2025-06-02T14:04:43,412 Created temporary directory: /tmp/pip-build-tracker-jzctkhqi 2025-06-02T14:04:43,413 Initialized build tracking at /tmp/pip-build-tracker-jzctkhqi 2025-06-02T14:04:43,414 Created build tracker: /tmp/pip-build-tracker-jzctkhqi 2025-06-02T14:04:43,414 Entered build tracker: /tmp/pip-build-tracker-jzctkhqi 2025-06-02T14:04:43,415 Created temporary directory: /tmp/pip-wheel-q5b2_ee3 2025-06-02T14:04:43,420 Created temporary directory: /tmp/pip-ephem-wheel-cache-y_wnciml 2025-06-02T14:04:43,474 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-06-02T14:04:43,477 2 location(s) to search for versions of gtdbtk: 2025-06-02T14:04:43,477 * https://pypi.org/simple/gtdbtk/ 2025-06-02T14:04:43,477 * https://www.piwheels.org/simple/gtdbtk/ 2025-06-02T14:04:43,477 Fetching project page and analyzing links: https://pypi.org/simple/gtdbtk/ 2025-06-02T14:04:43,478 Getting page https://pypi.org/simple/gtdbtk/ 2025-06-02T14:04:43,480 Found index url https://pypi.org/simple/ 2025-06-02T14:04:43,707 Fetched page https://pypi.org/simple/gtdbtk/ as application/vnd.pypi.simple.v1+json 2025-06-02T14:04:43,726 Found link https://files.pythonhosted.org/packages/77/1d/a47e727062761ea6108b1be340d24c711131df11415d82cdb30bcb51738b/gtdbtk-0.0.1.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.1 2025-06-02T14:04:43,726 Found link https://files.pythonhosted.org/packages/78/fc/021b3e4fc9fc1a8d8596ccf703ee4f5abd97b496bc714a9bfc69332e913e/gtdbtk-0.0.2.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.2 2025-06-02T14:04:43,727 Found link https://files.pythonhosted.org/packages/b8/55/a62d05d6a2d35a6e9f2247586a77f8033eaeeffb8e8d4db6511252c8a59b/gtdbtk-0.0.3.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.3 2025-06-02T14:04:43,728 Found link https://files.pythonhosted.org/packages/88/3d/2dedbfdce682d2c73aebb1182835889222aecefac4072e205e885b601be5/gtdbtk-0.0.4b0.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.4b0 2025-06-02T14:04:43,728 Found link https://files.pythonhosted.org/packages/e7/21/7b30d68267c9ed81610a37c8fdac4b53f7090f9511d963a54754ec49d521/gtdbtk-0.0.4b1.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.4b1 2025-06-02T14:04:43,729 Found link https://files.pythonhosted.org/packages/d1/f0/970559d46438a2004ccaa4199491188afc1bb13304fb899b26a3530ed841/gtdbtk-0.0.4b2.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.4b2 2025-06-02T14:04:43,730 Found link https://files.pythonhosted.org/packages/e0/47/a9610df19e2bcf2782fc1ee29e5f85452b20a22d6f80581a23e3c0111c52/gtdbtk-0.0.4b3.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.4b3 2025-06-02T14:04:43,730 Found link https://files.pythonhosted.org/packages/bf/f1/ebd7ba5d9ac68fc00ec0f7a69b52111d945a70f836dd4ba975600b088a98/gtdbtk-0.0.5.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.5 2025-06-02T14:04:43,731 Found link https://files.pythonhosted.org/packages/ca/7c/fc51570da6722bd31e310bb1ac218cb9d839dfae5d5e94d0ea3666402812/gtdbtk-0.0.6.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.6 2025-06-02T14:04:43,732 Found link https://files.pythonhosted.org/packages/68/72/fdfc81336d6a94e8f286f562bc265e5d215f653f5d08d91689b6cb69a6cb/gtdbtk-0.0.7.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.7 2025-06-02T14:04:43,732 Found link https://files.pythonhosted.org/packages/00/bb/2c2c4a00d4ca637be0daa7ac6bca99011afa8c42de7148c4e5dd6fc28141/gtdbtk-0.0.8b1.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.0.8b1 2025-06-02T14:04:43,733 Found link https://files.pythonhosted.org/packages/c0/3e/4a7f207340198fb69fe0764236f9cfb562840796cca457317024f1bcfb65/gtdbtk-0.1.0.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.1.0 2025-06-02T14:04:43,734 Found link https://files.pythonhosted.org/packages/5f/c1/f028b36863e2b27d0a4191f4033eec25cfff898abceb97b0ccfa1352e1f0/gtdbtk-0.1.1.tar.gz 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https://files.pythonhosted.org/packages/0a/74/8cbe8afea3aa0f7d6b948210b8937f3edcf541b3212cae2ce6aa560276a9/gtdbtk-0.2.2.