2022-10-18T15:04:35,030 Created temporary directory: /tmp/pip-ephem-wheel-cache-07m0x7a8 2022-10-18T15:04:35,035 Created temporary directory: /tmp/pip-build-tracker-splq_tu_ 2022-10-18T15:04:35,036 Initialized build tracking at /tmp/pip-build-tracker-splq_tu_ 2022-10-18T15:04:35,037 Created build tracker: /tmp/pip-build-tracker-splq_tu_ 2022-10-18T15:04:35,037 Entered build tracker: /tmp/pip-build-tracker-splq_tu_ 2022-10-18T15:04:35,038 Created temporary directory: /tmp/pip-wheel-yuifn684 2022-10-18T15:04:35,048 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 2022-10-18T15:04:35,054 Created temporary directory: /tmp/pip-ephem-wheel-cache-9yxyyv1k 2022-10-18T15:04:35,113 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2022-10-18T15:04:35,120 2 location(s) to search for versions of staramr: 2022-10-18T15:04:35,120 * https://pypi.org/simple/staramr/ 2022-10-18T15:04:35,120 * https://www.piwheels.org/simple/staramr/ 2022-10-18T15:04:35,121 Fetching project page and analyzing links: https://pypi.org/simple/staramr/ 2022-10-18T15:04:35,122 Getting page https://pypi.org/simple/staramr/ 2022-10-18T15:04:35,126 Found index url https://pypi.org/simple 2022-10-18T15:04:35,529 Fetched page https://pypi.org/simple/staramr/ as application/vnd.pypi.simple.v1+json 2022-10-18T15:04:35,547 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/ed/c1/0c4b1cea22a9e988e2f0e434e4d02bca85dae2f3fd2ec1a40cf9389a4e67/staramr-0.1.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,548 Found link https://files.pythonhosted.org/packages/77/9a/9d597ed9baf54db2b4937f3720cebf26d8ab515e9e4c3fb487c0fea07833/staramr-0.1.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.1.0 2022-10-18T15:04:35,549 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/22/53/81d8e070c9427f690fcce515ab0e27b0f22bce4c015c7083ba7ed4709a91/staramr-0.2.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,549 Found link https://files.pythonhosted.org/packages/b6/87/83b39de77cbc4f04d955d71999b431eb94235d79f98534294fef8aaf2581/staramr-0.2.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.2.0 2022-10-18T15:04:35,550 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/32/fe/ef8abc1db55c973cd70f6ce91a941f613e3fe7b6af06178071ca60c15d10/staramr-0.2.1-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,551 Found link https://files.pythonhosted.org/packages/9b/11/b64e9c1ecab39a830cc4328fc690aafbaf56bc6826708a90eeadb1b8d622/staramr-0.2.1.tar.gz (from https://pypi.org/simple/staramr/), version: 0.2.1 2022-10-18T15:04:35,551 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/26/23/e5c02cc1973e976dafac6a1e55097c8ea917b9886d1090338d41c90fc2f7/staramr-0.2.2-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,552 Found link https://files.pythonhosted.org/packages/e0/a1/94a38de83f532627b171a0aead2baf59a6b4fb82b4b53a20f6d7988f0319/staramr-0.2.2.tar.gz (from https://pypi.org/simple/staramr/), version: 0.2.2 2022-10-18T15:04:35,553 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/d5/21/baa299f120521330371ffe58d49603d0049e92f931ab00177044de6623d5/staramr-0.3.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,553 Found link https://files.pythonhosted.org/packages/97/e2/c526bee2f9f2ca0dca92d046ffc2f4185a56f4132e15356ca45235aaf8bd/staramr-0.3.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.3.0 2022-10-18T15:04:35,554 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/f7/9b/7f09766ae1e54baea291c3266e29792c46c31d5b6d2b3a56f889697ffc1a/staramr-0.4.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,555 Found link https://files.pythonhosted.org/packages/36/f5/eb4cf7a9d69810de1b3f82aba7deda78fb45e5894b298daea00fa1721bb9/staramr-0.4.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.4.0 2022-10-18T15:04:35,555 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/80/39/1dac22e5cdd2a94999bd82291c4c2ae1251a1b243b283de304c2f8755589/staramr-0.5.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,556 Found link https://files.pythonhosted.org/packages/70/58/7bac828bc88df38a1841df7a6ad5cf59524d4085b58bd3fd710d052176e3/staramr-0.5.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.5.0 2022-10-18T15:04:35,556 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/1b/af/bc801c0cb31ecf523e0ed826478d384cb1a461694b45f70cd8512a902d05/staramr-0.5.1-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,557 Found link https://files.pythonhosted.org/packages/10/6a/a33fcd3f1523ae336edd2f3db7cb0791cd7278b3d13d0a10287ff50d4cf0/staramr-0.5.1.tar.gz (from https://pypi.org/simple/staramr/), version: 0.5.1 2022-10-18T15:04:35,558 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/f4/11/38982e14f878caec3d6d47557acbf8ec35ae45d8b9be5e16152ea0904d08/staramr-0.6.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,558 Found link https://files.pythonhosted.org/packages/33/37/213f6895f0dddb21d1a7c448dc4609f560115cca0b66cfda2e08375f191b/staramr-0.6.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.6.0 2022-10-18T15:04:35,559 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/f3/bd/96e937df3bf7433e0d115eaabfa5de53e284a651b64e67122d12fa9a107b/staramr-0.6.1-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,559 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/ad/d9/fbe1168693468fa864f87ba19de12e606520a187859926f8156b46047cf8/staramr-0.6.1-py3.6.egg (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,560 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/cd/68/0c243dac827bf9345878d7ad4337c9d65800c21d0d9693b0fbe8f2b58714/staramr-0.6.1-py3.7.egg (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,561 Found link https://files.pythonhosted.org/packages/08/f4/d0f99d6f6902b2f62c7f61c4aee282b806d07d0be964887c1065b13aa9f8/staramr-0.6.1.tar.gz (from https://pypi.org/simple/staramr/), version: 0.6.1 2022-10-18T15:04:35,561 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/6a/11/9f21478096f6aa3432345698389bbb40ca4382829480e2b93edb8fb412fe/staramr-0.7.0a0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,562 Found link https://files.pythonhosted.org/packages/8b/bb/dff1320f729ee5accdec1717ec99c494d87493686fac9c3d6b95e812baa1/staramr-0.7.0a0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.7.0a0 2022-10-18T15:04:35,562 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/bd/c5/0a1cd1ac4eba7a432fad3fe9fe8aaadd5f5d8381b870a56d0b1d2ced1278/staramr-0.7.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,563 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/51/d4/ed56738b25bd9c295b62360c7bc4bfa4894235f742a4cb18eb9c52f6c0a9/staramr-0.7.0-py3.7.egg (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,564 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/c3/6d/b6163b8e6bc20efd5e06213692ba2c0092f5b4d0ba49285df22c053efb99/staramr-0.7.0-py3.8.egg (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,564 Found link https://files.pythonhosted.org/packages/b0/73/8d598f8d11bda54c3e0e80f1f0e64daee597d44a28aa9346c7923b9a566b/staramr-0.7.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.7.0 2022-10-18T15:04:35,565 Skipping link: unsupported archive format: .egg: https://files.pythonhosted.org/packages/4e/42/1d6e54ed69d7b28e7a6bf2b9e37c6d44fb06ac4cc0a0e89d6bc2d7f4ccce/staramr-0.7.1-py3.8.egg (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,565 Found link https://files.pythonhosted.org/packages/66/47/b016a0dc8fd4a69986c4961f58f02776bdb91ea1039abeb55e556da043c7/staramr-0.7.1.tar.gz (from https://pypi.org/simple/staramr/), version: 0.7.1 2022-10-18T15:04:35,566 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/cb/bb/f8102643c61c8551b32ddd47b1a7518d8012e76e75af24603edd15a960d4/staramr-0.7.2-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,567 Found link https://files.pythonhosted.org/packages/e4/71/3ba1115a29c1b2c4a163b5d1f9ab3e44c029db5181b424a37a8449287a2c/staramr-0.7.2.tar.gz (from https://pypi.org/simple/staramr/), version: 0.7.2 2022-10-18T15:04:35,567 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/89/4b/7676e12549d4dadedaca7cddf6274e36775763324166ced94aa72d06838c/staramr-0.8.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,568 Found link https://files.pythonhosted.org/packages/bb/c3/4f9d134050c63b9c6d911025d03abaf5cfeedd112893f3906cacd331f942/staramr-0.8.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.8.0 2022-10-18T15:04:35,569 Skipping link: No binaries permitted for staramr: https://files.pythonhosted.org/packages/5e/0b/f3ca45f48126fca819aab036e1e5e0c7ff69e4329e44efeed5a3752cfb78/staramr-0.9.0-py3-none-any.whl (from https://pypi.org/simple/staramr/) 2022-10-18T15:04:35,569 Found link https://files.pythonhosted.org/packages/69/5c/d71412a1285e650a58d2a4435e846b6795c1c2cb82ce0b11ab52396239ee/staramr-0.9.0.tar.gz (from https://pypi.org/simple/staramr/), version: 0.9.0 2022-10-18T15:04:35,570 Fetching project page and analyzing links: https://www.piwheels.org/simple/staramr/ 2022-10-18T15:04:35,571 Getting page https://www.piwheels.org/simple/staramr/ 2022-10-18T15:04:35,573 Found index url https://www.piwheels.org/simple 2022-10-18T15:04:35,797 Fetched page https://www.piwheels.org/simple/staramr/ as text/html 2022-10-18T15:04:35,809 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.8.0-py3-none-any.whl#sha256=fa4382aa1bb8289c73da3ed22a04bf21379d21fd06c47fa1224c7d8178d4f118 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,810 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.7.2-py3-none-any.whl#sha256=4d8b00445b2ca860a9a4cdbcee25a06fa8d559db8005a092c668d796792a63e6 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,810 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.7.1-py3-none-any.whl#sha256=18edee67061357bd5b0b96011f95963950e33b1ab03acec5540159de4bc8dbd5 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,811 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.7.0-py3-none-any.whl#sha256=8fc931f6f4eaa25abd53127962b2a17912a926d355290aee609d5931545f76b1 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,811 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.7.0a0-py3-none-any.whl#sha256=777b88380e6dcad1504e93a926ab2783b3d9d7102b83c469d0393e51ac67cd45 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,812 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.6.1-py3-none-any.whl#sha256=b9537c2185b7a551704639273c48fdc790d7b997313a9d496df23f6e1f4de98b (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,813 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.6.0-py3-none-any.whl#sha256=45fa75c521756c6d726a63480dde09f2d5e8a30466d632468b57b03e985744cf (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,813 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.5.1-py3-none-any.whl#sha256=5bf6387b50880ffb5ee980f712d43a8e15e4603908433c8882a312d9b9b31274 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,814 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.5.0-py3-none-any.whl#sha256=eeccb3c6b929280fccae3b59064afe461e6064782a5239a1790e34511a8b4f30 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,814 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.4.0-py3-none-any.whl#sha256=fd6d7e296b21430588fa209c09611f4666eb50bb3958f2e78178b6ecd23fa1bc (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,815 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.3.0-py3-none-any.whl#sha256=989b5362c5877dcfba34656d7210dc0597b1e6a9b1ca0b7f2c524686c7968e0b (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,815 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.2.2-py3-none-any.whl#sha256=71fa01a4024a0fcf881dffbf1743b35b6c5be99de1fa504f2883d1ad0ce2dc49 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,816 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.2.1-py3-none-any.whl#sha256=e79bd3578035dc6b04d3409d3e6f3e284fbb1003625e3894e28104986ffd15e9 (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,816 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.2.0-py3-none-any.whl#sha256=bcc339941ae43d23708135066a14b0b587e37a84c0eb84f85d06cef6f433aa2b (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,817 Skipping link: No binaries permitted for staramr: https://www.piwheels.org/simple/staramr/staramr-0.1.0-py3-none-any.whl#sha256=e6196caf71f9bc8fa59b2fb7a13d74b0f2247207488039b6b908d9ccd52cdc4a (from https://www.piwheels.org/simple/staramr/) 2022-10-18T15:04:35,818 Skipping link: not a file: https://www.piwheels.org/simple/staramr/ 2022-10-18T15:04:35,818 Skipping link: not a file: https://pypi.org/simple/staramr/ 2022-10-18T15:04:35,856 Given no hashes to check 1 links for project 'staramr': discarding no candidates 2022-10-18T15:04:35,886 Collecting staramr==0.9.0 2022-10-18T15:04:35,890 Created temporary directory: /tmp/pip-unpack-0o22goe2 2022-10-18T15:04:36,136 Downloading staramr-0.9.0.tar.gz (749 kB) 2022-10-18T15:04:38,181 Added staramr==0.9.0 from https://files.pythonhosted.org/packages/69/5c/d71412a1285e650a58d2a4435e846b6795c1c2cb82ce0b11ab52396239ee/staramr-0.9.0.tar.gz to build tracker '/tmp/pip-build-tracker-splq_tu_' 2022-10-18T15:04:38,183 Running setup.py (path:/tmp/pip-wheel-yuifn684/staramr_5b616371cdd44485b0c34da64fa57f62/setup.py) egg_info for package staramr 2022-10-18T15:04:38,185 Created temporary directory: /tmp/pip-pip-egg-info-rf0nd8w9 2022-10-18T15:04:38,185 Preparing metadata (setup.py): started 2022-10-18T15:04:38,187 Running command python setup.py egg_info 2022-10-18T15:04:46,049 running egg_info 2022-10-18T15:04:46,054 creating /tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info 2022-10-18T15:04:46,792 writing /tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/PKG-INFO 2022-10-18T15:04:47,381 writing dependency_links to /tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/dependency_links.txt 2022-10-18T15:04:50,330 writing requirements to /tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/requires.txt 2022-10-18T15:04:50,923 writing top-level names to /tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/top_level.txt 2022-10-18T15:04:50,926 writing manifest file '/tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/SOURCES.txt' 2022-10-18T15:04:52,204 reading manifest file '/tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/SOURCES.txt' 2022-10-18T15:04:52,208 reading manifest template 'MANIFEST.in' 2022-10-18T15:04:52,401 adding license file 'LICENSE' 2022-10-18T15:04:52,402 adding license file 'NOTICE' 2022-10-18T15:04:52,440 writing manifest file '/tmp/pip-pip-egg-info-rf0nd8w9/staramr.egg-info/SOURCES.txt' 2022-10-18T15:04:52,613 Preparing metadata (setup.py): finished with status 'done' 2022-10-18T15:04:52,626 Source in /tmp/pip-wheel-yuifn684/staramr_5b616371cdd44485b0c34da64fa57f62 has version 0.9.0, which satisfies requirement staramr==0.9.0 from https://files.pythonhosted.org/packages/69/5c/d71412a1285e650a58d2a4435e846b6795c1c2cb82ce0b11ab52396239ee/staramr-0.9.0.tar.gz 2022-10-18T15:04:52,628 Removed staramr==0.9.0 from https://files.pythonhosted.org/packages/69/5c/d71412a1285e650a58d2a4435e846b6795c1c2cb82ce0b11ab52396239ee/staramr-0.9.0.tar.gz from build tracker '/tmp/pip-build-tracker-splq_tu_' 2022-10-18T15:04:52,638 Created temporary directory: /tmp/pip-unpack-t1imrdi9 2022-10-18T15:04:52,640 Building wheels for collected packages: staramr 2022-10-18T15:04:52,649 Created temporary directory: /tmp/pip-wheel-cxylqgh6 2022-10-18T15:04:52,650 Building wheel for staramr (setup.py): started 2022-10-18T15:04:52,652 Destination directory: /tmp/pip-wheel-cxylqgh6 2022-10-18T15:04:52,652 Running command python setup.py bdist_wheel 2022-10-18T15:04:59,826 running bdist_wheel 2022-10-18T15:05:00,264 running build 2022-10-18T15:05:00,264 running build_py 2022-10-18T15:05:01,014 creating build 2022-10-18T15:05:01,014 creating build/lib 2022-10-18T15:05:01,016 creating build/lib/staramr 2022-10-18T15:05:01,018 copying staramr/SubCommand.py -> build/lib/staramr 2022-10-18T15:05:01,022 copying staramr/__init__.py -> build/lib/staramr 2022-10-18T15:05:01,025 copying staramr/Utils.py -> build/lib/staramr 2022-10-18T15:05:01,030 creating build/lib/staramr/results 2022-10-18T15:05:01,031 copying staramr/results/QualityModule.py -> build/lib/staramr/results 2022-10-18T15:05:01,037 copying staramr/results/AMRDetectionSummaryResistance.py -> build/lib/staramr/results 2022-10-18T15:05:01,040 copying staramr/results/AMRDetectionSummary.py -> build/lib/staramr/results 2022-10-18T15:05:01,045 copying staramr/results/__init__.py -> build/lib/staramr/results 2022-10-18T15:05:01,049 creating build/lib/staramr/detection 2022-10-18T15:05:01,051 copying staramr/detection/AMRDetection.py -> build/lib/staramr/detection 2022-10-18T15:05:01,056 copying staramr/detection/AMRDetectionResistance.py -> build/lib/staramr/detection 2022-10-18T15:05:01,060 copying staramr/detection/__init__.py -> build/lib/staramr/detection 2022-10-18T15:05:01,065 copying staramr/detection/AMRDetectionFactory.py -> build/lib/staramr/detection 2022-10-18T15:05:01,070 creating build/lib/staramr/exceptions 2022-10-18T15:05:01,071 copying staramr/exceptions/CommandParseException.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,075 copying staramr/exceptions/GenotypePhenotypeMatchException.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,078 copying staramr/exceptions/DatabaseNotFoundException.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,081 copying staramr/exceptions/InvalidPositionException.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,084 copying staramr/exceptions/DatabaseErrorException.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,087 copying staramr/exceptions/BlastProcessError.