 2026-02-14T09:50:17,268 adding 'rna_tools/tools/webserver-engine/app/templates/h2a.html' 2026-02-14T09:50:17,275 adding 'rna_tools/tools/webserver-engine/app/templates/help.html' 2026-02-14T09:50:17,277 adding 'rna_tools/tools/webserver-engine/app/templates/home.html' 2026-02-14T09:50:17,278 adding 'rna_tools/tools/webserver-engine/app/templates/mdr.html' 2026-02-14T09:50:17,280 adding 'rna_tools/tools/webserver-engine/app/templates/min.html' 2026-02-14T09:50:17,282 adding 'rna_tools/tools/webserver-engine/app/templates/mutate.html' 2026-02-14T09:50:17,283 adding 'rna_tools/tools/webserver-engine/app/templates/notebase.html' 2026-02-14T09:50:17,284 adding 'rna_tools/tools/webserver-engine/app/templates/notes.html' 2026-02-14T09:50:17,286 adding 'rna_tools/tools/webserver-engine/app/templates/qrnas.html' 2026-02-14T09:50:17,287 adding 'rna_tools/tools/webserver-engine/app/templates/rpl.html' 2026-02-14T09:50:17,288 adding 'rna_tools/tools/webserver-engine/app/templates/rpr.html' 2026-02-14T09:50:17,290 adding 'rna_tools/tools/webserver-engine/app/templates/seq.html' 2026-02-14T09:50:17,291 adding 'rna_tools/tools/webserver-engine/app/templates/ss.html' 2026-02-14T09:50:17,293 adding 'rna_tools/tools/webserver-engine/app/templates/swap.html' 2026-02-14T09:50:17,294 adding 'rna_tools/tools/webserver-engine/app/templates/tocif.html' 2026-02-14T09:50:17,296 adding 'rna_tools/tools/webserver-engine/app/templates/tools.html' 2026-02-14T09:50:17,298 adding 'rna_tools/tools/webserver-engine/app/templates/topdb.html' 2026-02-14T09:50:17,300 adding 'rna_tools/tools/webserver-engine/app/templates/archive/progress.html' 2026-02-14T09:50:17,302 adding 'rna_tools/tools/webserver-engine/app/templates/archive/result.html' 2026-02-14T09:50:17,303 adding 'rna_tools/tools/webserver-engine/app/templates/archive/secondary-structure.html' 2026-02-14T09:50:17,304 adding 'rna_tools/tools/webserver-engine/app/templates/archive/sequence-search.html' 2026-02-14T09:50:17,306 adding 'rna_tools/tools/webserver-engine/app/templates/archive/submit.html' 2026-02-14T09:50:17,308 adding 'rna_tools/tools/webserver-engine/django_extensions/__init__.py' 2026-02-14T09:50:17,309 adding 'rna_tools/tools/webserver-engine/django_extensions/css/jquery.autocomplete.css' 2026-02-14T09:50:17,311 adding 'rna_tools/tools/webserver-engine/django_extensions/img/indicator.gif' 2026-02-14T09:50:17,313 adding 'rna_tools/tools/webserver-engine/django_extensions/js/jquery.ajaxQueue.js' 2026-02-14T09:50:17,316 adding 'rna_tools/tools/webserver-engine/django_extensions/js/jquery.autocomplete.js' 2026-02-14T09:50:17,317 adding 'rna_tools/tools/webserver-engine/django_extensions/js/jquery.bgiframe.min.js' 2026-02-14T09:50:17,333 adding 'rna_tools/tools/webserver-engine/django_extensions/js/jquery.js' 2026-02-14T09:50:17,478 adding 'rna_tools/tools/webserver-engine/docs/admin.png' 2026-02-14T09:50:17,600 adding 'rna_tools/tools/webserver-engine/docs/demo.png' 2026-02-14T09:50:17,608 adding 'rna_tools/tools/webserver-engine/web/__init__.py' 2026-02-14T09:50:17,610 adding 'rna_tools/tools/webserver-engine/web/settings.py' 2026-02-14T09:50:17,611 adding 'rna_tools/tools/webserver-engine/web/urls.py' 2026-02-14T09:50:17,612 adding 'rna_tools/tools/webserver-engine/web/wsgi.py' 2026-02-14T09:50:17,615 adding 'rna_tools/tools/workflow/README.md' 2026-02-14T09:50:17,616 adding 'rna_tools/tools/workflow/after_peyote_clean.sh' 2026-02-14T09:50:17,617 adding 'rna_tools/tools/workflow/automatix.py' 2026-02-14T09:50:17,618 adding 'rna_tools/tools/workflow/chunker.py' 2026-02-14T09:50:17,619 adding 'rna_tools/tools/workflow/clean.sh' 2026-02-14T09:50:17,621 adding 'rna_tools/tools/workflow/evox.py' 2026-02-14T09:50:17,622 adding 'rna_tools/tools/workflow/inf_all.py' 2026-02-14T09:50:17,623 adding 'rna_tools/tools/workflow/mass_inf.py' 2026-02-14T09:50:17,625 adding 'rna_tools/tools/workflow/mqaprna_massive_destruction.py' 2026-02-14T09:50:17,640 adding 'rna_tools/tools/workflow/mqaprna_run copy.sh' 2026-02-14T09:50:17,656 adding 'rna_tools/tools/workflow/mqaprna_run.sh' 2026-02-14T09:50:17,659 adding 'rna_tools/tools/workflow/pdb_list.txt' 2026-02-14T09:50:17,660 adding 'rna_tools/tools/workflow/rm_csvs_smaller_than_2k.sh' 2026-02-14T09:50:17,661 adding 'rna_tools/tools/workflow/rm_less_2k.sh' 2026-02-14T09:50:17,663 adding 'rna_tools/tools/workflow/rna_workflow.py' 2026-02-14T09:50:17,664 adding 'rna_tools/tools/workflow/rp13_automatix.py' 2026-02-14T09:50:17,666 adding 'rna_tools/tools/workflow/run' 2026-02-14T09:50:17,667 adding 'rna_tools/tools/workflow/run.sh' 2026-02-14T09:50:17,668 adding 'rna_tools/tools/workflow/run_1' 