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.2.2 2025-06-02T14:04:43,738 Found link https://files.pythonhosted.org/packages/45/de/019db6634299b4086a49646891c9e99347e2908713baa14641e15687e4af/gtdbtk-0.3.0.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.3.0 2025-06-02T14:04:43,738 Found link https://files.pythonhosted.org/packages/6e/46/14181ed7f443fd8f70353250d09c94d2a2d867e68cc687167a8546ef4926/gtdbtk-0.3.1.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.3.1 2025-06-02T14:04:43,739 Found link https://files.pythonhosted.org/packages/91/64/06be7ada30b1895a1205feac310a92929a5e135b5821036632aa36d1354c/gtdbtk-0.3.2.tar.gz (from https://pypi.org/simple/gtdbtk/), version: 0.3.2 2025-06-02T14:04:43,739 Found link https://files.pythonhosted.org/packages/7d/90/a62620e2c5c5799d0271f097a83c356dd7d458bf85651da24a353e93d669/gtdbtk-0.3.3.tar.gz (from 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version: 1.1.0 2025-06-02T14:04:43,743 Found link https://files.pythonhosted.org/packages/68/d0/bcdb38880ed7e0d0ae563c62b1f192b1d77a35a0d00b193f9e5a01817454/gtdbtk-1.1.1.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 1.1.1 2025-06-02T14:04:43,744 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/f3/56/60ff2a296580b4e5741592ad17ca874ba024f7f5c9c225d7cadfb9cfd54f/gtdbtk-1.2.0-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,745 Found link https://files.pythonhosted.org/packages/fd/9d/2060d8cdefde94050a969360e8b1343d6c441b35f57ca3000ec2b8c0c950/gtdbtk-1.2.0.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 1.2.0 2025-06-02T14:04:43,745 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/ef/47/293fd1fa9548d876d0da7f2a99a3784614850d84f9667dc08c1d28a50737/gtdbtk-1.3.0-py3-none-any.whl (from 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https://files.pythonhosted.org/packages/57/13/fc0f865fde7d1732821f7fde3f5ba91081128691bfb31420e1cc580f4cef/gtdbtk-1.4.1-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,749 Found link https://files.pythonhosted.org/packages/a0/e4/c7425e61d690b4eb1d04b586a76b760b11e1be576d0d2baacf0d7b341d21/gtdbtk-1.4.1.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 1.4.1 2025-06-02T14:04:43,750 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/50/13/0a4cca6299f809c1c0e760c735053137c3a4aff2b646b91b121e203203ee/gtdbtk-1.5.0-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,750 Found link https://files.pythonhosted.org/packages/e7/df/64901f44cf635a6bbed28f66a13c7dbe0ac4c29afc28e07cd5d9b1730efe/gtdbtk-1.5.0.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 1.5.0 2025-06-02T14:04:43,751 Skipping link: No 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2025-06-02T14:04:43,754 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/4a/cc/631e798a8f921fc6c504591472e34a04c2868f7ce7fdfc1b3c1cb5a81c05/gtdbtk-1.7.0-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,754 Found link https://files.pythonhosted.org/packages/a0/eb/859b20c3adeb96ca72f242bc31cd30319c2bd6e4d130c13aba0b76d2fe34/gtdbtk-1.7.0.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 1.7.0 2025-06-02T14:04:43,755 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/c5/ac/fd59f08a268eab7c094ee1e9b14004c591c3477b11628c9e08aaad2bbaa6/gtdbtk-2.0.0-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,756 Found link https://files.pythonhosted.org/packages/7e/43/9b3c861f07fa420e9595fdf5f2261c0d1519a01f9e994b6445fb2e263d98/gtdbtk-2.0.0.tar.gz (from https://pypi.org/simple/gtdbtk/) 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https://files.pythonhosted.org/packages/9c/ce/b46fe9815e149aa238471118f5ffb50d67eab2b4c8a94d1fe3a480052166/gtdbtk-2.2.1.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.2.1 2025-06-02T14:04:43,762 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/48/bc/6f4c477f7fe9d4d67abd5a2843c88533570cd482a63e35c1f2589393126f/gtdbtk-2.2.2-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,762 Found link https://files.pythonhosted.org/packages/ee/bb/539be0884928b9906f9a4ffb0118e4501f6f203afda9fe1a5c40b231d150/gtdbtk-2.2.2.