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,091 copying staramr/exceptions/__init__.py -> build/lib/staramr/exceptions 2022-10-18T15:05:01,094 creating build/lib/staramr/tests 2022-10-18T15:05:01,096 copying staramr/tests/__init__.py -> build/lib/staramr/tests 2022-10-18T15:05:01,100 creating build/lib/staramr/blast 2022-10-18T15:05:01,101 copying staramr/blast/JobHandler.py -> build/lib/staramr/blast 2022-10-18T15:05:01,105 copying staramr/blast/__init__.py -> build/lib/staramr/blast 2022-10-18T15:05:01,108 copying staramr/blast/AbstractBlastDatabase.py -> build/lib/staramr/blast 2022-10-18T15:05:01,112 creating build/lib/staramr/databases 2022-10-18T15:05:01,114 copying staramr/databases/BlastDatabaseRepository.py -> build/lib/staramr/databases 2022-10-18T15:05:01,117 copying staramr/databases/BlastDatabaseRepositories.py -> build/lib/staramr/databases 2022-10-18T15:05:01,121 copying staramr/databases/AMRDatabasesManager.py -> build/lib/staramr/databases 2022-10-18T15:05:01,125 copying staramr/databases/__init__.py -> build/lib/staramr/databases 2022-10-18T15:05:01,128 creating build/lib/staramr/subcommand 2022-10-18T15:05:01,130 copying staramr/subcommand/Search.py -> build/lib/staramr/subcommand 2022-10-18T15:05:01,135 copying staramr/subcommand/__init__.py -> build/lib/staramr/subcommand 2022-10-18T15:05:01,138 copying staramr/subcommand/Database.py -> build/lib/staramr/subcommand 2022-10-18T15:05:01,143 creating build/lib/staramr/tests/unit 2022-10-18T15:05:01,144 copying staramr/tests/unit/__init__.py -> build/lib/staramr/tests/unit 2022-10-18T15:05:01,148 creating build/lib/staramr/tests/integration 2022-10-18T15:05:01,149 copying staramr/tests/integration/__init__.py -> build/lib/staramr/tests/integration 2022-10-18T15:05:01,154 creating build/lib/staramr/tests/unit/results 2022-10-18T15:05:01,156 copying staramr/tests/unit/results/test_AMRDetectionSummary.py -> build/lib/staramr/tests/unit/results 2022-10-18T15:05:01,162 copying staramr/tests/unit/results/test_AMRDetectionSummaryResistance.py -> build/lib/staramr/tests/unit/results 2022-10-18T15:05:01,167 copying staramr/tests/unit/results/test_QualityModule.py -> build/lib/staramr/tests/unit/results 2022-10-18T15:05:01,171 copying staramr/tests/unit/results/__init__.py -> build/lib/staramr/tests/unit/results 2022-10-18T15:05:01,175 creating build/lib/staramr/tests/unit/blast 2022-10-18T15:05:01,177 copying staramr/tests/unit/blast/__init__.py -> build/lib/staramr/tests/unit/blast 2022-10-18T15:05:01,181 creating build/lib/staramr/tests/unit/blast/results 2022-10-18T15:05:01,182 copying staramr/tests/unit/blast/results/__init__.py -> build/lib/staramr/tests/unit/blast/results 2022-10-18T15:05:01,185 copying staramr/tests/unit/blast/results/test_BlastHitPartitions.py -> build/lib/staramr/tests/unit/blast/results 2022-10-18T15:05:01,192 creating build/lib/staramr/tests/unit/blast/pointfinder 2022-10-18T15:05:01,195 copying staramr/tests/unit/blast/pointfinder/test_PointfinderDatabaseInfo.py -> build/lib/staramr/tests/unit/blast/pointfinder 2022-10-18T15:05:01,214 copying staramr/tests/unit/blast/pointfinder/__init__.py -> build/lib/staramr/tests/unit/blast/pointfinder 2022-10-18T15:05:01,218 creating build/lib/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:01,221 copying staramr/tests/unit/blast/results/pointfinder/test_PointfinderHitHSP.py -> build/lib/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:01,226 copying staramr/tests/unit/blast/results/pointfinder/test_PlasmidfinderHitHSP.py -> build/lib/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:01,229 copying staramr/tests/unit/blast/results/pointfinder/__init__.py -> build/lib/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:01,234 creating build/lib/staramr/tests/unit/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,236 copying staramr/tests/unit/blast/results/pointfinder/nucleotide/test_NucleotideMutationPosition.py -> build/lib/staramr/tests/unit/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,241 copying staramr/tests/unit/blast/results/pointfinder/nucleotide/__init__.py -> build/lib/staramr/tests/unit/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,246 creating build/lib/staramr/tests/unit/blast/results/pointfinder/codon 2022-10-18T15:05:01,248 copying staramr/tests/unit/blast/results/pointfinder/codon/test_CodonMutationPosition.py -> build/lib/staramr/tests/unit/blast/results/pointfinder/codon 2022-10-18T15:05:01,254 copying staramr/tests/unit/blast/results/pointfinder/codon/__init__.py -> build/lib/staramr/tests/unit/blast/results/pointfinder/codon 2022-10-18T15:05:01,259 creating build/lib/staramr/tests/integration/detection 2022-10-18T15:05:01,261 copying staramr/tests/integration/detection/test_AMRDetection.py -> build/lib/staramr/tests/integration/detection 2022-10-18T15:05:01,270 copying staramr/tests/integration/detection/test_AMRDetectionPlasmid.py -> build/lib/staramr/tests/integration/detection 2022-10-18T15:05:01,275 copying staramr/tests/integration/detection/__init__.py -> build/lib/staramr/tests/integration/detection 2022-10-18T15:05:01,279 copying staramr/tests/integration/detection/test_AMRDetectionMLST.py -> build/lib/staramr/tests/integration/detection 2022-10-18T15:05:01,285 creating build/lib/staramr/tests/integration/databases 2022-10-18T15:05:01,287 copying staramr/tests/integration/databases/test_BlastDatabaseRepositories.py -> build/lib/staramr/tests/integration/databases 2022-10-18T15:05:01,291 copying staramr/tests/integration/databases/test_AMRDatabasesManager.py -> build/lib/staramr/tests/integration/databases 2022-10-18T15:05:01,296 copying staramr/tests/integration/databases/__init__.py -> build/lib/staramr/tests/integration/databases 2022-10-18T15:05:01,300 creating build/lib/staramr/blast/plasmidfinder 2022-10-18T15:05:01,302 copying staramr/blast/plasmidfinder/__init__.py -> build/lib/staramr/blast/plasmidfinder 2022-10-18T15:05:01,306 copying staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py -> build/lib/staramr/blast/plasmidfinder 2022-10-18T15:05:01,311 creating build/lib/staramr/blast/results 2022-10-18T15:05:01,313 copying staramr/blast/results/AMRHitHSP.py -> build/lib/staramr/blast/results 2022-10-18T15:05:01,317 copying staramr/blast/results/BlastHitPartitions.py -> build/lib/staramr/blast/results 2022-10-18T15:05:01,321 copying staramr/blast/results/__init__.py -> build/lib/staramr/blast/results 2022-10-18T15:05:01,324 copying staramr/blast/results/BlastResultsParser.py -> build/lib/staramr/blast/results 2022-10-18T15:05:01,330 creating build/lib/staramr/blast/pointfinder 2022-10-18T15:05:01,332 copying staramr/blast/pointfinder/PointfinderBlastDatabase.py -> build/lib/staramr/blast/pointfinder 2022-10-18T15:05:01,336 copying staramr/blast/pointfinder/PointfinderDatabaseInfo.py -> build/lib/staramr/blast/pointfinder 2022-10-18T15:05:01,341 copying staramr/blast/pointfinder/__init__.py -> build/lib/staramr/blast/pointfinder 2022-10-18T15:05:01,345 creating build/lib/staramr/blast/resfinder 2022-10-18T15:05:01,347 copying staramr/blast/resfinder/ResfinderBlastDatabase.py -> build/lib/staramr/blast/resfinder 2022-10-18T15:05:01,351 copying staramr/blast/resfinder/__init__.py -> build/lib/staramr/blast/resfinder 2022-10-18T15:05:01,355 creating build/lib/staramr/blast/results/plasmidfinder 2022-10-18T15:05:01,357 copying staramr/blast/results/plasmidfinder/PlasmidfinderHitHSP.py -> build/lib/staramr/blast/results/plasmidfinder 2022-10-18T15:05:01,361 copying staramr/blast/results/plasmidfinder/BlastResultsParserPlasmidfinderResistance.py -> build/lib/staramr/blast/results/plasmidfinder 2022-10-18T15:05:01,365 copying staramr/blast/results/plasmidfinder/__init__.py -> build/lib/staramr/blast/results/plasmidfinder 2022-10-18T15:05:01,368 copying staramr/blast/results/plasmidfinder/BlastResultsParserPlasmidfinder.py -> build/lib/staramr/blast/results/plasmidfinder 2022-10-18T15:05:01,373 creating build/lib/staramr/blast/results/pointfinder 2022-10-18T15:05:01,375 copying staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py -> build/lib/staramr/blast/results/pointfinder 2022-10-18T15:05:01,379 copying staramr/blast/results/pointfinder/MutationPosition.py -> build/lib/staramr/blast/results/pointfinder 2022-10-18T15:05:01,383 copying staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py -> build/lib/staramr/blast/results/pointfinder 2022-10-18T15:05:01,387 copying staramr/blast/results/pointfinder/PointfinderHitHSP.py -> build/lib/staramr/blast/results/pointfinder 2022-10-18T15:05:01,391 copying staramr/blast/results/pointfinder/__init__.py -> build/lib/staramr/blast/results/pointfinder 2022-10-18T15:05:01,395 creating build/lib/staramr/blast/results/resfinder 2022-10-18T15:05:01,397 copying staramr/blast/results/resfinder/BlastResultsParserResfinderResistance.py -> build/lib/staramr/blast/results/resfinder 2022-10-18T15:05:01,401 copying staramr/blast/results/resfinder/ResfinderHitHSP.py -> build/lib/staramr/blast/results/resfinder 2022-10-18T15:05:01,405 copying staramr/blast/results/resfinder/BlastResultsParserResfinder.py -> build/lib/staramr/blast/results/resfinder 2022-10-18T15:05:01,408 copying staramr/blast/results/resfinder/__init__.py -> build/lib/staramr/blast/results/resfinder 2022-10-18T15:05:01,413 creating build/lib/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,415 copying staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py -> build/lib/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,419 copying staramr/blast/results/pointfinder/nucleotide/__init__.py -> build/lib/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,423 copying staramr/blast/results/pointfinder/nucleotide/NucleotideMutationPosition.py -> build/lib/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,426 copying staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py -> build/lib/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:01,431 creating build/lib/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:01,433 copying staramr/blast/results/pointfinder/codon/CodonInsertionPosition.py -> build/lib/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:01,437 copying staramr/blast/results/pointfinder/codon/CodonMutationPosition.py -> build/lib/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:01,441 copying staramr/blast/results/pointfinder/codon/__init__.py -> build/lib/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:01,445 creating build/lib/staramr/databases/exclude 2022-10-18T15:05:01,447 copying staramr/databases/exclude/ExcludeGenesList.py -> build/lib/staramr/databases/exclude 2022-10-18T15:05:01,451 copying staramr/databases/exclude/__init__.py -> build/lib/staramr/databases/exclude 2022-10-18T15:05:01,455 creating build/lib/staramr/databases/resistance 2022-10-18T15:05:01,457 copying staramr/databases/resistance/ARGDrugTable.py -> build/lib/staramr/databases/resistance 2022-10-18T15:05:01,461 copying staramr/databases/resistance/__init__.py -> build/lib/staramr/databases/resistance 2022-10-18T15:05:01,465 creating build/lib/staramr/databases/resistance/pointfinder 2022-10-18T15:05:01,467 copying staramr/databases/resistance/pointfinder/__init__.py -> build/lib/staramr/databases/resistance/pointfinder 2022-10-18T15:05:01,470 copying staramr/databases/resistance/pointfinder/ARGDrugTablePointfinder.py -> build/lib/staramr/databases/resistance/pointfinder 2022-10-18T15:05:01,475 creating build/lib/staramr/databases/resistance/resfinder 2022-10-18T15:05:01,477 copying staramr/databases/resistance/resfinder/__init__.py -> build/lib/staramr/databases/resistance/resfinder 2022-10-18T15:05:01,480 copying staramr/databases/resistance/resfinder/ARGDrugTableResfinder.py -> build/lib/staramr/databases/resistance/resfinder 2022-10-18T15:05:01,484 running egg_info 2022-10-18T15:05:02,977 writing staramr.egg-info/PKG-INFO 2022-10-18T15:05:03,568 writing dependency_links to staramr.egg-info/dependency_links.txt 2022-10-18T15:05:06,519 writing requirements to staramr.egg-info/requires.txt 2022-10-18T15:05:07,116 writing top-level names to staramr.egg-info/top_level.txt 2022-10-18T15:05:07,310 reading manifest file 'staramr.egg-info/SOURCES.txt' 2022-10-18T15:05:07,400 reading manifest template 'MANIFEST.in' 2022-10-18T15:05:07,575 adding license file 'LICENSE' 2022-10-18T15:05:07,575 adding license file 'NOTICE' 2022-10-18T15:05:07,629 writing manifest file 'staramr.egg-info/SOURCES.txt' 2022-10-18T15:05:07,636 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,637 ############################ 2022-10-18T15:05:07,638 # Package would be ignored # 2022-10-18T15:05:07,638 ############################ 2022-10-18T15:05:07,638 Python recognizes 'staramr.databases.data.dist' as an importable package, however it is 2022-10-18T15:05:07,639 included in the distribution as "data". 2022-10-18T15:05:07,639 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,639 therefore is considered deprecated). 2022-10-18T15:05:07,640 Please make sure that 'staramr.databases.data.dist' is included as a package by using 2022-10-18T15:05:07,640 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,641 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,641 documentation page. 2022-10-18T15:05:07,642 !! 2022-10-18T15:05:07,643 check.warn(importable) 2022-10-18T15:05:07,643 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,644 ############################ 2022-10-18T15:05:07,644 # Package would be ignored # 2022-10-18T15:05:07,645 ############################ 2022-10-18T15:05:07,645 Python recognizes 'staramr.databases.data.dist.plasmidfinder' as an importable package, however it is 2022-10-18T15:05:07,645 included in the distribution as "data". 2022-10-18T15:05:07,645 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,646 therefore is considered deprecated). 2022-10-18T15:05:07,646 Please make sure that 'staramr.databases.data.dist.plasmidfinder' is included as a package by using 2022-10-18T15:05:07,647 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,647 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,647 documentation page. 2022-10-18T15:05:07,648 !! 2022-10-18T15:05:07,649 check.warn(importable) 2022-10-18T15:05:07,649 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,650 ############################ 2022-10-18T15:05:07,650 # Package would be ignored # 2022-10-18T15:05:07,651 ############################ 2022-10-18T15:05:07,651 Python recognizes 'staramr.databases.data.dist.pointfinder' as an importable package, however it is 2022-10-18T15:05:07,651 included in the distribution as "data". 2022-10-18T15:05:07,651 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,652 therefore is considered deprecated). 2022-10-18T15:05:07,652 Please make sure that 'staramr.databases.data.dist.pointfinder' is included as a package by using 2022-10-18T15:05:07,653 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,653 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,654 documentation page. 2022-10-18T15:05:07,654 !! 2022-10-18T15:05:07,655 check.warn(importable) 2022-10-18T15:05:07,655 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,656 ############################ 2022-10-18T15:05:07,657 # Package would be ignored # 2022-10-18T15:05:07,657 ############################ 2022-10-18T15:05:07,657 Python recognizes 'staramr.databases.data.dist.pointfinder.campylobacter' as an importable package, however it is 2022-10-18T15:05:07,657 included in the distribution as "data". 2022-10-18T15:05:07,658 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,658 therefore is considered deprecated). 2022-10-18T15:05:07,659 Please make sure that 'staramr.databases.data.dist.pointfinder.campylobacter' is included as a package by using 2022-10-18T15:05:07,659 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,659 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,660 documentation page. 2022-10-18T15:05:07,661 !! 2022-10-18T15:05:07,661 check.warn(importable) 2022-10-18T15:05:07,662 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,662 ############################ 2022-10-18T15:05:07,663 # Package would be ignored # 2022-10-18T15:05:07,663 ############################ 2022-10-18T15:05:07,663 Python recognizes 'staramr.databases.data.dist.pointfinder.enterococcus_faecalis' as an importable package, however it is 2022-10-18T15:05:07,664 included in the distribution as "data". 2022-10-18T15:05:07,664 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,664 therefore is considered deprecated). 2022-10-18T15:05:07,665 Please make sure that 'staramr.databases.data.dist.pointfinder.enterococcus_faecalis' is included as a package by using 2022-10-18T15:05:07,665 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,666 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,666 documentation page. 2022-10-18T15:05:07,667 !! 2022-10-18T15:05:07,667 check.warn(importable) 2022-10-18T15:05:07,668 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,669 ############################ 2022-10-18T15:05:07,669 # Package would be ignored # 2022-10-18T15:05:07,669 ############################ 2022-10-18T15:05:07,669 Python recognizes 'staramr.databases.data.dist.pointfinder.enterococcus_faecium' as an importable package, however it is 2022-10-18T15:05:07,670 included in the distribution as "data". 2022-10-18T15:05:07,670 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,670 therefore is considered deprecated). 2022-10-18T15:05:07,671 Please make sure that 'staramr.databases.data.dist.pointfinder.enterococcus_faecium' is included as a package by using 2022-10-18T15:05:07,671 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,672 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,672 documentation page. 2022-10-18T15:05:07,673 !! 2022-10-18T15:05:07,673 check.warn(importable) 2022-10-18T15:05:07,674 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,675 ############################ 2022-10-18T15:05:07,675 # Package would be ignored # 2022-10-18T15:05:07,675 ############################ 2022-10-18T15:05:07,675 Python recognizes 'staramr.databases.data.dist.pointfinder.escherichia_coli' as an importable package, however it is 2022-10-18T15:05:07,676 included in the distribution as "data". 2022-10-18T15:05:07,676 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,676 therefore is considered deprecated). 2022-10-18T15:05:07,677 Please make sure that 'staramr.databases.data.dist.pointfinder.escherichia_coli' is included as a package by using 2022-10-18T15:05:07,677 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,678 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,678 documentation page. 2022-10-18T15:05:07,679 !! 2022-10-18T15:05:07,679 check.warn(importable) 2022-10-18T15:05:07,680 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,681 ############################ 2022-10-18T15:05:07,681 # Package would be ignored # 2022-10-18T15:05:07,681 ############################ 2022-10-18T15:05:07,681 Python recognizes 'staramr.databases.data.dist.pointfinder.helicobacter_pylori' as an importable package, however it is 2022-10-18T15:05:07,682 included in the distribution as "data". 2022-10-18T15:05:07,682 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,682 therefore is considered deprecated). 2022-10-18T15:05:07,683 Please make sure that 'staramr.databases.data.dist.pointfinder.helicobacter_pylori' is included as a package by using 2022-10-18T15:05:07,683 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,684 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,684 documentation page. 2022-10-18T15:05:07,685 !! 2022-10-18T15:05:07,685 check.warn(importable) 2022-10-18T15:05:07,686 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,687 ############################ 2022-10-18T15:05:07,687 # Package would be ignored # 2022-10-18T15:05:07,687 ############################ 2022-10-18T15:05:07,687 Python recognizes 'staramr.databases.data.dist.pointfinder.klebsiella' as an importable package, however it is 2022-10-18T15:05:07,688 included in the distribution as "data". 2022-10-18T15:05:07,688 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,688 therefore is considered deprecated). 2022-10-18T15:05:07,689 Please make sure that 'staramr.databases.data.dist.pointfinder.klebsiella' is included as a package by using 2022-10-18T15:05:07,689 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,690 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,690 documentation page. 2022-10-18T15:05:07,691 !! 2022-10-18T15:05:07,691 check.warn(importable) 2022-10-18T15:05:07,692 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,693 ############################ 2022-10-18T15:05:07,693 # Package would be ignored # 2022-10-18T15:05:07,693 ############################ 2022-10-18T15:05:07,693 Python recognizes 'staramr.databases.data.dist.pointfinder.mycobacterium_tuberculosis' as an importable package, however it is 2022-10-18T15:05:07,694 included in the distribution as "data". 2022-10-18T15:05:07,694 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,694 therefore is considered deprecated). 