2026-02-14T09:50:17,669 adding 'rna_tools/tools/workflow/test.sh' 2026-02-14T09:50:17,670 adding 'rna_tools/tools/workflow/xxdownload_job_and_process.py' 2026-02-14T09:50:17,678 adding 'rna_tools-3.27.post0.dev3.data/scripts/clarna.py' 2026-02-14T09:50:17,680 adding 'rna_tools-3.27.post0.dev3.data/scripts/diffpdb.py' 2026-02-14T09:50:17,681 adding 'rna_tools-3.27.post0.dev3.data/scripts/pdbs_measure_atom_dists.py' 2026-02-14T09:50:17,682 adding 'rna_tools-3.27.post0.dev3.data/scripts/pymol_color_by_conserv.py' 2026-02-14T09:50:17,684 adding 'rna_tools-3.27.post0.dev3.data/scripts/pymol_preview_generator.py' 2026-02-14T09:50:17,685 adding 'rna_tools-3.27.post0.dev3.data/scripts/pymol_preview_install.py' 2026-02-14T09:50:17,687 adding 'rna_tools-3.27.post0.dev3.data/scripts/random_assignment_of_nucleotides.py' 2026-02-14T09:50:17,688 adding 'rna_tools-3.27.post0.dev3.data/scripts/renum_pdb_to_aln.py' 2026-02-14T09:50:17,689 adding 'rna_tools-3.27.post0.dev3.data/scripts/reverse.py' 2026-02-14T09:50:17,690 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_add_chain.py' 2026-02-14T09:50:17,692 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_coverage.py' 2026-02-14T09:50:17,693 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_fetch_cm.py' 2026-02-14T09:50:17,694 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_fetch_seed.py' 2026-02-14T09:50:17,695 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_find_core.py' 2026-02-14T09:50:17,697 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_find_seq_in_alignment.py' 2026-02-14T09:50:17,699 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_foldability.py' 2026-02-14T09:50:17,700 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_get_ss_from_stk.py' 2026-02-14T09:50:17,701 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_seq_to_alignment.py' 2026-02-14T09:50:17,703 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_sto2csv.py' 2026-02-14T09:50:17,704 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_align_strip_stk.py' 2026-02-14T09:50:17,706 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_alignment_get_species.py' 2026-02-14T09:50:17,707 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_alignment_process_id.py' 2026-02-14T09:50:17,708 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_alignment_r2r.py' 2026-02-14T09:50:17,710 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_cal_rmsd_trafl_plot.py' 2026-02-14T09:50:17,711 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_evo_rmsd.py' 2026-02-14T09:50:17,713 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_fenergy.py' 2026-02-14T09:50:17,714 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_hbonds.py' 2026-02-14T09:50:17,716 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_inf.py' 2026-02-14T09:50:17,718 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd.py' 2026-02-14T09:50:17,720 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_all_vs_all.py' 2026-02-14T09:50:17,724 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_biopython.py' 2026-02-14T09:50:17,726 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_multi_targets.py' 2026-02-14T09:50:17,727 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_calc_rmsd_trafl.py' 2026-02-14T09:50:17,729 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_cif2pdb.py' 2026-02-14T09:50:17,732 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_clanstix.py' 2026-02-14T09:50:17,733 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_clarna2graph.py' 2026-02-14T09:50:17,735 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_clarna_app.py' 2026-02-14T09:50:17,740 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_clarna_compare.py' 2026-02-14T09:50:17,745 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_clarna_run.py' 2026-02-14T09:50:17,746 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_dG2kd.py' 2026-02-14T09:50:17,747 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_df_concat.py' 2026-02-14T09:50:17,749 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_df_csv_sort.py' 2026-02-14T09:50:17,750 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_df_merge.py' 2026-02-14T09:50:17,751 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_df_merge_on.py' 2026-02-14T09:50:17,752 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_df_merge_two.py' 2026-02-14T09:50:17,753 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_dict2fasta.py' 2026-02-14T09:50:17,755 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_dot2ct.py' 2026-02-14T09:50:17,756 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_download_rfam.py' 