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.2.2 2025-06-02T14:04:43,763 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/02/43/0ba90c5591bea3ec5f2340724f0b5a12da4fe2cebe5a79022be66b406917/gtdbtk-2.2.3-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,764 Found link https://files.pythonhosted.org/packages/51/6d/8a161d447e0d3db86dffe2c684272be3969254b056ef819a270a10e5bdbd/gtdbtk-2.2.3.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.2.3 2025-06-02T14:04:43,765 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/a5/32/24f75f992865e4e5c761bb04a48ebc510dd91b9f04d5f1424eb5e4161ac4/gtdbtk-2.2.4-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,765 Found link https://files.pythonhosted.org/packages/70/ee/8ae2325f1f084a901575e9dffe8c8e7dae4bb89df809858983281177c0d1/gtdbtk-2.2.4.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.2.4 2025-06-02T14:04:43,766 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/55/a0/82538604d4f39129c5632cf6d8b26a4b2993e9fd4fecc5f8ca6f0a118be0/gtdbtk-2.2.5-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,767 Found link https://files.pythonhosted.org/packages/29/7b/3aed07a21e615b1b3f0a2fbcf8c7032ffe50d45fd4ffba50f59a12aab20f/gtdbtk-2.2.5.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.2.5 2025-06-02T14:04:43,768 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/f6/a2/877a99121b5cc2071ef2cff154c037418df0dce5d4512ed5eebcac3adff1/gtdbtk-2.2.6-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,768 Found link https://files.pythonhosted.org/packages/43/1d/f650449e249a128023732c98dc8f570d4033d52b81d64e442c0ea49175cc/gtdbtk-2.2.6.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.2.6 2025-06-02T14:04:43,769 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/4e/be/72ff9d9e718e08898e8f9817ae91d06c8364b288d3c082026ddab01ba4e0/gtdbtk-2.3.0-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,770 Found link https://files.pythonhosted.org/packages/17/7f/8e724eb5b29d4a3d73d4530e8c9f18296a1f69fde82d634772ed6f0a267a/gtdbtk-2.3.0.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.3.0 2025-06-02T14:04:43,771 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/34/25/c0306cf86abfa667f94f0d7591b251977b7f7af57ce613217873398bc0e5/gtdbtk-2.3.2-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,771 Found link https://files.pythonhosted.org/packages/5a/4b/2ed5ee6a35a0f9b4ec896e0b796aeb931824d82b9ca236665e5839b9a7a7/gtdbtk-2.3.2.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.3.2 2025-06-02T14:04:43,772 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/3e/df/7409603fc08d111a48ed3399f1f895e7c6929e295d5b1eac44fab61c8990/gtdbtk-2.4.0-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,773 Found link https://files.pythonhosted.org/packages/c6/bd/b66510b12e1b143fcd6fd45a78a8c50cf8750e95d98ebcb5b496421ab279/gtdbtk-2.4.0.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.4.0 2025-06-02T14:04:43,773 Skipping link: No binaries permitted for gtdbtk: https://files.pythonhosted.org/packages/da/51/c225874c4531225f5031b6d583852164334046ba28a62e9a015f4ab75038/gtdbtk-2.4.1-py3-none-any.whl (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6) 2025-06-02T14:04:43,774 Found link https://files.pythonhosted.org/packages/cc/06/89b8f6b9d637f29c6d9e45d837dda960c096b02a130cba4b61ef7629730a/gtdbtk-2.4.1.tar.gz (from https://pypi.org/simple/gtdbtk/) (requires-python:>=3.6), version: 2.4.1 2025-06-02T14:04:43,775 Fetching project page and analyzing links: https://www.piwheels.org/simple/gtdbtk/ 2025-06-02T14:04:43,776 Getting page https://www.piwheels.org/simple/gtdbtk/ 2025-06-02T14:04:43,777 Found index url https://www.piwheels.org/simple/ 2025-06-02T14:04:43,936 WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/gtdbtk/ 2025-06-02T14:04:44,593 WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/gtdbtk/ 