2022-10-18T15:05:07,695 Please make sure that 'staramr.databases.data.dist.pointfinder.mycobacterium_tuberculosis' is included as a package by using 2022-10-18T15:05:07,695 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,696 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,696 documentation page. 2022-10-18T15:05:07,697 !! 2022-10-18T15:05:07,697 check.warn(importable) 2022-10-18T15:05:07,698 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,699 ############################ 2022-10-18T15:05:07,699 # Package would be ignored # 2022-10-18T15:05:07,699 ############################ 2022-10-18T15:05:07,700 Python recognizes 'staramr.databases.data.dist.pointfinder.neisseria_gonorrhoeae' as an importable package, however it is 2022-10-18T15:05:07,700 included in the distribution as "data". 2022-10-18T15:05:07,700 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,701 therefore is considered deprecated). 2022-10-18T15:05:07,701 Please make sure that 'staramr.databases.data.dist.pointfinder.neisseria_gonorrhoeae' is included as a package by using 2022-10-18T15:05:07,701 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,702 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,702 documentation page. 2022-10-18T15:05:07,703 !! 2022-10-18T15:05:07,704 check.warn(importable) 2022-10-18T15:05:07,704 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,705 ############################ 2022-10-18T15:05:07,705 # Package would be ignored # 2022-10-18T15:05:07,705 ############################ 2022-10-18T15:05:07,706 Python recognizes 'staramr.databases.data.dist.pointfinder.plasmodium_falciparum' as an importable package, however it is 2022-10-18T15:05:07,706 included in the distribution as "data". 2022-10-18T15:05:07,706 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,706 therefore is considered deprecated). 2022-10-18T15:05:07,707 Please make sure that 'staramr.databases.data.dist.pointfinder.plasmodium_falciparum' is included as a package by using 2022-10-18T15:05:07,707 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,708 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,708 documentation page. 2022-10-18T15:05:07,709 !! 2022-10-18T15:05:07,710 check.warn(importable) 2022-10-18T15:05:07,710 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,711 ############################ 2022-10-18T15:05:07,711 # Package would be ignored # 2022-10-18T15:05:07,711 ############################ 2022-10-18T15:05:07,711 Python recognizes 'staramr.databases.data.dist.pointfinder.salmonella' as an importable package, however it is 2022-10-18T15:05:07,712 included in the distribution as "data". 2022-10-18T15:05:07,712 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,712 therefore is considered deprecated). 2022-10-18T15:05:07,713 Please make sure that 'staramr.databases.data.dist.pointfinder.salmonella' is included as a package by using 2022-10-18T15:05:07,713 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,714 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,714 documentation page. 2022-10-18T15:05:07,715 !! 2022-10-18T15:05:07,715 check.warn(importable) 2022-10-18T15:05:07,716 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,717 ############################ 2022-10-18T15:05:07,717 # Package would be ignored # 2022-10-18T15:05:07,717 ############################ 2022-10-18T15:05:07,717 Python recognizes 'staramr.databases.data.dist.pointfinder.staphylococcus_aureus' as an importable package, however it is 2022-10-18T15:05:07,718 included in the distribution as "data". 2022-10-18T15:05:07,718 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,718 therefore is considered deprecated). 2022-10-18T15:05:07,719 Please make sure that 'staramr.databases.data.dist.pointfinder.staphylococcus_aureus' is included as a package by using 2022-10-18T15:05:07,719 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,720 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,720 documentation page. 2022-10-18T15:05:07,721 !! 2022-10-18T15:05:07,721 check.warn(importable) 2022-10-18T15:05:07,722 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,722 ############################ 2022-10-18T15:05:07,723 # Package would be ignored # 2022-10-18T15:05:07,723 ############################ 2022-10-18T15:05:07,723 Python recognizes 'staramr.databases.data.dist.resfinder' as an importable package, however it is 2022-10-18T15:05:07,724 included in the distribution as "data". 2022-10-18T15:05:07,724 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,724 therefore is considered deprecated). 2022-10-18T15:05:07,725 Please make sure that 'staramr.databases.data.dist.resfinder' is included as a package by using 2022-10-18T15:05:07,725 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,726 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,726 documentation page. 2022-10-18T15:05:07,727 !! 2022-10-18T15:05:07,727 check.warn(importable) 2022-10-18T15:05:07,727 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,728 ############################ 2022-10-18T15:05:07,729 # Package would be ignored # 2022-10-18T15:05:07,729 ############################ 2022-10-18T15:05:07,729 Python recognizes 'staramr.databases.exclude.data' as an importable package, however it is 2022-10-18T15:05:07,729 included in the distribution as "data". 2022-10-18T15:05:07,730 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,730 therefore is considered deprecated). 2022-10-18T15:05:07,731 Please make sure that 'staramr.databases.exclude.data' is included as a package by using 2022-10-18T15:05:07,731 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,731 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,732 documentation page. 2022-10-18T15:05:07,732 !! 2022-10-18T15:05:07,733 check.warn(importable) 2022-10-18T15:05:07,733 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,734 ############################ 2022-10-18T15:05:07,734 # Package would be ignored # 2022-10-18T15:05:07,735 ############################ 2022-10-18T15:05:07,735 Python recognizes 'staramr.databases.resistance.data' as an importable package, however it is 2022-10-18T15:05:07,735 included in the distribution as "data". 2022-10-18T15:05:07,736 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,736 therefore is considered deprecated). 2022-10-18T15:05:07,736 Please make sure that 'staramr.databases.resistance.data' is included as a package by using 2022-10-18T15:05:07,737 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,737 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,738 documentation page. 2022-10-18T15:05:07,738 !! 2022-10-18T15:05:07,739 check.warn(importable) 2022-10-18T15:05:07,739 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,740 ############################ 2022-10-18T15:05:07,740 # Package would be ignored # 2022-10-18T15:05:07,741 ############################ 2022-10-18T15:05:07,741 Python recognizes 'staramr.tests.integration.data' as an importable package, however it is 2022-10-18T15:05:07,741 included in the distribution as "data". 2022-10-18T15:05:07,741 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,742 therefore is considered deprecated). 2022-10-18T15:05:07,742 Please make sure that 'staramr.tests.integration.data' is included as a package by using 2022-10-18T15:05:07,743 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,743 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,743 documentation page. 2022-10-18T15:05:07,744 !! 2022-10-18T15:05:07,745 check.warn(importable) 2022-10-18T15:05:07,745 /usr/local/lib/python3.7/dist-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: !! 2022-10-18T15:05:07,746 ############################ 2022-10-18T15:05:07,746 # Package would be ignored # 2022-10-18T15:05:07,746 ############################ 2022-10-18T15:05:07,747 Python recognizes 'staramr.tests.unit.data' as an importable package, however it is 2022-10-18T15:05:07,747 included in the distribution as "data". 2022-10-18T15:05:07,747 This behavior is likely to change in future versions of setuptools (and 2022-10-18T15:05:07,748 therefore is considered deprecated). 2022-10-18T15:05:07,748 Please make sure that 'staramr.tests.unit.data' is included as a package by using 2022-10-18T15:05:07,748 setuptools' `packages` configuration field or the proper discovery methods. 2022-10-18T15:05:07,749 You can read more about "package discovery" and "data files" on setuptools 2022-10-18T15:05:07,749 documentation page. 2022-10-18T15:05:07,750 !! 2022-10-18T15:05:07,751 check.warn(importable) 2022-10-18T15:05:07,751 creating build/lib/staramr/databases/data 2022-10-18T15:05:07,752 creating build/lib/staramr/databases/data/dist 2022-10-18T15:05:07,753 copying staramr/databases/data/dist/plasmidfinder-info.ini -> build/lib/staramr/databases/data/dist 2022-10-18T15:05:07,758 copying staramr/databases/data/dist/pointfinder-info.ini -> build/lib/staramr/databases/data/dist 2022-10-18T15:05:07,762 copying staramr/databases/data/dist/resfinder-info.ini -> build/lib/staramr/databases/data/dist 2022-10-18T15:05:07,766 creating build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,767 copying staramr/databases/data/dist/plasmidfinder/.gitignore -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,771 copying staramr/databases/data/dist/plasmidfinder/INSTALL.py -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,775 copying staramr/databases/data/dist/plasmidfinder/Inc18.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,783 copying staramr/databases/data/dist/plasmidfinder/NT_Rep.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,788 copying staramr/databases/data/dist/plasmidfinder/Rep1.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,795 copying staramr/databases/data/dist/plasmidfinder/Rep2.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,800 copying staramr/databases/data/dist/plasmidfinder/Rep3.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,807 copying staramr/databases/data/dist/plasmidfinder/RepA_N.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,816 copying staramr/databases/data/dist/plasmidfinder/RepL.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,820 copying staramr/databases/data/dist/plasmidfinder/Rep_trans.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,826 copying staramr/databases/data/dist/plasmidfinder/config -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,830 copying staramr/databases/data/dist/plasmidfinder/enterobacteriales.fsa -> build/lib/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:07,837 creating build/lib/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:07,839 copying staramr/databases/data/dist/pointfinder/.gitignore -> build/lib/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:07,843 copying staramr/databases/data/dist/pointfinder/INSTALL.py -> build/lib/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:07,847 copying staramr/databases/data/dist/pointfinder/README.md -> build/lib/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:07,851 copying staramr/databases/data/dist/pointfinder/config -> build/lib/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:07,855 creating build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,856 copying staramr/databases/data/dist/pointfinder/campylobacter/23S.fsa -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,860 copying staramr/databases/data/dist/pointfinder/campylobacter/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,864 copying staramr/databases/data/dist/pointfinder/campylobacter/cmeR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,868 copying staramr/databases/data/dist/pointfinder/campylobacter/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,872 copying staramr/databases/data/dist/pointfinder/campylobacter/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,875 copying staramr/databases/data/dist/pointfinder/campylobacter/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,879 copying staramr/databases/data/dist/pointfinder/campylobacter/rpsL.fsa -> build/lib/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:07,885 creating build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:07,886 copying staramr/databases/data/dist/pointfinder/enterococcus_faecalis/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:07,889 copying staramr/databases/data/dist/pointfinder/enterococcus_faecalis/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:07,893 copying staramr/databases/data/dist/pointfinder/enterococcus_faecalis/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:07,897 copying staramr/databases/data/dist/pointfinder/enterococcus_faecalis/parC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:07,901 copying staramr/databases/data/dist/pointfinder/enterococcus_faecalis/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:07,905 creating build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,906 copying staramr/databases/data/dist/pointfinder/enterococcus_faecium/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,909 copying staramr/databases/data/dist/pointfinder/enterococcus_faecium/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,913 copying staramr/databases/data/dist/pointfinder/enterococcus_faecium/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,917 copying staramr/databases/data/dist/pointfinder/enterococcus_faecium/parC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,921 copying staramr/databases/data/dist/pointfinder/enterococcus_faecium/pbp5.fsa -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,925 copying staramr/databases/data/dist/pointfinder/enterococcus_faecium/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:07,928 creating build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,930 copying staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,934 copying staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,938 copying staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsH.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,942 copying staramr/databases/data/dist/pointfinder/escherichia_coli/23S.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,946 copying staramr/databases/data/dist/pointfinder/escherichia_coli/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,949 copying staramr/databases/data/dist/pointfinder/escherichia_coli/ampC_promoter_size_53bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,953 copying staramr/databases/data/dist/pointfinder/escherichia_coli/folP.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,957 copying staramr/databases/data/dist/pointfinder/escherichia_coli/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,961 copying staramr/databases/data/dist/pointfinder/escherichia_coli/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,964 copying staramr/databases/data/dist/pointfinder/escherichia_coli/gyrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,968 copying staramr/databases/data/dist/pointfinder/escherichia_coli/parC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,972 copying staramr/databases/data/dist/pointfinder/escherichia_coli/parE.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,976 copying staramr/databases/data/dist/pointfinder/escherichia_coli/pmrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,980 copying staramr/databases/data/dist/pointfinder/escherichia_coli/pmrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,984 copying staramr/databases/data/dist/pointfinder/escherichia_coli/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,989 copying staramr/databases/data/dist/pointfinder/escherichia_coli/rpoB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:07,993 creating build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:07,994 copying staramr/databases/data/dist/pointfinder/helicobacter_pylori/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:07,998 copying staramr/databases/data/dist/pointfinder/helicobacter_pylori/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:08,002 copying staramr/databases/data/dist/pointfinder/helicobacter_pylori/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:08,006 copying staramr/databases/data/dist/pointfinder/helicobacter_pylori/rpoB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:08,011 creating build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,012 copying staramr/databases/data/dist/pointfinder/klebsiella/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,016 copying staramr/databases/data/dist/pointfinder/klebsiella/acrR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,020 copying staramr/databases/data/dist/pointfinder/klebsiella/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,024 copying staramr/databases/data/dist/pointfinder/klebsiella/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,028 copying staramr/databases/data/dist/pointfinder/klebsiella/ompK35.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,032 copying staramr/databases/data/dist/pointfinder/klebsiella/ompK36.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,035 copying staramr/databases/data/dist/pointfinder/klebsiella/ompK37.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,039 copying staramr/databases/data/dist/pointfinder/klebsiella/parC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,044 copying staramr/databases/data/dist/pointfinder/klebsiella/ramR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,047 copying staramr/databases/data/dist/pointfinder/klebsiella/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:08,052 creating build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,054 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,058 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/Rv0678.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,061 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ahpC_promoter_size_180bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,065 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/alr.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,069 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/drrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,073 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/eis_promoter_size_119bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,077 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embA_promoter_size_115bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,081 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,085 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,089 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,092 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ethA_promoter_size_74bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,096 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ethR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,100 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/fabG1_promoter_size_223bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,103 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/folC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,107 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,111 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gidB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,115 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,119 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gyrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,122 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/idsA2_promoter_size_181bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,126 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/inhA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,130 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/iniA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,134 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/kasA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,138 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/katG_promoter_size_107bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,141 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/nuoA_promoter_size_365bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,145 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/panD.