2026-02-14T09:50:17,757 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_draw_edges.py' 2026-02-14T09:50:17,759 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_ec2x.py' 2026-02-14T09:50:17,761 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_filter.py' 2026-02-14T09:50:17,762 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_gromacs_ready.py' 2026-02-14T09:50:17,763 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_helix_vis.py' 2026-02-14T09:50:17,764 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_kd2dG.py' 2026-02-14T09:50:17,766 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_kd2pkd.py' 2026-02-14T09:50:17,767 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_md.py' 2026-02-14T09:50:17,769 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_minimize.py' 2026-02-14T09:50:17,770 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_analyzegeometry.py' 2026-02-14T09:50:17,771 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_clashscore.py' 2026-02-14T09:50:17,774 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_collect.py' 2026-02-14T09:50:17,776 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_dfire.py' 2026-02-14T09:50:17,777 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_eSCORE.py' 2026-02-14T09:50:17,778 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_exp.py' 2026-02-14T09:50:17,780 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_farfar2.py' 2026-02-14T09:50:17,781 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_farna.py' 2026-02-14T09:50:17,782 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_plot.py' 2026-02-14T09:50:17,784 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rasp.py' 2026-02-14T09:50:17,785 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_remote.sh' 2026-02-14T09:50:17,786 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rna3dcnn.py' 2026-02-14T09:50:17,787 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rnakb.py' 2026-02-14T09:50:17,789 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_rsRNASP.py' 2026-02-14T09:50:17,790 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_score.py' 2026-02-14T09:50:17,791 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_simrna.py' 2026-02-14T09:50:17,793 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_mq_wx_collect.py' 2026-02-14T09:50:17,794 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_ok' 2026-02-14T09:50:17,795 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_ok_mail.py' 2026-02-14T09:50:17,797 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pairs2SimRNArestrs.py' 2026-02-14T09:50:17,801 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pairs_diff.py' 2026-02-14T09:50:17,802 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_edit_occupancy_bfactor.py' 2026-02-14T09:50:17,804 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_fetch.py' 2026-02-14T09:50:17,805 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_fetch_header.py' 2026-02-14T09:50:17,807 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_inspect.py' 2026-02-14T09:50:17,808 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_merge_into_one.py' 2026-02-14T09:50:17,810 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_merge_structure_with_fragments.py' 2026-02-14T09:50:17,811 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_replace.py' 2026-02-14T09:50:17,816 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pdb_tools.py' 2026-02-14T09:50:17,817 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pk_simrna_to_one_line.py' 2026-02-14T09:50:17,818 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pkd2dG.py' 2026-02-14T09:50:17,819 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_pkd2kd.py' 2026-02-14T09:50:17,822 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_plot_alignment_bounds.py' 2026-02-14T09:50:17,823 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_plot_boxplotlike.py' 2026-02-14T09:50:17,824 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_plot_dendogram.py' 2026-02-14T09:50:17,826 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_plot_density.py' 2026-02-14T09:50:17,827 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_plot_heatmap.py' 2026-02-14T09:50:17,828 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_plot_hist.py' 2026-02-14T09:50:17,830 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_prediction_significance.py' 2026-02-14T09:50:17,831 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_refinement.py' 2026-02-14T09:50:17,833 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_check_progress.py' 