2025-06-02T14:04:45,760 WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/gtdbtk/ 2025-06-02T14:04:47,930 WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/gtdbtk/ 2025-06-02T14:04:52,149 WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/gtdbtk/ 2025-06-02T14:04:52,317 Could not fetch URL https://www.piwheels.org/simple/gtdbtk/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/gtdbtk/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping 2025-06-02T14:04:52,319 Skipping link: not a file: https://www.piwheels.org/simple/gtdbtk/ 2025-06-02T14:04:52,320 Skipping link: not a file: https://pypi.org/simple/gtdbtk/ 2025-06-02T14:04:52,347 Given no hashes to check 1 links for project 'gtdbtk': discarding no candidates 2025-06-02T14:04:52,349 Collecting gtdbtk==2.4.1 2025-06-02T14:04:52,351 Created temporary directory: /tmp/pip-unpack-484k6xf4 2025-06-02T14:04:52,703 Downloading gtdbtk-2.4.1.tar.gz (1.7 MB) 2025-06-02T14:04:53,533 Added gtdbtk==2.4.1 from https://files.pythonhosted.org/packages/cc/06/89b8f6b9d637f29c6d9e45d837dda960c096b02a130cba4b61ef7629730a/gtdbtk-2.4.1.tar.gz to build tracker '/tmp/pip-build-tracker-jzctkhqi' 2025-06-02T14:04:53,536 Running setup.py (path:/tmp/pip-wheel-q5b2_ee3/gtdbtk_887b01574e974e95b913059bbfeb4630/setup.py) egg_info for package gtdbtk 2025-06-02T14:04:53,537 Created temporary directory: /tmp/pip-pip-egg-info-prjx12ny 2025-06-02T14:04:53,537 Preparing metadata (setup.py): started 2025-06-02T14:04:53,539 Running command python setup.py egg_info 2025-06-02T14:04:54,427 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-02T14:04:54,428 !! 2025-06-02T14:04:54,429 ******************************************************************************** 2025-06-02T14:04:54,429 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-02T14:04:54,430 License :: OSI Approved :: GNU General Public License v3 (GPLv3) 2025-06-02T14:04:54,431 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-02T14:04:54,432 ******************************************************************************** 2025-06-02T14:04:54,433 !! 2025-06-02T14:04:54,434 self._finalize_license_expression() 2025-06-02T14:04:54,457 running egg_info 2025-06-02T14:04:54,485 creating /tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info 2025-06-02T14:04:54,487 writing /tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/PKG-INFO 2025-06-02T14:04:54,490 writing dependency_links to /tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/dependency_links.txt 2025-06-02T14:04:54,492 writing entry points to /tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/entry_points.txt 2025-06-02T14:04:54,493 writing requirements to /tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/requires.txt 2025-06-02T14:04:54,494 writing top-level names to /tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/top_level.txt 2025-06-02T14:04:54,496 writing manifest file '/tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/SOURCES.txt' 2025-06-02T14:04:54,637 reading manifest file '/tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/SOURCES.txt' 2025-06-02T14:04:54,640 adding license file 'LICENSE' 2025-06-02T14:04:54,645 writing manifest file '/tmp/pip-pip-egg-info-prjx12ny/gtdbtk.egg-info/SOURCES.txt' 2025-06-02T14:04:54,756 Preparing metadata (setup.py): finished with status 'done' 2025-06-02T14:04:54,761 Source in /tmp/pip-wheel-q5b2_ee3/gtdbtk_887b01574e974e95b913059bbfeb4630 has version 2.4.1, which satisfies requirement gtdbtk==2.4.1 from https://files.pythonhosted.org/packages/cc/06/89b8f6b9d637f29c6d9e45d837dda960c096b02a130cba4b61ef7629730a/gtdbtk-2.4.1.tar.gz 2025-06-02T14:04:54,762 Removed gtdbtk==2.4.1 from https://files.pythonhosted.org/packages/cc/06/89b8f6b9d637f29c6d9e45d837dda960c096b02a130cba4b61ef7629730a/gtdbtk-2.4.1.tar.gz from build tracker '/tmp/pip-build-tracker-jzctkhqi' 2025-06-02T14:04:54,769 Created temporary directory: /tmp/pip-unpack-ai5ktaki 2025-06-02T14:04:54,770 Created temporary directory: /tmp/pip-unpack-m1cv7vun 2025-06-02T14:04:54,771 Building wheels for collected packages: gtdbtk 2025-06-02T14:04:54,775 Created temporary directory: /tmp/pip-wheel-2duicm3m 2025-06-02T14:04:54,776 DEPRECATION: Building 'gtdbtk' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'gtdbtk'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-06-02T14:04:54,777 Building wheel for gtdbtk (setup.py): started 2025-06-02T14:04:54,778 Destination directory: /tmp/pip-wheel-2duicm3m 2025-06-02T14:04:54,779 Running command python setup.py bdist_wheel 2025-06-02T14:04:55,626 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-02T14:04:55,626 !! 2025-06-02T14:04:55,627 ******************************************************************************** 2025-06-02T14:04:55,628 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-02T14:04:55,629 License :: OSI Approved :: GNU General Public License v3 (GPLv3) 2025-06-02T14:04:55,631 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-02T14:04:55,631 ******************************************************************************** 2025-06-02T14:04:55,633 !! 2025-06-02T14:04:55,634 self._finalize_license_expression() 2025-06-02T14:04:55,635 running bdist_wheel 2025-06-02T14:04:55,803 running build 2025-06-02T14:04:55,804 running build_py 2025-06-02T14:04:55,837 creating build/lib/tests 2025-06-02T14:04:55,840 copying tests/__init__.py -> build/lib/tests 2025-06-02T14:04:55,842 copying tests/test_classify.py -> build/lib/tests 2025-06-02T14:04:55,844 copying tests/common.py -> build/lib/tests 2025-06-02T14:04:55,846 copying tests/test_cli.py -> build/lib/tests 2025-06-02T14:04:55,850 creating build/lib/gtdbtk 2025-06-02T14:04:55,851 copying gtdbtk/infer_ranks.py -> build/lib/gtdbtk 2025-06-02T14:04:55,854 copying gtdbtk/exceptions.py -> build/lib/gtdbtk 2025-06-02T14:04:55,857 copying gtdbtk/markers.py -> build/lib/gtdbtk 2025-06-02T14:04:55,862 copying gtdbtk/relative_distance.py -> build/lib/gtdbtk 2025-06-02T14:04:55,868 copying gtdbtk/split.py -> build/lib/gtdbtk 2025-06-02T14:04:55,873 copying gtdbtk/misc.py -> build/lib/gtdbtk 2025-06-02T14:04:55,878 copying gtdbtk/trim_msa.py -> build/lib/gtdbtk 2025-06-02T14:04:55,881 copying gtdbtk/tools.py -> build/lib/gtdbtk 2025-06-02T14:04:55,885 copying gtdbtk/classify.py -> build/lib/gtdbtk 2025-06-02T14:04:55,891 copying gtdbtk/decorate.py -> build/lib/gtdbtk 2025-06-02T14:04:55,894 copying gtdbtk/cli.py -> build/lib/gtdbtk 2025-06-02T14:04:55,898 copying gtdbtk/main.py -> build/lib/gtdbtk 2025-06-02T14:04:55,904 copying gtdbtk/reroot_tree.py -> build/lib/gtdbtk 2025-06-02T14:04:55,906 copying gtdbtk/__init__.py -> build/lib/gtdbtk 2025-06-02T14:04:55,908 copying gtdbtk/ani_screen.py -> build/lib/gtdbtk 2025-06-02T14:04:55,911 copying gtdbtk/ani_rep.py -> build/lib/gtdbtk 2025-06-02T14:04:55,913 copying gtdbtk/__main__.py -> build/lib/gtdbtk 2025-06-02T14:04:55,916 creating build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,917 copying tests/test_gtdbtk/test__main__.py -> build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,920 copying tests/test_gtdbtk/test_main.py -> build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,922 copying tests/test_gtdbtk/test_tools.py -> build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,925 copying tests/test_gtdbtk/test_trim_msa.py -> build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,927 copying tests/test_gtdbtk/__init__.py -> build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,929 copying tests/test_gtdbtk/test_markers.py -> build/lib/tests/test_gtdbtk 2025-06-02T14:04:55,931 creating build/lib/tests/test_gtdbtk/test_files 2025-06-02T14:04:55,933 copying tests/test_gtdbtk/test_files/__init__.py -> build/lib/tests/test_gtdbtk/test_files 2025-06-02T14:04:55,935 creating build/lib/tests/test_gtdbtk/test_external 2025-06-02T14:04:55,936 copying