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,149 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/pncA_promoter_size_107bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,153 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,160 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ribD.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,166 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rplC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,170 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpoB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,174 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpoC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,178 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpsA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,182 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpsL.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,185 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rrl.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,189 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rrs.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,193 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/thyA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,197 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/thyX_promoter_size_259bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,201 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/tlyA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,205 copying staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ubiA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:08,208 creating build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,210 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/16S_rRNA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,214 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a1.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,218 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a2.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,222 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a3.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,225 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a4.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,229 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,233 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,237 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,241 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/macAB_promoter_size_225bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,245 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/mtrC_promoter_size_174bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,248 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/mtrR_promoter_size_66bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,252 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/parC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,256 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/penA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,260 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/pilQ.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,264 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/ponA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,267 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/porB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,271 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,276 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/rpsE.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,280 copying staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/rpsJ.fsa -> build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:08,283 creating build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,285 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/CRT.fsa -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,289 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/DHFR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,293 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/DHPS.fsa -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,297 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/K13.fsa -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,301 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/MDR.fsa -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,305 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/PIP.fsa -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,309 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,312 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/config -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,316 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,320 copying staramr/databases/data/dist/pointfinder/plasmodium_falciparum/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:08,324 creating build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,325 copying staramr/databases/data/dist/pointfinder/salmonella/16S_rrsD.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,329 copying staramr/databases/data/dist/pointfinder/salmonella/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,333 copying staramr/databases/data/dist/pointfinder/salmonella/acrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,337 copying staramr/databases/data/dist/pointfinder/salmonella/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,341 copying staramr/databases/data/dist/pointfinder/salmonella/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,344 copying staramr/databases/data/dist/pointfinder/salmonella/gyrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,348 copying staramr/databases/data/dist/pointfinder/salmonella/parC.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,352 copying staramr/databases/data/dist/pointfinder/salmonella/parE.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,356 copying staramr/databases/data/dist/pointfinder/salmonella/pmrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,360 copying staramr/databases/data/dist/pointfinder/salmonella/pmrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,363 copying staramr/databases/data/dist/pointfinder/salmonella/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:08,368 creating build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,369 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/23S.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,373 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/RNA_genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,377 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/dfrB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,381 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/fusA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,384 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/genes.txt -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,388 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/grlA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,392 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/grlB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,396 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/gyrA.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,399 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/ileS.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,403 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/pbp2.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,407 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/pbp4.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,411 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/pbp4_promoter_size_304bp.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,414 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/resistens-overview.txt -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,419 copying staramr/databases/data/dist/pointfinder/staphylococcus_aureus/rpoB.fsa -> build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:08,423 creating build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,424 copying staramr/databases/data/dist/resfinder/.gitignore -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,428 copying staramr/databases/data/dist/resfinder/CHECK-entries.sh -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,432 copying staramr/databases/data/dist/resfinder/INSTALL.py -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,436 copying staramr/databases/data/dist/resfinder/README.md -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,440 copying staramr/databases/data/dist/resfinder/aminoglycoside.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,455 copying staramr/databases/data/dist/resfinder/antibiotic_classes.txt -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,458 copying staramr/databases/data/dist/resfinder/beta-lactam.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,553 copying staramr/databases/data/dist/resfinder/colistin.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,562 copying staramr/databases/data/dist/resfinder/config -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,566 copying staramr/databases/data/dist/resfinder/disinfectant.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,572 copying staramr/databases/data/dist/resfinder/fosfomycin.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,577 copying staramr/databases/data/dist/resfinder/fusidicacid.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,581 copying staramr/databases/data/dist/resfinder/glycopeptide.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,589 copying staramr/databases/data/dist/resfinder/history.txt -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,596 copying staramr/databases/data/dist/resfinder/macrolide.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,608 copying staramr/databases/data/dist/resfinder/nitroimidazole.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,613 copying staramr/databases/data/dist/resfinder/notes.txt -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,621 copying staramr/databases/data/dist/resfinder/oxazolidinone.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,628 copying staramr/databases/data/dist/resfinder/phenicol.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,634 copying staramr/databases/data/dist/resfinder/phenotype_panels.txt -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,638 copying staramr/databases/data/dist/resfinder/phenotypes.txt -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,669 copying staramr/databases/data/dist/resfinder/pseudomonicacid.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,674 copying staramr/databases/data/dist/resfinder/quinolone.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,683 copying staramr/databases/data/dist/resfinder/rifampicin.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,688 copying staramr/databases/data/dist/resfinder/sulphonamide.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,694 copying staramr/databases/data/dist/resfinder/tetracycline.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,710 copying staramr/databases/data/dist/resfinder/trimethoprim.fsa -> build/lib/staramr/databases/data/dist/resfinder 2022-10-18T15:05:08,717 creating build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,719 copying staramr/tests/unit/data/test-Genome-Size-Exactly-Maximum.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,723 copying staramr/tests/unit/data/test-Genome-Size-Exactly-Minimum.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,727 copying staramr/tests/unit/data/test-Genome-Size-Larger-Than-Maximum.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,731 copying staramr/tests/unit/data/test-Genome-Size-Smaller-Than-Minimum.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,734 copying staramr/tests/unit/data/test-Genome-Size-Unaffected-By-Empty-Contigs.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,738 copying staramr/tests/unit/data/test-Genome-Size-Within-Accepted-Range.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,741 copying staramr/tests/unit/data/test-N50-Calculation.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,745 copying staramr/tests/unit/data/test-N50-Exactly-Minimum-Value.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,749 copying staramr/tests/unit/data/test-N50-Much-Larger-Than-Minimum-Value.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,753 copying staramr/tests/unit/data/test-N50-One-BP-Larger-Than-Minimum-Value.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,757 copying staramr/tests/unit/data/test-N50-Smaller-Than-Minimum-Value.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,762 copying staramr/tests/unit/data/test-N50-Unaffected-By-Empty-Contigs.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,766 copying staramr/tests/unit/data/test-NC-Exactly-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,769 copying staramr/tests/unit/data/test-NC-One-Under-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,773 copying staramr/tests/unit/data/test-NC-Unacceptable-By-Empty-Contigs.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,777 copying staramr/tests/unit/data/test-NCO-Much-Higher-Than-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,784 copying staramr/tests/unit/data/test-NCO-Much-Lower-Than-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,789 copying staramr/tests/unit/data/test-NCO-One-Under-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,792 copying staramr/tests/unit/data/test-NCU-Exactly-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,796 copying staramr/tests/unit/data/test-NCU-Much-Higher-Than-Unacceptable.fasta -> build/lib/staramr/tests/unit/data 2022-10-18T15:05:08,800 creating build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,802 copying staramr/tests/integration/data/16S-rc_gyrA-rc_beta-lactam.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,807 copying staramr/tests/integration/data/16S_gyrA_beta-lactam.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,812 copying staramr/tests/integration/data/16S_rrsD-1T1065.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,815 copying staramr/tests/integration/data/23S-A2075G.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,819 copying staramr/tests/integration/data/ahpC_promoter_size_180bp-F10I.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,823 copying staramr/tests/integration/data/ampC_promoter_size_53bp-Cn42T.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,827 copying staramr/tests/integration/data/ampC_promoter_size_53bp-n13insG.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,831 copying staramr/tests/integration/data/ampC_promoter_size_53bp-n16insGT.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,834 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-del-middle-rc.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,838 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-del-middle.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,842 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-del-start.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,845 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-ins-middle.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,849 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-ins-start.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,853 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2-two-copies-one-rev-complement.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,856 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2-two-copies.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,860 copying staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,864 copying staramr/tests/integration/data/gyrA-A67P-del-end.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,868 copying staramr/tests/integration/data/gyrA-A67P-rc.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,871 copying staramr/tests/integration/data/gyrA-A67P.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,875 copying staramr/tests/integration/data/gyrA-A67T.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,879 copying staramr/tests/integration/data/gyrA-A70T.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,883 copying staramr/tests/integration/data/gyrA-S83I.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,886 copying staramr/tests/integration/data/gyrA-S83R.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,890 copying staramr/tests/integration/data/gyrA-S97N.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,895 copying staramr/tests/integration/data/mtrR_promoter_size_66bp-n57del.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,898 copying staramr/tests/integration/data/non-match.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,902 copying staramr/tests/integration/data/pbp5-ins-466.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,905 copying staramr/tests/integration/data/pbp5-ins465S.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,909 copying staramr/tests/integration/data/resfinder_beta-lactam-blaIMP-42-del-middle.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,913 copying staramr/tests/integration/data/rpsE-del78gtt.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,916 copying staramr/tests/integration/data/test-aminoglycoside.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,920 copying staramr/tests/integration/data/test-detailed-summary.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,924 copying staramr/tests/integration/data/test-index-range-plasmid.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,927 copying staramr/tests/integration/data/test-mlst-summary.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,931 copying staramr/tests/integration/data/test-plasmids-seq.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,935 copying staramr/tests/integration/data/test-resfinder-correct-seq.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,939 copying staramr/tests/integration/data/test-resistance-plasmid.