2026-02-14T09:50:17,834 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_cluster.py' 2026-02-14T09:50:17,836 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_extract.py' 2026-02-14T09:50:17,837 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_extract_lowscore_decoys.py' 2026-02-14T09:50:17,838 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_get_score.py' 2026-02-14T09:50:17,840 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_head.py' 2026-02-14T09:50:17,841 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_min.py' 2026-02-14T09:50:17,842 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_n.py' 2026-02-14T09:50:17,844 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_run.py' 2026-02-14T09:50:17,846 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_silent_file_sort_and_select.py' 2026-02-14T09:50:17,847 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_silent_random.py' 2026-02-14T09:50:17,848 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_rosetta_silent_split.py' 2026-02-14T09:50:17,850 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_sali2dotbracket.py' 2026-02-14T09:50:17,851 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_secondary_structure_prediction.py' 2026-02-14T09:50:17,852 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_simrna_cluster.py' 2026-02-14T09:50:17,854 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_simrna_extract.py' 2026-02-14T09:50:17,855 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_simrna_lowest.py' 2026-02-14T09:50:17,857 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_simrnaweb_download_job.py' 2026-02-14T09:50:17,858 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_ss_get_bps.py' 2026-02-14T09:50:17,860 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_standardize.py' 2026-02-14T09:50:17,861 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_test_cuda.py' 2026-02-14T09:50:17,863 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_tools_demo.py' 2026-02-14T09:50:17,864 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_tools_which.py' 2026-02-14T09:50:17,865 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_torsions.py' 2026-02-14T09:50:17,866 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_traj_n.py' 2026-02-14T09:50:17,868 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_traj_nohetm.py' 2026-02-14T09:50:17,869 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_traj_range.py' 2026-02-14T09:50:17,870 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_workflow.py' 2026-02-14T09:50:17,872 adding 'rna_tools-3.27.post0.dev3.data/scripts/rna_x3dna.py' 2026-02-14T09:50:17,874 adding 'rna_tools-3.27.post0.dev3.data/scripts/select_seq_fromBLAStn_6outfm.py' 2026-02-14T09:50:17,875 adding 'rna_tools-3.27.post0.dev3.data/scripts/translate.py' 2026-02-14T09:50:17,877 adding 'rna_tools-3.27.post0.dev3.data/scripts/triplexibility.py' 2026-02-14T09:50:17,879 adding 'rna_tools-3.27.post0.dev3.data/scripts/triplexibility2.py' 2026-02-14T09:50:17,881 adding 'rna_tools-3.27.post0.dev3.data/scripts/trx_mutagen.py' 2026-02-14T09:50:17,882 adding 'rna_tools-3.27.post0.dev3.data/scripts/trx_mutagen_allvsall.py' 2026-02-14T09:50:17,883 adding 'rna_tools-3.27.post0.dev3.data/scripts/trx_score.py' 2026-02-14T09:50:17,884 adding 'rna_tools-3.27.post0.dev3.data/scripts/trx_score_allvsall.py' 2026-02-14T09:50:17,886 adding 'rna_tools-3.27.post0.dev3.data/scripts/trx_score_onCol.py' 2026-02-14T09:50:17,888 adding 'tests/__init__.py' 2026-02-14T09:50:17,889 adding 'tests/test_module.py' 2026-02-14T09:50:17,895 adding 'rna_tools-3.27.post0.dev3.dist-info/LICENSE' 2026-02-14T09:50:17,899 adding 'rna_tools-3.27.post0.dev3.dist-info/METADATA' 2026-02-14T09:50:17,900 adding 'rna_tools-3.27.post0.dev3.dist-info/WHEEL' 2026-02-14T09:50:17,901 adding 'rna_tools-3.27.post0.dev3.dist-info/top_level.txt' 2026-02-14T09:50:17,934 adding 'rna_tools-3.27.post0.dev3.dist-info/RECORD' 2026-02-14T09:50:18,456 removing build/bdist.linux-armv7l/wheel 2026-02-14T09:50:19,079 Building wheel for rna-tools (pyproject.toml): finished with status 'done' 2026-02-14T09:50:20,289 Created wheel for rna-tools: filename=rna_tools-3.27.post0.dev3-py3-none-any.whl size=58398270 sha256=9da4a01e580dc3d8633e390a1113c6592051ea1eea774c49f5cfab7284ef0bbf 2026-02-14T09:50:20,290 Stored in directory: /tmp/pip-ephem-wheel-cache-jkrullk7/wheels/84/81/a1/a63fd9f256f945c2d195c8d53ab6f1af916eb1d2373341116c 2026-02-14T09:50:20,378 Successfully built rna-tools 2026-02-14T09:50:21,705 Removed build tracker: '/tmp/pip-build-tracker-eun2ujhg'