tests/test_gtdbtk/test_external/test_fastani.py -> build/lib/tests/test_gtdbtk/test_external 2025-06-02T14:04:55,939 copying tests/test_gtdbtk/test_external/test_fasttree.py -> build/lib/tests/test_gtdbtk/test_external 2025-06-02T14:04:55,941 copying tests/test_gtdbtk/test_external/__init__.py -> build/lib/tests/test_gtdbtk/test_external 2025-06-02T14:04:55,943 copying tests/test_gtdbtk/test_external/test_skani.py -> build/lib/tests/test_gtdbtk/test_external 2025-06-02T14:04:55,946 creating build/lib/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:55,947 copying tests/test_gtdbtk/test_biolib_lite/test_newick.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:55,950 copying tests/test_gtdbtk/test_biolib_lite/test_common.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:55,952 copying tests/test_gtdbtk/test_biolib_lite/__init__.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:55,953 copying tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:55,956 copying tests/test_gtdbtk/test_biolib_lite/test_seq_io.py -> build/lib/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:55,958 creating build/lib/tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:55,959 copying tests/test_gtdbtk/test_files/test_marker/__init__.py -> build/lib/tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:55,961 copying tests/test_gtdbtk/test_files/test_marker/test_copy_number.py -> build/lib/tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:55,964 copying tests/test_gtdbtk/test_files/test_marker/test_tophit.py -> build/lib/tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:55,967 creating build/lib/tests/test_gtdbtk/test_files/test_prodigal 2025-06-02T14:04:55,968 copying tests/test_gtdbtk/test_files/test_prodigal/__init__.py -> build/lib/tests/test_gtdbtk/test_files/test_prodigal 2025-06-02T14:04:55,970 copying tests/test_gtdbtk/test_files/test_prodigal/test_tln_table_summary.py -> build/lib/tests/test_gtdbtk/test_files/test_prodigal 2025-06-02T14:04:55,973 creating build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,974 copying gtdbtk/biolib_lite/logger.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,977 copying gtdbtk/biolib_lite/exceptions.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,979 copying gtdbtk/biolib_lite/parallel.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,982 copying gtdbtk/biolib_lite/taxonomy.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,985 copying gtdbtk/biolib_lite/execute.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,987 copying gtdbtk/biolib_lite/__init__.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,989 copying gtdbtk/biolib_lite/custom_help_formatter.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,991 copying gtdbtk/biolib_lite/prodigal_biolib.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,994 copying gtdbtk/biolib_lite/newick.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,996 copying gtdbtk/biolib_lite/seq_io.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:55,999 copying gtdbtk/biolib_lite/common.py -> build/lib/gtdbtk/biolib_lite 2025-06-02T14:04:56,002 creating build/lib/gtdbtk/files 2025-06-02T14:04:56,003 copying gtdbtk/files/stage_logger.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,006 copying gtdbtk/files/classify_summary.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,009 copying gtdbtk/files/marker_info.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,011 copying gtdbtk/files/tree_mapping.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,013 copying gtdbtk/files/red_dict.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,015 copying gtdbtk/files/gtdb_radii.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,017 copying gtdbtk/files/__init__.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,019 copying gtdbtk/files/missing_genomes.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,021 copying gtdbtk/files/pplacer_classification.