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,943 copying staramr/tests/integration/data/test-seq-id.fsa -> build/lib/staramr/tests/integration/data 2022-10-18T15:05:08,947 creating build/lib/staramr/tests/integration/data/gene-drug-tables 2022-10-18T15:05:08,948 copying staramr/tests/integration/data/gene-drug-tables/drug_key_pointfinder_invalid.tsv -> build/lib/staramr/tests/integration/data/gene-drug-tables 2022-10-18T15:05:08,952 copying staramr/tests/integration/data/gene-drug-tables/drug_key_resfinder_invalid.tsv -> build/lib/staramr/tests/integration/data/gene-drug-tables 2022-10-18T15:05:08,956 creating build/lib/staramr/databases/exclude/data 2022-10-18T15:05:08,958 copying staramr/databases/exclude/data/genes_to_exclude.tsv -> build/lib/staramr/databases/exclude/data 2022-10-18T15:05:08,962 creating build/lib/staramr/databases/resistance/data 2022-10-18T15:05:08,963 copying staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv -> build/lib/staramr/databases/resistance/data 2022-10-18T15:05:08,968 copying staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv -> build/lib/staramr/databases/resistance/data 2022-10-18T15:05:08,981 copying staramr/databases/resistance/data/info.ini -> build/lib/staramr/databases/resistance/data 2022-10-18T15:05:09,023 running build_scripts 2022-10-18T15:05:09,024 creating build/scripts-3.7 2022-10-18T15:05:09,026 copying and adjusting bin/staramr -> build/scripts-3.7 2022-10-18T15:05:09,028 changing mode of build/scripts-3.7/staramr from 644 to 755 2022-10-18T15:05:09,770 /usr/local/lib/python3.7/dist-packages/setuptools/command/install.py:37: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. 2022-10-18T15:05:09,771 setuptools.SetuptoolsDeprecationWarning, 2022-10-18T15:05:10,520 installing to build/bdist.linux-armv7l/wheel 2022-10-18T15:05:10,521 running install 2022-10-18T15:05:10,583 running install_lib 2022-10-18T15:05:11,332 creating build/bdist.linux-armv7l 2022-10-18T15:05:11,333 creating build/bdist.linux-armv7l/wheel 2022-10-18T15:05:11,336 creating build/bdist.linux-armv7l/wheel/staramr 2022-10-18T15:05:11,339 creating build/bdist.linux-armv7l/wheel/staramr/results 2022-10-18T15:05:11,341 copying build/lib/staramr/results/QualityModule.py -> build/bdist.linux-armv7l/wheel/staramr/results 2022-10-18T15:05:11,346 copying build/lib/staramr/results/AMRDetectionSummaryResistance.py -> build/bdist.linux-armv7l/wheel/staramr/results 2022-10-18T15:05:11,350 copying build/lib/staramr/results/AMRDetectionSummary.py -> build/bdist.linux-armv7l/wheel/staramr/results 2022-10-18T15:05:11,354 copying build/lib/staramr/results/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/results 2022-10-18T15:05:11,358 creating build/bdist.linux-armv7l/wheel/staramr/detection 2022-10-18T15:05:11,359 copying build/lib/staramr/detection/AMRDetection.py -> build/bdist.linux-armv7l/wheel/staramr/detection 2022-10-18T15:05:11,364 copying build/lib/staramr/detection/AMRDetectionResistance.py -> build/bdist.linux-armv7l/wheel/staramr/detection 2022-10-18T15:05:11,368 copying build/lib/staramr/detection/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/detection 2022-10-18T15:05:11,371 copying build/lib/staramr/detection/AMRDetectionFactory.py -> build/bdist.linux-armv7l/wheel/staramr/detection 2022-10-18T15:05:11,375 creating build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,377 copying build/lib/staramr/exceptions/CommandParseException.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,380 copying build/lib/staramr/exceptions/GenotypePhenotypeMatchException.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,384 copying build/lib/staramr/exceptions/DatabaseNotFoundException.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,387 copying build/lib/staramr/exceptions/InvalidPositionException.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,391 copying build/lib/staramr/exceptions/DatabaseErrorException.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,394 copying build/lib/staramr/exceptions/BlastProcessError.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,397 copying build/lib/staramr/exceptions/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/exceptions 2022-10-18T15:05:11,401 creating build/bdist.linux-armv7l/wheel/staramr/tests 2022-10-18T15:05:11,403 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit 2022-10-18T15:05:11,406 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/results 2022-10-18T15:05:11,408 copying build/lib/staramr/tests/unit/results/test_AMRDetectionSummary.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/results 2022-10-18T15:05:11,415 copying build/lib/staramr/tests/unit/results/test_AMRDetectionSummaryResistance.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/results 2022-10-18T15:05:11,419 copying build/lib/staramr/tests/unit/results/test_QualityModule.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/results 2022-10-18T15:05:11,424 copying build/lib/staramr/tests/unit/results/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/results 2022-10-18T15:05:11,428 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast 2022-10-18T15:05:11,430 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results 2022-10-18T15:05:11,433 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:11,435 copying build/lib/staramr/tests/unit/blast/results/pointfinder/test_PointfinderHitHSP.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:11,440 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,442 copying build/lib/staramr/tests/unit/blast/results/pointfinder/nucleotide/test_NucleotideMutationPosition.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,446 copying build/lib/staramr/tests/unit/blast/results/pointfinder/nucleotide/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,449 copying build/lib/staramr/tests/unit/blast/results/pointfinder/test_PlasmidfinderHitHSP.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:11,454 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder/codon 2022-10-18T15:05:11,455 copying build/lib/staramr/tests/unit/blast/results/pointfinder/codon/test_CodonMutationPosition.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder/codon 2022-10-18T15:05:11,462 copying build/lib/staramr/tests/unit/blast/results/pointfinder/codon/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder/codon 2022-10-18T15:05:11,465 copying build/lib/staramr/tests/unit/blast/results/pointfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results/pointfinder 2022-10-18T15:05:11,467 copying build/lib/staramr/tests/unit/blast/results/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results 2022-10-18T15:05:11,470 copying build/lib/staramr/tests/unit/blast/results/test_BlastHitPartitions.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/results 2022-10-18T15:05:11,477 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/pointfinder 2022-10-18T15:05:11,479 copying build/lib/staramr/tests/unit/blast/pointfinder/test_PointfinderDatabaseInfo.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/pointfinder 2022-10-18T15:05:11,484 copying build/lib/staramr/tests/unit/blast/pointfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast/pointfinder 2022-10-18T15:05:11,487 copying build/lib/staramr/tests/unit/blast/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/blast 2022-10-18T15:05:11,491 creating build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,493 copying build/lib/staramr/tests/unit/data/test-N50-One-BP-Larger-Than-Minimum-Value.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,497 copying build/lib/staramr/tests/unit/data/test-NCO-Much-Higher-Than-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,503 copying build/lib/staramr/tests/unit/data/test-NCO-One-Under-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,507 copying build/lib/staramr/tests/unit/data/test-NCO-Much-Lower-Than-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,510 copying build/lib/staramr/tests/unit/data/test-NC-One-Under-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,513 copying build/lib/staramr/tests/unit/data/test-N50-Smaller-Than-Minimum-Value.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,517 copying build/lib/staramr/tests/unit/data/test-Genome-Size-Exactly-Maximum.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,520 copying build/lib/staramr/tests/unit/data/test-Genome-Size-Larger-Than-Maximum.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,524 copying build/lib/staramr/tests/unit/data/test-Genome-Size-Unaffected-By-Empty-Contigs.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,527 copying build/lib/staramr/tests/unit/data/test-NCU-Exactly-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,530 copying build/lib/staramr/tests/unit/data/test-N50-Much-Larger-Than-Minimum-Value.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,534 copying build/lib/staramr/tests/unit/data/test-NCU-Much-Higher-Than-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,537 copying build/lib/staramr/tests/unit/data/test-NC-Exactly-Unacceptable.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,541 copying build/lib/staramr/tests/unit/data/test-Genome-Size-Within-Accepted-Range.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,544 copying build/lib/staramr/tests/unit/data/test-N50-Exactly-Minimum-Value.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,547 copying build/lib/staramr/tests/unit/data/test-Genome-Size-Smaller-Than-Minimum.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,550 copying build/lib/staramr/tests/unit/data/test-NC-Unacceptable-By-Empty-Contigs.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,554 copying build/lib/staramr/tests/unit/data/test-Genome-Size-Exactly-Minimum.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,557 copying build/lib/staramr/tests/unit/data/test-N50-Calculation.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,560 copying build/lib/staramr/tests/unit/data/test-N50-Unaffected-By-Empty-Contigs.fasta -> build/bdist.linux-armv7l/wheel/staramr/tests/unit/data 2022-10-18T15:05:11,564 copying build/lib/staramr/tests/unit/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/unit 2022-10-18T15:05:11,567 creating build/bdist.linux-armv7l/wheel/staramr/tests/integration 2022-10-18T15:05:11,570 creating build/bdist.linux-armv7l/wheel/staramr/tests/integration/detection 2022-10-18T15:05:11,571 copying build/lib/staramr/tests/integration/detection/test_AMRDetection.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/detection 2022-10-18T15:05:11,580 copying build/lib/staramr/tests/integration/detection/test_AMRDetectionPlasmid.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/detection 2022-10-18T15:05:11,584 copying build/lib/staramr/tests/integration/detection/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/detection 2022-10-18T15:05:11,587 copying build/lib/staramr/tests/integration/detection/test_AMRDetectionMLST.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/detection 2022-10-18T15:05:11,593 creating build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,594 copying build/lib/staramr/tests/integration/data/gyrA-S97N.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,598 copying build/lib/staramr/tests/integration/data/test-seq-id.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,601 copying build/lib/staramr/tests/integration/data/test-mlst-summary.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,605 copying build/lib/staramr/tests/integration/data/16S-rc_gyrA-rc_beta-lactam.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,610 creating build/bdist.linux-armv7l/wheel/staramr/tests/integration/data/gene-drug-tables 2022-10-18T15:05:11,611 copying build/lib/staramr/tests/integration/data/gene-drug-tables/drug_key_pointfinder_invalid.tsv -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data/gene-drug-tables 2022-10-18T15:05:11,614 copying build/lib/staramr/tests/integration/data/gene-drug-tables/drug_key_resfinder_invalid.tsv -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data/gene-drug-tables 2022-10-18T15:05:11,618 copying build/lib/staramr/tests/integration/data/ampC_promoter_size_53bp-n13insG.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,621 copying build/lib/staramr/tests/integration/data/pbp5-ins-466.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,624 copying build/lib/staramr/tests/integration/data/16S_rrsD-1T1065.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,627 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2-two-copies-one-rev-complement.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,631 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,634 copying build/lib/staramr/tests/integration/data/rpsE-del78gtt.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,637 copying build/lib/staramr/tests/integration/data/non-match.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,640 copying build/lib/staramr/tests/integration/data/test-index-range-plasmid.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,643 copying build/lib/staramr/tests/integration/data/ampC_promoter_size_53bp-Cn42T.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,646 copying build/lib/staramr/tests/integration/data/test-aminoglycoside.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,649 copying build/lib/staramr/tests/integration/data/gyrA-S83R.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,652 copying build/lib/staramr/tests/integration/data/ampC_promoter_size_53bp-n16insGT.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,656 copying build/lib/staramr/tests/integration/data/gyrA-A67P.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,659 copying build/lib/staramr/tests/integration/data/gyrA-A67T.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,663 copying build/lib/staramr/tests/integration/data/test-resfinder-correct-seq.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,667 copying build/lib/staramr/tests/integration/data/test-detailed-summary.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,670 copying build/lib/staramr/tests/integration/data/ahpC_promoter_size_180bp-F10I.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,673 copying build/lib/staramr/tests/integration/data/test-resistance-plasmid.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,676 copying build/lib/staramr/tests/integration/data/test-plasmids-seq.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,679 copying build/lib/staramr/tests/integration/data/gyrA-A67P-rc.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,683 copying build/lib/staramr/tests/integration/data/pbp5-ins465S.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,686 copying build/lib/staramr/tests/integration/data/gyrA-A67P-del-end.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,689 copying build/lib/staramr/tests/integration/data/16S_gyrA_beta-lactam.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,693 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-del-middle.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,696 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-ins-middle.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,699 copying build/lib/staramr/tests/integration/data/gyrA-S83I.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,703 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-del-middle-rc.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,706 copying build/lib/staramr/tests/integration/data/resfinder_beta-lactam-blaIMP-42-del-middle.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,709 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2-two-copies.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,712 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-del-start.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,715 copying build/lib/staramr/tests/integration/data/mtrR_promoter_size_66bp-n57del.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,718 copying build/lib/staramr/tests/integration/data/gyrA-A70T.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,721 copying build/lib/staramr/tests/integration/data/beta-lactam-blaIMP-42-ins-start.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,725 copying build/lib/staramr/tests/integration/data/23S-A2075G.fsa -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/data 2022-10-18T15:05:11,729 creating build/bdist.linux-armv7l/wheel/staramr/tests/integration/databases 2022-10-18T15:05:11,730 copying build/lib/staramr/tests/integration/databases/test_BlastDatabaseRepositories.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/databases 2022-10-18T15:05:11,735 copying build/lib/staramr/tests/integration/databases/test_AMRDatabasesManager.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/databases 2022-10-18T15:05:11,739 copying build/lib/staramr/tests/integration/databases/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration/databases 2022-10-18T15:05:11,741 copying build/lib/staramr/tests/integration/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests/integration 2022-10-18T15:05:11,744 copying build/lib/staramr/tests/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/tests 2022-10-18T15:05:11,748 creating build/bdist.linux-armv7l/wheel/staramr/blast 2022-10-18T15:05:11,750 creating build/bdist.linux-armv7l/wheel/staramr/blast/plasmidfinder 2022-10-18T15:05:11,752 copying build/lib/staramr/blast/plasmidfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/plasmidfinder 2022-10-18T15:05:11,756 copying build/lib/staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py -> build/bdist.linux-armv7l/wheel/staramr/blast/plasmidfinder 2022-10-18T15:05:11,760 creating build/bdist.linux-armv7l/wheel/staramr/blast/results 2022-10-18T15:05:11,763 creating build/bdist.linux-armv7l/wheel/staramr/blast/results/plasmidfinder 2022-10-18T15:05:11,764 copying build/lib/staramr/blast/results/plasmidfinder/PlasmidfinderHitHSP.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/plasmidfinder 2022-10-18T15:05:11,768 copying build/lib/staramr/blast/results/plasmidfinder/BlastResultsParserPlasmidfinderResistance.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/plasmidfinder 2022-10-18T15:05:11,771 copying build/lib/staramr/blast/results/plasmidfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/plasmidfinder 2022-10-18T15:05:11,774 copying build/lib/staramr/blast/results/plasmidfinder/BlastResultsParserPlasmidfinder.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/plasmidfinder 2022-10-18T15:05:11,778 creating build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder 2022-10-18T15:05:11,780 copying build/lib/staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder 2022-10-18T15:05:11,784 creating build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,786 copying build/lib/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,790 copying build/lib/staramr/blast/results/pointfinder/nucleotide/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,792 copying build/lib/staramr/blast/results/pointfinder/nucleotide/NucleotideMutationPosition.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,796 copying build/lib/staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/nucleotide 2022-10-18T15:05:11,799 copying build/lib/staramr/blast/results/pointfinder/MutationPosition.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder 2022-10-18T15:05:11,802 copying build/lib/staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder 2022-10-18T15:05:11,808 creating build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:11,809 copying build/lib/staramr/blast/results/pointfinder/codon/CodonInsertionPosition.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:11,812 copying build/lib/staramr/blast/results/pointfinder/codon/CodonMutationPosition.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:11,817 copying build/lib/staramr/blast/results/pointfinder/codon/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder/codon 2022-10-18T15:05:11,819 copying build/lib/staramr/blast/results/pointfinder/PointfinderHitHSP.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder 2022-10-18T15:05:11,822 copying build/lib/staramr/blast/results/pointfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/pointfinder 2022-10-18T15:05:11,825 copying build/lib/staramr/blast/results/AMRHitHSP.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results 2022-10-18T15:05:11,829 copying build/lib/staramr/blast/results/BlastHitPartitions.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results 2022-10-18T15:05:11,833 creating build/bdist.linux-armv7l/wheel/staramr/blast/results/resfinder 2022-10-18T15:05:11,835 copying build/lib/staramr/blast/results/resfinder/BlastResultsParserResfinderResistance.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/resfinder 2022-10-18T15:05:11,838 copying build/lib/staramr/blast/results/resfinder/ResfinderHitHSP.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/resfinder 2022-10-18T15:05:11,841 copying build/lib/staramr/blast/results/resfinder/BlastResultsParserResfinder.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/resfinder 2022-10-18T15:05:11,844 copying build/lib/staramr/blast/results/resfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results/resfinder 2022-10-18T15:05:11,847 copying build/lib/staramr/blast/results/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results 2022-10-18T15:05:11,849 copying build/lib/staramr/blast/results/BlastResultsParser.py -> build/bdist.linux-armv7l/wheel/staramr/blast/results 2022-10-18T15:05:11,854 creating build/bdist.linux-armv7l/wheel/staramr/blast/pointfinder 2022-10-18T15:05:11,855 copying build/lib/staramr/blast/pointfinder/PointfinderBlastDatabase.py -> build/bdist.linux-armv7l/wheel/staramr/blast/pointfinder 2022-10-18T15:05:11,859 copying build/lib/staramr/blast/pointfinder/PointfinderDatabaseInfo.py -> build/bdist.linux-armv7l/wheel/staramr/blast/pointfinder 2022-10-18T15:05:11,864 copying build/lib/staramr/blast/pointfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/pointfinder 2022-10-18T15:05:11,866 copying build/lib/staramr/blast/JobHandler.py -> build/bdist.linux-armv7l/wheel/staramr/blast 2022-10-18T15:05:11,871 creating build/bdist.linux-armv7l/wheel/staramr/blast/resfinder 2022-10-18T15:05:11,872 copying build/lib/staramr/blast/resfinder/ResfinderBlastDatabase.py -> build/bdist.linux-armv7l/wheel/staramr/blast/resfinder 2022-10-18T15:05:11,876 copying build/lib/staramr/blast/resfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast/resfinder 2022-10-18T15:05:11,878 copying build/lib/staramr/blast/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/blast 2022-10-18T15:05:11,881 copying build/lib/staramr/blast/AbstractBlastDatabase.py -> build/bdist.linux-armv7l/wheel/staramr/blast 2022-10-18T15:05:11,884 copying build/lib/staramr/SubCommand.py -> build/bdist.linux-armv7l/wheel/staramr 2022-10-18T15:05:11,888 creating build/bdist.linux-armv7l/wheel/staramr/databases 2022-10-18T15:05:11,889 copying build/lib/staramr/databases/BlastDatabaseRepository.py -> build/bdist.linux-armv7l/wheel/staramr/databases 2022-10-18T15:05:11,894 creating build/bdist.linux-armv7l/wheel/staramr/databases/exclude 2022-10-18T15:05:11,897 creating build/bdist.linux-armv7l/wheel/staramr/databases/exclude/data 2022-10-18T15:05:11,898 copying build/lib/staramr/databases/exclude/data/genes_to_exclude.tsv -> build/bdist.linux-armv7l/wheel/staramr/databases/exclude/data 2022-10-18T15:05:11,902 copying build/lib/staramr/databases/exclude/ExcludeGenesList.py -> build/bdist.linux-armv7l/wheel/staramr/databases/exclude 2022-10-18T15:05:11,905 copying build/lib/staramr/databases/exclude/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/databases/exclude 2022-10-18T15:05:11,907 copying build/lib/staramr/databases/BlastDatabaseRepositories.py -> build/bdist.linux-armv7l/wheel/staramr/databases 2022-10-18T15:05:11,912 creating build/bdist.linux-armv7l/wheel/staramr/databases/data 2022-10-18T15:05:11,915 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist 2022-10-18T15:05:11,918 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,919 copying build/lib/staramr/databases/data/dist/plasmidfinder/.gitignore -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,923 copying build/lib/staramr/databases/data/dist/plasmidfinder/RepA_N.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,931 copying build/lib/staramr/databases/data/dist/plasmidfinder/INSTALL.py -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,934 copying build/lib/staramr/databases/data/dist/plasmidfinder/Inc18.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,941 copying build/lib/staramr/databases/data/dist/plasmidfinder/NT_Rep.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,946 copying build/lib/staramr/databases/data/dist/plasmidfinder/Rep_trans.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,951 copying build/lib/staramr/databases/data/dist/plasmidfinder/config -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,954 copying build/lib/staramr/databases/data/dist/plasmidfinder/Rep2.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,959 copying build/lib/staramr/databases/data/dist/plasmidfinder/RepL.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,962 copying build/lib/staramr/databases/data/dist/plasmidfinder/Rep3.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,970 copying build/lib/staramr/databases/data/dist/plasmidfinder/enterobacteriales.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,977 copying build/lib/staramr/databases/data/dist/plasmidfinder/Rep1.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/plasmidfinder 2022-10-18T15:05:11,985 copying build/lib/staramr/databases/data/dist/resfinder-info.ini -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist 2022-10-18T15:05:11,989 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:11,992 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:11,993 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/rpoB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:11,997 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/pbp4_promoter_size_304bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,000 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/dfrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,003 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,006 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,009 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/pbp2.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,013 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,017 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/pbp4.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,020 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,023 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/grlB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,026 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/fusA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,029 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/grlA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,033 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/ileS.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,036 copying build/lib/staramr/databases/data/dist/pointfinder/staphylococcus_aureus/23S.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/staphylococcus_aureus 2022-10-18T15:05:12,041 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,042 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/16S_rrsD.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,046 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/pmrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,049 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,052 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,056 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/parE.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,059 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,063 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,066 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/gyrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,070 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/pmrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,073 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/parC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,076 copying build/lib/staramr/databases/data/dist/pointfinder/salmonella/acrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/salmonella 2022-10-18T15:05:12,081 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:12,082 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:12,086 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:12,089 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:12,092 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:12,096 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecalis/parC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecalis 2022-10-18T15:05:12,100 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,102 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/PIP.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,105 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,108 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,111 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/DHFR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,115 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/MDR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,119 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,122 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/config -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,125 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/DHPS.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,128 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/K13.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,132 copying build/lib/staramr/databases/data/dist/pointfinder/plasmodium_falciparum/CRT.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/plasmodium_falciparum 2022-10-18T15:05:12,135 copying build/lib/staramr/databases/data/dist/pointfinder/.gitignore -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:12,139 copying build/lib/staramr/databases/data/dist/pointfinder/INSTALL.py -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:12,143 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,145 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/ompK35.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,148 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,151 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,154 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/ramR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,157 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,161 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,165 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/ompK37.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,168 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/acrR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,172 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/parC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,176 copying build/lib/staramr/databases/data/dist/pointfinder/klebsiella/ompK36.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/klebsiella 2022-10-18T15:05:12,181 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:12,183 copying build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori/rpoB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:12,188 copying build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:12,191 copying build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:12,195 copying build/lib/staramr/databases/data/dist/pointfinder/helicobacter_pylori/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/helicobacter_pylori 2022-10-18T15:05:12,200 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,202 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,207 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium/pbp5.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,211 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,214 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,218 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,222 copying build/lib/staramr/databases/data/dist/pointfinder/enterococcus_faecium/parC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/enterococcus_faecium 2022-10-18T15:05:12,226 copying build/lib/staramr/databases/data/dist/pointfinder/README.md -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:12,230 copying build/lib/staramr/databases/data/dist/pointfinder/config -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder 2022-10-18T15:05:12,236 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,238 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpoB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,242 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/thyX_promoter_size_259bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,246 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpsA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,250 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/inhA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,254 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,258 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,262 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ribD.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,267 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,270 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/eis_promoter_size_119bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,275 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gidB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,279 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/thyA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,283 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rrl.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,287 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ethA_promoter_size_74bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,290 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/fabG1_promoter_size_223bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,295 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/alr.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,298 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,302 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rplC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,306 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,314 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/folC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,317 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpsL.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,321 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/pncA_promoter_size_107bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,324 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,327 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/iniA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,330 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ethR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,334 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/kasA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,337 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,340 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gyrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,343 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpoC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,347 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rrs.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,351 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ahpC_promoter_size_180bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,354 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/Rv0678.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,358 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/tlyA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,361 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/nuoA_promoter_size_365bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,365 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/drrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,368 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embA_promoter_size_115bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,371 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ubiA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,374 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/panD.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,377 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/katG_promoter_size_107bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,380 copying build/lib/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/idsA2_promoter_size_181bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis 2022-10-18T15:05:12,385 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,387 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/16S_rRNA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,390 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a2.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,394 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/ponA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,398 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/mtrC_promoter_size_174bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,401 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,406 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/porB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,409 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,412 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a3.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,416 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/penA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,419 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,423 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a1.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,426 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,430 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/rpsJ.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,433 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/pilQ.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,436 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/rpsE.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,440 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/mtrR_promoter_size_66bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,443 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a4.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,446 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/parC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,449 copying build/lib/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/macAB_promoter_size_225bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae 2022-10-18T15:05:12,454 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,455 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,459 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,462 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,466 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/rpsL.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,469 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/cmeR.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,472 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,476 copying build/lib/staramr/databases/data/dist/pointfinder/campylobacter/23S.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/campylobacter 2022-10-18T15:05:12,480 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,482 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/rpoB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,485 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/pmrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,489 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/gyrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,492 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/ampC_promoter_size_53bp.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,495 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/RNA_genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,499 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/parE.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,502 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,505 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/resistens-overview.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,510 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/genes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,513 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/gyrB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,517 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/pmrA.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,520 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsH.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,524 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/folP.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,527 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsB.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,530 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/parC.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,534 copying build/lib/staramr/databases/data/dist/pointfinder/escherichia_coli/23S.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/pointfinder/escherichia_coli 2022-10-18T15:05:12,537 copying build/lib/staramr/databases/data/dist/plasmidfinder-info.ini -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist 2022-10-18T15:05:12,540 copying build/lib/staramr/databases/data/dist/pointfinder-info.ini -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist 2022-10-18T15:05:12,546 creating build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,547 copying build/lib/staramr/databases/data/dist/resfinder/antibiotic_classes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,551 copying build/lib/staramr/databases/data/dist/resfinder/beta-lactam.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,660 copying build/lib/staramr/databases/data/dist/resfinder/phenotype_panels.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,663 copying build/lib/staramr/databases/data/dist/resfinder/pseudomonicacid.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,667 copying build/lib/staramr/databases/data/dist/resfinder/sulphonamide.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,673 copying build/lib/staramr/databases/data/dist/resfinder/.gitignore -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,676 copying build/lib/staramr/databases/data/dist/resfinder/glycopeptide.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,685 copying build/lib/staramr/databases/data/dist/resfinder/nitroimidazole.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,688 copying build/lib/staramr/databases/data/dist/resfinder/INSTALL.py -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,692 copying build/lib/staramr/databases/data/dist/resfinder/notes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,701 copying build/lib/staramr/databases/data/dist/resfinder/colistin.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,710 copying build/lib/staramr/databases/data/dist/resfinder/rifampicin.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,714 copying build/lib/staramr/databases/data/dist/resfinder/quinolone.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,724 copying build/lib/staramr/databases/data/dist/resfinder/phenotypes.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,759 copying build/lib/staramr/databases/data/dist/resfinder/tetracycline.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,774 copying build/lib/staramr/databases/data/dist/resfinder/oxazolidinone.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,780 copying build/lib/staramr/databases/data/dist/resfinder/phenicol.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,786 copying build/lib/staramr/databases/data/dist/resfinder/macrolide.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,799 copying build/lib/staramr/databases/data/dist/resfinder/CHECK-entries.sh -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,802 copying build/lib/staramr/databases/data/dist/resfinder/README.md -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,806 copying build/lib/staramr/databases/data/dist/resfinder/history.txt -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,811 copying build/lib/staramr/databases/data/dist/resfinder/fusidicacid.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,815 copying build/lib/staramr/databases/data/dist/resfinder/fosfomycin.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,819 copying build/lib/staramr/databases/data/dist/resfinder/trimethoprim.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,826 copying build/lib/staramr/databases/data/dist/resfinder/config -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,830 copying build/lib/staramr/databases/data/dist/resfinder/disinfectant.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,836 copying build/lib/staramr/databases/data/dist/resfinder/aminoglycoside.fsa -> build/bdist.linux-armv7l/wheel/staramr/databases/data/dist/resfinder 2022-10-18T15:05:12,850 copying build/lib/staramr/databases/AMRDatabasesManager.py -> build/bdist.linux-armv7l/wheel/staramr/databases 2022-10-18T15:05:12,855 creating build/bdist.linux-armv7l/wheel/staramr/databases/resistance 2022-10-18T15:05:12,858 creating build/bdist.linux-armv7l/wheel/staramr/databases/resistance/pointfinder 2022-10-18T15:05:12,860 copying build/lib/staramr/databases/resistance/pointfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/pointfinder 2022-10-18T15:05:12,864 copying build/lib/staramr/databases/resistance/pointfinder/ARGDrugTablePointfinder.py -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/pointfinder 2022-10-18T15:05:12,868 creating build/bdist.linux-armv7l/wheel/staramr/databases/resistance/data 2022-10-18T15:05:12,870 copying build/lib/staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/data 2022-10-18T15:05:12,883 copying build/lib/staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/data 2022-10-18T15:05:12,887 copying build/lib/staramr/databases/resistance/data/info.ini -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/data 2022-10-18T15:05:12,891 creating build/bdist.linux-armv7l/wheel/staramr/databases/resistance/resfinder 2022-10-18T15:05:12,893 copying build/lib/staramr/databases/resistance/resfinder/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/resfinder 2022-10-18T15:05:12,896 copying build/lib/staramr/databases/resistance/resfinder/ARGDrugTableResfinder.py -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance/resfinder 2022-10-18T15:05:12,899 copying build/lib/staramr/databases/resistance/ARGDrugTable.py -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance 2022-10-18T15:05:12,902 copying build/lib/staramr/databases/resistance/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/databases/resistance 2022-10-18T15:05:12,904 copying build/lib/staramr/databases/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/databases 2022-10-18T15:05:12,907 copying build/lib/staramr/__init__.py -> build/bdist.linux-armv7l/wheel/staramr 2022-10-18T15:05:12,911 creating build/bdist.linux-armv7l/wheel/staramr/subcommand 2022-10-18T15:05:12,912 copying build/lib/staramr/subcommand/Search.py -> build/bdist.linux-armv7l/wheel/staramr/subcommand 2022-10-18T15:05:12,919 copying build/lib/staramr/subcommand/__init__.py -> build/bdist.linux-armv7l/wheel/staramr/subcommand 2022-10-18T15:05:12,922 copying build/lib/staramr/subcommand/Database.py -> build/bdist.linux-armv7l/wheel/staramr/subcommand 2022-10-18T15:05:12,926 copying build/lib/staramr/Utils.py -> build/bdist.linux-armv7l/wheel/staramr 2022-10-18T15:05:12,929 running install_egg_info 2022-10-18T15:05:13,688 Copying staramr.egg-info to build/bdist.linux-armv7l/wheel/staramr-0.9.0-py3.7.egg-info 2022-10-18T15:05:13,712 running install_scripts 2022-10-18T15:05:13,823 creating build/bdist.linux-armv7l/wheel/staramr-0.9.0.data 2022-10-18T15:05:13,824 creating build/bdist.linux-armv7l/wheel/staramr-0.9.0.data/scripts 2022-10-18T15:05:13,826 copying build/scripts-3.7/staramr -> build/bdist.linux-armv7l/wheel/staramr-0.9.0.data/scripts 2022-10-18T15:05:13,830 changing mode of build/bdist.linux-armv7l/wheel/staramr-0.9.0.data/scripts/staramr to 755 2022-10-18T15:05:13,938 adding license file "LICENSE" (matched pattern "LICEN[CS]E*") 2022-10-18T15:05:13,939 adding license file "NOTICE" (matched pattern "NOTICE*") 2022-10-18T15:05:13,950 creating build/bdist.linux-armv7l/wheel/staramr-0.9.0.dist-info/WHEEL 2022-10-18T15:05:13,955 creating '/tmp/pip-wheel-cxylqgh6/staramr-0.9.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2022-10-18T15:05:13,960 adding 'staramr/SubCommand.py' 2022-10-18T15:05:13,962 adding 'staramr/Utils.py' 2022-10-18T15:05:13,964 adding 'staramr/__init__.py' 2022-10-18T15:05:13,968 adding 'staramr/blast/AbstractBlastDatabase.py' 2022-10-18T15:05:13,972 adding 'staramr/blast/JobHandler.py' 2022-10-18T15:05:13,974 adding 'staramr/blast/__init__.py' 2022-10-18T15:05:13,978 adding 'staramr/blast/plasmidfinder/PlasmidfinderBlastDatabase.py' 2022-10-18T15:05:13,980 adding 'staramr/blast/plasmidfinder/__init__.py' 2022-10-18T15:05:13,984 adding 'staramr/blast/pointfinder/PointfinderBlastDatabase.py' 2022-10-18T15:05:13,988 adding 'staramr/blast/pointfinder/PointfinderDatabaseInfo.py' 2022-10-18T15:05:13,990 adding 'staramr/blast/pointfinder/__init__.py' 2022-10-18T15:05:13,993 adding 'staramr/blast/resfinder/ResfinderBlastDatabase.py' 2022-10-18T15:05:13,995 adding 'staramr/blast/resfinder/__init__.py' 2022-10-18T15:05:13,999 adding 'staramr/blast/results/AMRHitHSP.py' 2022-10-18T15:05:14,002 adding 'staramr/blast/results/BlastHitPartitions.py' 2022-10-18T15:05:14,005 adding 'staramr/blast/results/BlastResultsParser.py' 2022-10-18T15:05:14,008 adding 'staramr/blast/results/__init__.py' 2022-10-18T15:05:14,011 adding 'staramr/blast/results/plasmidfinder/BlastResultsParserPlasmidfinder.py' 2022-10-18T15:05:14,014 adding 'staramr/blast/results/plasmidfinder/BlastResultsParserPlasmidfinderResistance.py' 2022-10-18T15:05:14,017 adding 'staramr/blast/results/plasmidfinder/PlasmidfinderHitHSP.py' 2022-10-18T15:05:14,019 adding 'staramr/blast/results/plasmidfinder/__init__.py' 2022-10-18T15:05:14,023 adding 'staramr/blast/results/pointfinder/BlastResultsParserPointfinder.py' 2022-10-18T15:05:14,025 adding 'staramr/blast/results/pointfinder/BlastResultsParserPointfinderResistance.py' 2022-10-18T15:05:14,028 adding 'staramr/blast/results/pointfinder/MutationPosition.py' 2022-10-18T15:05:14,030 adding 'staramr/blast/results/pointfinder/PointfinderHitHSP.py' 2022-10-18T15:05:14,033 adding 'staramr/blast/results/pointfinder/__init__.py' 2022-10-18T15:05:14,036 adding 'staramr/blast/results/pointfinder/codon/CodonInsertionPosition.py' 2022-10-18T15:05:14,039 adding 'staramr/blast/results/pointfinder/codon/CodonMutationPosition.py' 2022-10-18T15:05:14,041 adding 'staramr/blast/results/pointfinder/codon/__init__.py' 2022-10-18T15:05:14,045 adding 'staramr/blast/results/pointfinder/nucleotide/NucleotideMutationPosition.py' 2022-10-18T15:05:14,048 adding 'staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPPromoter.py' 2022-10-18T15:05:14,050 adding 'staramr/blast/results/pointfinder/nucleotide/PointfinderHitHSPRNA.py' 2022-10-18T15:05:14,052 adding 'staramr/blast/results/pointfinder/nucleotide/__init__.py' 2022-10-18T15:05:14,056 adding 'staramr/blast/results/resfinder/BlastResultsParserResfinder.py' 2022-10-18T15:05:14,059 adding 'staramr/blast/results/resfinder/BlastResultsParserResfinderResistance.py' 2022-10-18T15:05:14,061 adding 'staramr/blast/results/resfinder/ResfinderHitHSP.py' 2022-10-18T15:05:14,063 adding 'staramr/blast/results/resfinder/__init__.py' 2022-10-18T15:05:14,067 adding 'staramr/databases/AMRDatabasesManager.py' 2022-10-18T15:05:14,071 adding 'staramr/databases/BlastDatabaseRepositories.py' 2022-10-18T15:05:14,074 adding 'staramr/databases/BlastDatabaseRepository.py' 2022-10-18T15:05:14,076 adding 'staramr/databases/__init__.py' 2022-10-18T15:05:14,081 adding 'staramr/databases/data/dist/plasmidfinder-info.ini' 2022-10-18T15:05:14,083 adding 'staramr/databases/data/dist/pointfinder-info.ini' 2022-10-18T15:05:14,085 adding 'staramr/databases/data/dist/resfinder-info.ini' 2022-10-18T15:05:14,092 adding 'staramr/databases/data/dist/plasmidfinder/.gitignore' 2022-10-18T15:05:14,094 adding 'staramr/databases/data/dist/plasmidfinder/INSTALL.py' 2022-10-18T15:05:14,137 adding 'staramr/databases/data/dist/plasmidfinder/Inc18.fsa' 2022-10-18T15:05:14,146 adding 'staramr/databases/data/dist/plasmidfinder/NT_Rep.fsa' 2022-10-18T15:05:14,186 adding 'staramr/databases/data/dist/plasmidfinder/Rep1.fsa' 2022-10-18T15:05:14,200 adding 'staramr/databases/data/dist/plasmidfinder/Rep2.fsa' 2022-10-18T15:05:14,247 adding 'staramr/databases/data/dist/plasmidfinder/Rep3.fsa' 2022-10-18T15:05:14,301 adding 'staramr/databases/data/dist/plasmidfinder/RepA_N.fsa' 2022-10-18T15:05:14,307 adding 'staramr/databases/data/dist/plasmidfinder/RepL.fsa' 2022-10-18T15:05:14,329 adding 'staramr/databases/data/dist/plasmidfinder/Rep_trans.fsa' 2022-10-18T15:05:14,332 adding 'staramr/databases/data/dist/plasmidfinder/config' 2022-10-18T15:05:14,417 adding 'staramr/databases/data/dist/plasmidfinder/enterobacteriales.fsa' 2022-10-18T15:05:14,422 adding 'staramr/databases/data/dist/pointfinder/.gitignore' 2022-10-18T15:05:14,425 adding 'staramr/databases/data/dist/pointfinder/INSTALL.py' 2022-10-18T15:05:14,429 adding 'staramr/databases/data/dist/pointfinder/README.md' 2022-10-18T15:05:14,431 adding 'staramr/databases/data/dist/pointfinder/config' 2022-10-18T15:05:14,435 adding 'staramr/databases/data/dist/pointfinder/campylobacter/23S.fsa' 2022-10-18T15:05:14,438 adding 'staramr/databases/data/dist/pointfinder/campylobacter/RNA_genes.txt' 2022-10-18T15:05:14,440 adding 'staramr/databases/data/dist/pointfinder/campylobacter/cmeR.fsa' 2022-10-18T15:05:14,442 adding 'staramr/databases/data/dist/pointfinder/campylobacter/genes.txt' 2022-10-18T15:05:14,445 adding 'staramr/databases/data/dist/pointfinder/campylobacter/gyrA.fsa' 2022-10-18T15:05:14,447 adding 'staramr/databases/data/dist/pointfinder/campylobacter/resistens-overview.txt' 2022-10-18T15:05:14,449 adding 'staramr/databases/data/dist/pointfinder/campylobacter/rpsL.fsa' 2022-10-18T15:05:14,453 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecalis/RNA_genes.txt' 2022-10-18T15:05:14,455 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecalis/genes.txt' 2022-10-18T15:05:14,458 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecalis/gyrA.fsa' 2022-10-18T15:05:14,461 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecalis/parC.fsa' 2022-10-18T15:05:14,464 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecalis/resistens-overview.txt' 2022-10-18T15:05:14,467 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecium/RNA_genes.txt' 2022-10-18T15:05:14,469 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecium/genes.txt' 2022-10-18T15:05:14,472 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecium/gyrA.fsa' 2022-10-18T15:05:14,475 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecium/parC.fsa' 2022-10-18T15:05:14,478 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecium/pbp5.fsa' 2022-10-18T15:05:14,480 adding 'staramr/databases/data/dist/pointfinder/enterococcus_faecium/resistens-overview.txt' 2022-10-18T15:05:14,484 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsB.fsa' 2022-10-18T15:05:14,487 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsC.fsa' 2022-10-18T15:05:14,489 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/16S_rrsH.fsa' 2022-10-18T15:05:14,492 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/23S.fsa' 2022-10-18T15:05:14,495 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/RNA_genes.txt' 2022-10-18T15:05:14,497 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/ampC_promoter_size_53bp.fsa' 2022-10-18T15:05:14,499 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/folP.fsa' 2022-10-18T15:05:14,501 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/genes.txt' 2022-10-18T15:05:14,504 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/gyrA.fsa' 2022-10-18T15:05:14,507 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/gyrB.fsa' 2022-10-18T15:05:14,510 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/parC.fsa' 2022-10-18T15:05:14,513 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/parE.fsa' 2022-10-18T15:05:14,515 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/pmrA.fsa' 2022-10-18T15:05:14,517 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/pmrB.fsa' 2022-10-18T15:05:14,521 adding 'staramr/databases/data/dist/pointfinder/escherichia_coli/resistens-overview.txt' 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'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/drrA.fsa' 2022-10-18T15:05:14,587 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/eis_promoter_size_119bp.fsa' 2022-10-18T15:05:14,591 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embA_promoter_size_115bp.fsa' 2022-10-18T15:05:14,595 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embB.fsa' 2022-10-18T15:05:14,598 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embC.fsa' 2022-10-18T15:05:14,601 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/embR.fsa' 2022-10-18T15:05:14,603 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ethA_promoter_size_74bp.fsa' 2022-10-18T15:05:14,606 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ethR.fsa' 2022-10-18T15:05:14,608 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/fabG1_promoter_size_223bp.fsa' 2022-10-18T15:05:14,610 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/folC.fsa' 2022-10-18T15:05:14,612 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/genes.txt' 2022-10-18T15:05:14,615 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gidB.fsa' 2022-10-18T15:05:14,618 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gyrA.fsa' 2022-10-18T15:05:14,621 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/gyrB.fsa' 2022-10-18T15:05:14,623 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/idsA2_promoter_size_181bp.fsa' 2022-10-18T15:05:14,625 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/inhA.fsa' 2022-10-18T15:05:14,628 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/iniA.fsa' 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'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpoB.fsa' 2022-10-18T15:05:14,665 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpoC.fsa' 2022-10-18T15:05:14,668 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpsA.fsa' 2022-10-18T15:05:14,670 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rpsL.fsa' 2022-10-18T15:05:14,673 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rrl.fsa' 2022-10-18T15:05:14,676 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/rrs.fsa' 2022-10-18T15:05:14,678 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/thyA.fsa' 2022-10-18T15:05:14,681 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/thyX_promoter_size_259bp.fsa' 2022-10-18T15:05:14,683 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/tlyA.fsa' 2022-10-18T15:05:14,685 adding 'staramr/databases/data/dist/pointfinder/mycobacterium_tuberculosis/ubiA.fsa' 2022-10-18T15:05:14,689 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/16S_rRNA.fsa' 2022-10-18T15:05:14,692 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a1.fsa' 2022-10-18T15:05:14,696 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a2.fsa' 2022-10-18T15:05:14,699 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a3.fsa' 2022-10-18T15:05:14,702 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/23S_rRNA_a4.fsa' 2022-10-18T15:05:14,705 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/RNA_genes.txt' 2022-10-18T15:05:14,707 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/genes.txt' 2022-10-18T15:05:14,710 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/gyrA.fsa' 2022-10-18T15:05:14,714 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/macAB_promoter_size_225bp.fsa' 2022-10-18T15:05:14,716 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/mtrC_promoter_size_174bp.fsa' 2022-10-18T15:05:14,718 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/mtrR_promoter_size_66bp.fsa' 2022-10-18T15:05:14,721 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/parC.fsa' 2022-10-18T15:05:14,724 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/penA.fsa' 2022-10-18T15:05:14,727 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/pilQ.fsa' 2022-10-18T15:05:14,730 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/ponA.fsa' 2022-10-18T15:05:14,732 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/porB.fsa' 2022-10-18T15:05:14,735 adding 'staramr/databases/data/dist/pointfinder/neisseria_gonorrhoeae/resistens-overview.txt' 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'staramr/databases/data/dist/pointfinder/plasmodium_falciparum/config' 2022-10-18T15:05:14,768 adding 'staramr/databases/data/dist/pointfinder/plasmodium_falciparum/genes.txt' 2022-10-18T15:05:14,771 adding 'staramr/databases/data/dist/pointfinder/plasmodium_falciparum/resistens-overview.txt' 2022-10-18T15:05:14,774 adding 'staramr/databases/data/dist/pointfinder/salmonella/16S_rrsD.fsa' 2022-10-18T15:05:14,776 adding 'staramr/databases/data/dist/pointfinder/salmonella/RNA_genes.txt' 2022-10-18T15:05:14,780 adding 'staramr/databases/data/dist/pointfinder/salmonella/acrB.fsa' 2022-10-18T15:05:14,782 adding 'staramr/databases/data/dist/pointfinder/salmonella/genes.txt' 2022-10-18T15:05:14,785 adding 'staramr/databases/data/dist/pointfinder/salmonella/gyrA.fsa' 2022-10-18T15:05:14,788 adding 'staramr/databases/data/dist/pointfinder/salmonella/gyrB.fsa' 2022-10-18T15:05:14,791 adding 'staramr/databases/data/dist/pointfinder/salmonella/parC.fsa' 2022-10-18T15:05:14,794 adding 'staramr/databases/data/dist/pointfinder/salmonella/parE.fsa' 2022-10-18T15:05:14,796 adding 'staramr/databases/data/dist/pointfinder/salmonella/pmrA.fsa' 2022-10-18T15:05:14,798 adding 'staramr/databases/data/dist/pointfinder/salmonella/pmrB.fsa' 2022-10-18T15:05:14,802 adding 'staramr/databases/data/dist/pointfinder/salmonella/resistens-overview.txt' 2022-10-18T15:05:14,807 adding 'staramr/databases/data/dist/pointfinder/staphylococcus_aureus/23S.fsa' 2022-10-18T15:05:14,809 adding 'staramr/databases/data/dist/pointfinder/staphylococcus_aureus/RNA_genes.txt' 2022-10-18T15:05:14,811 adding 'staramr/databases/data/dist/pointfinder/staphylococcus_aureus/dfrB.fsa' 2022-10-18T15:05:14,814 adding 'staramr/databases/data/dist/pointfinder/staphylococcus_aureus/fusA.fsa' 2022-10-18T15:05:14,816 adding 'staramr/databases/data/dist/pointfinder/staphylococcus_aureus/genes.txt' 2022-10-18T15:05:14,819 adding 'staramr/databases/data/dist/pointfinder/staphylococcus_aureus/grlA.fsa' 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'staramr/databases/data/dist/resfinder/CHECK-entries.sh' 2022-10-18T15:05:14,852 adding 'staramr/databases/data/dist/resfinder/INSTALL.py' 2022-10-18T15:05:14,856 adding 'staramr/databases/data/dist/resfinder/README.md' 2022-10-18T15:05:15,044 adding 'staramr/databases/data/dist/resfinder/aminoglycoside.fsa' 2022-10-18T15:05:15,050 adding 'staramr/databases/data/dist/resfinder/antibiotic_classes.txt' 2022-10-18T15:05:15,695 adding 'staramr/databases/data/dist/resfinder/beta-lactam.fsa' 2022-10-18T15:05:15,766 adding 'staramr/databases/data/dist/resfinder/colistin.fsa' 2022-10-18T15:05:15,770 adding 'staramr/databases/data/dist/resfinder/config' 2022-10-18T15:05:15,798 adding 'staramr/databases/data/dist/resfinder/disinfectant.fsa' 2022-10-18T15:05:15,815 adding 'staramr/databases/data/dist/resfinder/fosfomycin.fsa' 2022-10-18T15:05:15,818 adding 'staramr/databases/data/dist/resfinder/fusidicacid.fsa' 2022-10-18T15:05:15,892 adding 'staramr/databases/data/dist/resfinder/glycopeptide.fsa' 2022-10-18T15:05:15,911 adding 'staramr/databases/data/dist/resfinder/history.txt' 2022-10-18T15:05:16,084 adding 'staramr/databases/data/dist/resfinder/macrolide.fsa' 2022-10-18T15:05:16,092 adding 'staramr/databases/data/dist/resfinder/nitroimidazole.fsa' 2022-10-18T15:05:16,104 adding 'staramr/databases/data/dist/resfinder/notes.txt' 2022-10-18T15:05:16,117 adding 'staramr/databases/data/dist/resfinder/oxazolidinone.fsa' 2022-10-18T15:05:16,163 adding 'staramr/databases/data/dist/resfinder/phenicol.fsa' 2022-10-18T15:05:16,167 adding 'staramr/databases/data/dist/resfinder/phenotype_panels.txt' 2022-10-18T15:05:16,235 adding 'staramr/databases/data/dist/resfinder/phenotypes.txt' 2022-10-18T15:05:16,252 adding 'staramr/databases/data/dist/resfinder/pseudomonicacid.fsa' 2022-10-18T15:05:16,286 adding 'staramr/databases/data/dist/resfinder/quinolone.fsa' 2022-10-18T15:05:16,292 adding 'staramr/databases/data/dist/resfinder/rifampicin.fsa' 2022-10-18T15:05:16,303 adding 'staramr/databases/data/dist/resfinder/sulphonamide.fsa' 2022-10-18T15:05:16,446 adding 'staramr/databases/data/dist/resfinder/tetracycline.fsa' 2022-10-18T15:05:16,479 adding 'staramr/databases/data/dist/resfinder/trimethoprim.fsa' 2022-10-18T15:05:16,484 adding 'staramr/databases/exclude/ExcludeGenesList.py' 2022-10-18T15:05:16,486 adding 'staramr/databases/exclude/__init__.py' 2022-10-18T15:05:16,489 adding 'staramr/databases/exclude/data/genes_to_exclude.tsv' 2022-10-18T15:05:16,493 adding 'staramr/databases/resistance/ARGDrugTable.py' 2022-10-18T15:05:16,495 adding 'staramr/databases/resistance/__init__.py' 2022-10-18T15:05:16,499 adding 'staramr/databases/resistance/data/ARG_drug_key_pointfinder.tsv' 2022-10-18T15:05:16,535 adding 'staramr/databases/resistance/data/ARG_drug_key_resfinder.tsv' 2022-10-18T15:05:16,541 adding 'staramr/databases/resistance/data/info.ini' 2022-10-18T15:05:16,544 adding 'staramr/databases/resistance/pointfinder/ARGDrugTablePointfinder.py' 2022-10-18T15:05:16,547 adding 'staramr/databases/resistance/pointfinder/__init__.py' 2022-10-18T15:05:16,550 adding 'staramr/databases/resistance/resfinder/ARGDrugTableResfinder.py' 2022-10-18T15:05:16,552 adding 'staramr/databases/resistance/resfinder/__init__.py' 2022-10-18T15:05:16,558 adding 'staramr/detection/AMRDetection.py' 2022-10-18T15:05:16,561 adding 'staramr/detection/AMRDetectionFactory.py' 2022-10-18T15:05:16,564 adding 'staramr/detection/AMRDetectionResistance.py' 2022-10-18T15:05:16,566 adding 'staramr/detection/__init__.py' 2022-10-18T15:05:16,569 adding 'staramr/exceptions/BlastProcessError.py' 2022-10-18T15:05:16,572 adding 'staramr/exceptions/CommandParseException.py' 2022-10-18T15:05:16,574 adding 'staramr/exceptions/DatabaseErrorException.py' 2022-10-18T15:05:16,576 adding 'staramr/exceptions/DatabaseNotFoundException.py' 2022-10-18T15:05:16,578 adding 'staramr/exceptions/GenotypePhenotypeMatchException.py' 2022-10-18T15:05:16,580 adding 'staramr/exceptions/InvalidPositionException.py' 2022-10-18T15:05:16,582 adding 'staramr/exceptions/__init__.py' 2022-10-18T15:05:16,587 adding 'staramr/results/AMRDetectionSummary.py' 2022-10-18T15:05:16,590 adding 'staramr/results/AMRDetectionSummaryResistance.py' 2022-10-18T15:05:16,594 adding 'staramr/results/QualityModule.py' 2022-10-18T15:05:16,596 adding 'staramr/results/__init__.py' 2022-10-18T15:05:16,601 adding 'staramr/subcommand/Database.py' 2022-10-18T15:05:16,609 adding 'staramr/subcommand/Search.py' 2022-10-18T15:05:16,612 adding 'staramr/subcommand/__init__.py' 2022-10-18T15:05:16,615 adding 'staramr/tests/__init__.py' 2022-10-18T15:05:16,618 adding 'staramr/tests/integration/__init__.py' 2022-10-18T15:05:16,625 adding 'staramr/tests/integration/data/16S-rc_gyrA-rc_beta-lactam.fsa' 2022-10-18T15:05:16,630 adding 'staramr/tests/integration/data/16S_gyrA_beta-lactam.fsa' 2022-10-18T15:05:16,633 adding 'staramr/tests/integration/data/16S_rrsD-1T1065.fsa' 2022-10-18T15:05:16,636 adding 'staramr/tests/integration/data/23S-A2075G.fsa' 2022-10-18T15:05:16,639 adding 'staramr/tests/integration/data/ahpC_promoter_size_180bp-F10I.fsa' 2022-10-18T15:05:16,641 adding 'staramr/tests/integration/data/ampC_promoter_size_53bp-Cn42T.fsa' 2022-10-18T15:05:16,643 adding 'staramr/tests/integration/data/ampC_promoter_size_53bp-n13insG.fsa' 2022-10-18T15:05:16,645 adding 'staramr/tests/integration/data/ampC_promoter_size_53bp-n16insGT.fsa' 2022-10-18T15:05:16,647 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-del-middle-rc.fsa' 2022-10-18T15:05:16,649 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-del-middle.fsa' 2022-10-18T15:05:16,651 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-del-start.fsa' 2022-10-18T15:05:16,654 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-ins-middle.fsa' 2022-10-18T15:05:16,656 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-ins-start.fsa' 2022-10-18T15:05:16,659 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2-two-copies-one-rev-complement.fsa' 2022-10-18T15:05:16,661 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2-two-copies.fsa' 2022-10-18T15:05:16,663 adding 'staramr/tests/integration/data/beta-lactam-blaIMP-42-mut-2.fsa' 2022-10-18T15:05:16,666 adding 'staramr/tests/integration/data/gyrA-A67P-del-end.fsa' 2022-10-18T15:05:16,670 adding 'staramr/tests/integration/data/gyrA-A67P-rc.fsa' 2022-10-18T15:05:16,673 adding 'staramr/tests/integration/data/gyrA-A67P.fsa' 2022-10-18T15:05:16,676 adding 'staramr/tests/integration/data/gyrA-A67T.fsa' 2022-10-18T15:05:16,679 adding 'staramr/tests/integration/data/gyrA-A70T.fsa' 2022-10-18T15:05:16,683 adding 'staramr/tests/integration/data/gyrA-S83I.fsa' 2022-10-18T15:05:16,686 adding 'staramr/tests/integration/data/gyrA-S83R.fsa' 2022-10-18T15:05:16,689 adding 'staramr/tests/integration/data/gyrA-S97N.fsa' 2022-10-18T15:05:16,691 adding 'staramr/tests/integration/data/mtrR_promoter_size_66bp-n57del.fsa' 2022-10-18T15:05:16,693 adding 'staramr/tests/integration/data/non-match.fsa' 2022-10-18T15:05:16,696 adding 'staramr/tests/integration/data/pbp5-ins-466.fsa' 2022-10-18T15:05:16,699 adding 'staramr/tests/integration/data/pbp5-ins465S.fsa' 2022-10-18T15:05:16,701 adding 'staramr/tests/integration/data/resfinder_beta-lactam-blaIMP-42-del-middle.fsa' 2022-10-18T15:05:16,703 adding 'staramr/tests/integration/data/rpsE-del78gtt.fsa' 2022-10-18T15:05:16,705 adding 'staramr/tests/integration/data/test-aminoglycoside.fsa' 2022-10-18T15:05:16,708 adding 'staramr/tests/integration/data/test-detailed-summary.fsa' 2022-10-18T15:05:16,710 adding 'staramr/tests/integration/data/test-index-range-plasmid.fsa' 2022-10-18T15:05:16,714 adding 'staramr/tests/integration/data/test-mlst-summary.fsa' 2022-10-18T15:05:16,716 adding 'staramr/tests/integration/data/test-plasmids-seq.fsa' 2022-10-18T15:05:16,721 adding 'staramr/tests/integration/data/test-resfinder-correct-seq.fsa' 2022-10-18T15:05:16,724 adding 'staramr/tests/integration/data/test-resistance-plasmid.fsa' 2022-10-18T15:05:16,726 adding 'staramr/tests/integration/data/test-seq-id.fsa' 2022-10-18T15:05:16,729 adding 'staramr/tests/integration/data/gene-drug-tables/drug_key_pointfinder_invalid.tsv' 2022-10-18T15:05:16,731 adding 'staramr/tests/integration/data/gene-drug-tables/drug_key_resfinder_invalid.tsv' 2022-10-18T15:05:16,734 adding 'staramr/tests/integration/databases/__init__.py' 2022-10-18T15:05:16,737 adding 'staramr/tests/integration/databases/test_AMRDatabasesManager.py' 2022-10-18T15:05:16,740 adding 'staramr/tests/integration/databases/test_BlastDatabaseRepositories.py' 2022-10-18T15:05:16,743 adding 'staramr/tests/integration/detection/__init__.py' 2022-10-18T15:05:16,752 adding 'staramr/tests/integration/detection/test_AMRDetection.py' 2022-10-18T15:05:16,756 adding 'staramr/tests/integration/detection/test_AMRDetectionMLST.py' 2022-10-18T15:05:16,760 adding 'staramr/tests/integration/detection/test_AMRDetectionPlasmid.py' 2022-10-18T15:05:16,763 adding 'staramr/tests/unit/__init__.py' 2022-10-18T15:05:16,767 adding 'staramr/tests/unit/blast/__init__.py' 2022-10-18T15:05:16,770 adding 'staramr/tests/unit/blast/pointfinder/__init__.py' 2022-10-18T15:05:16,772 adding 'staramr/tests/unit/blast/pointfinder/test_PointfinderDatabaseInfo.py' 2022-10-18T15:05:16,775 adding 'staramr/tests/unit/blast/results/__init__.py' 2022-10-18T15:05:16,780 adding 'staramr/tests/unit/blast/results/test_BlastHitPartitions.py' 2022-10-18T15:05:16,783 adding 'staramr/tests/unit/blast/results/pointfinder/__init__.py' 2022-10-18T15:05:16,786 adding 'staramr/tests/unit/blast/results/pointfinder/test_PlasmidfinderHitHSP.py' 2022-10-18T15:05:16,789 adding 'staramr/tests/unit/blast/results/pointfinder/test_PointfinderHitHSP.py' 2022-10-18T15:05:16,792 adding 'staramr/tests/unit/blast/results/pointfinder/codon/__init__.py' 2022-10-18T15:05:16,796 adding 'staramr/tests/unit/blast/results/pointfinder/codon/test_CodonMutationPosition.py' 2022-10-18T15:05:16,799 adding 'staramr/tests/unit/blast/results/pointfinder/nucleotide/__init__.py' 2022-10-18T15:05:16,802 adding 'staramr/tests/unit/blast/results/pointfinder/nucleotide/test_NucleotideMutationPosition.py' 2022-10-18T15:05:16,806 adding 'staramr/tests/unit/data/test-Genome-Size-Exactly-Maximum.fasta' 2022-10-18T15:05:16,808 adding 'staramr/tests/unit/data/test-Genome-Size-Exactly-Minimum.fasta' 2022-10-18T15:05:16,810 adding 'staramr/tests/unit/data/test-Genome-Size-Larger-Than-Maximum.fasta' 2022-10-18T15:05:16,812 adding 'staramr/tests/unit/data/test-Genome-Size-Smaller-Than-Minimum.fasta' 2022-10-18T15:05:16,814 adding 'staramr/tests/unit/data/test-Genome-Size-Unaffected-By-Empty-Contigs.fasta' 2022-10-18T15:05:16,816 adding 'staramr/tests/unit/data/test-Genome-Size-Within-Accepted-Range.fasta' 2022-10-18T15:05:16,818 adding 'staramr/tests/unit/data/test-N50-Calculation.fasta' 2022-10-18T15:05:16,820 adding 'staramr/tests/unit/data/test-N50-Exactly-Minimum-Value.fasta' 2022-10-18T15:05:16,822 adding 'staramr/tests/unit/data/test-N50-Much-Larger-Than-Minimum-Value.fasta' 2022-10-18T15:05:16,825 adding 'staramr/tests/unit/data/test-N50-One-BP-Larger-Than-Minimum-Value.fasta' 2022-10-18T15:05:16,827 adding 'staramr/tests/unit/data/test-N50-Smaller-Than-Minimum-Value.fasta' 2022-10-18T15:05:16,828 adding 'staramr/tests/unit/data/test-N50-Unaffected-By-Empty-Contigs.fasta' 2022-10-18T15:05:16,831 adding 'staramr/tests/unit/data/test-NC-Exactly-Unacceptable.fasta' 2022-10-18T15:05:16,833 adding 'staramr/tests/unit/data/test-NC-One-Under-Unacceptable.fasta' 2022-10-18T15:05:16,835 adding 'staramr/tests/unit/data/test-NC-Unacceptable-By-Empty-Contigs.fasta' 2022-10-18T15:05:16,839 adding 'staramr/tests/unit/data/test-NCO-Much-Higher-Than-Unacceptable.fasta' 2022-10-18T15:05:16,842 adding 'staramr/tests/unit/data/test-NCO-Much-Lower-Than-Unacceptable.fasta' 2022-10-18T15:05:16,844 adding 'staramr/tests/unit/data/test-NCO-One-Under-Unacceptable.fasta' 2022-10-18T15:05:16,847 adding 'staramr/tests/unit/data/test-NCU-Exactly-Unacceptable.fasta' 2022-10-18T15:05:16,849 adding 'staramr/tests/unit/data/test-NCU-Much-Higher-Than-Unacceptable.fasta' 2022-10-18T15:05:16,852 adding 'staramr/tests/unit/results/__init__.py' 2022-10-18T15:05:16,858 adding 'staramr/tests/unit/results/test_AMRDetectionSummary.py' 2022-10-18T15:05:16,861 adding 'staramr/tests/unit/results/test_AMRDetectionSummaryResistance.py' 2022-10-18T15:05:16,865 adding 'staramr/tests/unit/results/test_QualityModule.py' 2022-10-18T15:05:16,870 adding 'staramr-0.9.0.data/scripts/staramr' 2022-10-18T15:05:16,877 adding 'staramr-0.9.0.dist-info/LICENSE' 2022-10-18T15:05:16,879 adding 'staramr-0.9.0.dist-info/METADATA' 2022-10-18T15:05:16,881 adding 'staramr-0.9.0.dist-info/NOTICE' 2022-10-18T15:05:16,882 adding 'staramr-0.9.0.dist-info/WHEEL' 2022-10-18T15:05:16,884 adding 'staramr-0.9.0.dist-info/top_level.txt' 2022-10-18T15:05:16,893 adding 'staramr-0.9.0.dist-info/RECORD' 2022-10-18T15:05:16,943 removing build/bdist.linux-armv7l/wheel 2022-10-18T15:05:17,320 Building wheel for staramr (setup.py): finished with status 'done' 2022-10-18T15:05:17,352 Created wheel for staramr: filename=staramr-0.9.0-py3-none-any.whl size=853545 sha256=647181a8001abed9540dbf957596bba15ef1c644d31d9703370ce48af1f44e6a 2022-10-18T15:05:17,355 Stored in directory: /tmp/pip-ephem-wheel-cache-9yxyyv1k/wheels/cc/75/44/38482aed227d96eb1dbbcfe02e6cd2a670cff245ffc4de04bb 2022-10-18T15:05:17,410 Successfully built staramr 2022-10-18T15:05:17,497 Removed build tracker: '/tmp/pip-build-tracker-splq_tu_'