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,024 copying gtdbtk/files/batchfile.py -> build/lib/gtdbtk/files 2025-06-02T14:04:56,026 creating build/lib/gtdbtk/external 2025-06-02T14:04:56,027 copying gtdbtk/external/mash.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,030 copying gtdbtk/external/skani.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,033 copying gtdbtk/external/tigrfam_search.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,035 copying gtdbtk/external/__init__.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,037 copying gtdbtk/external/pfam_search.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,039 copying gtdbtk/external/prodigal.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,042 copying gtdbtk/external/pplacer.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,045 copying gtdbtk/external/fasttree.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,047 copying gtdbtk/external/fastani.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,050 copying gtdbtk/external/hmm_aligner.py -> build/lib/gtdbtk/external 2025-06-02T14:04:56,053 creating build/lib/gtdbtk/model 2025-06-02T14:04:56,054 copying gtdbtk/model/__init__.py -> build/lib/gtdbtk/model 2025-06-02T14:04:56,056 copying gtdbtk/model/enum.py -> build/lib/gtdbtk/model 2025-06-02T14:04:56,058 creating build/lib/gtdbtk/pipeline 2025-06-02T14:04:56,059 copying gtdbtk/pipeline/align.py -> build/lib/gtdbtk/pipeline 2025-06-02T14:04:56,062 copying gtdbtk/pipeline/export_msa.py -> build/lib/gtdbtk/pipeline 2025-06-02T14:04:56,064 copying gtdbtk/pipeline/__init__.py -> build/lib/gtdbtk/pipeline 2025-06-02T14:04:56,066 creating build/lib/gtdbtk/config 2025-06-02T14:04:56,067 copying gtdbtk/config/output.py -> build/lib/gtdbtk/config 2025-06-02T14:04:56,069 copying gtdbtk/config/__init__.py -> build/lib/gtdbtk/config 2025-06-02T14:04:56,071 copying gtdbtk/config/common.py -> build/lib/gtdbtk/config 2025-06-02T14:04:56,074 creating build/lib/gtdbtk/files/prodigal 2025-06-02T14:04:56,076 copying gtdbtk/files/prodigal/tln_table.py -> build/lib/gtdbtk/files/prodigal 2025-06-02T14:04:56,078 copying gtdbtk/files/prodigal/__init__.py -> build/lib/gtdbtk/files/prodigal 2025-06-02T14:04:56,079 copying gtdbtk/files/prodigal/tln_table_summary.py -> build/lib/gtdbtk/files/prodigal 2025-06-02T14:04:56,082 creating build/lib/gtdbtk/files/marker 2025-06-02T14:04:56,083 copying gtdbtk/files/marker/copy_number.py -> build/lib/gtdbtk/files/marker 2025-06-02T14:04:56,087 copying gtdbtk/files/marker/tophit.py -> build/lib/gtdbtk/files/marker 2025-06-02T14:04:56,090 copying gtdbtk/files/marker/__init__.py -> build/lib/gtdbtk/files/marker 2025-06-02T14:04:56,092 creating build/lib/gtdbtk/external/pypfam 2025-06-02T14:04:56,093 copying gtdbtk/external/pypfam/__init__.py -> build/lib/gtdbtk/external/pypfam 2025-06-02T14:04:56,095 creating build/lib/gtdbtk/external/pypfam/Scan 2025-06-02T14:04:56,096 copying gtdbtk/external/pypfam/Scan/__init__.py -> build/lib/gtdbtk/external/pypfam/Scan 2025-06-02T14:04:56,098 copying gtdbtk/external/pypfam/Scan/PfamScan.py -> build/lib/gtdbtk/external/pypfam/Scan 2025-06-02T14:04:56,102 creating build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,104 copying gtdbtk/external/pypfam/HMM/HMMMatch.py -> build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,106 copying gtdbtk/external/pypfam/HMM/__init__.py -> build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,108 copying gtdbtk/external/pypfam/HMM/HMMUnit.py -> build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,110 copying gtdbtk/external/pypfam/HMM/HMMSequence.py -> build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,112 copying gtdbtk/external/pypfam/HMM/HMMResultsIO.py -> build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,115 copying gtdbtk/external/pypfam/HMM/HMMResults.py -> build/lib/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,128 creating build/lib/gtdbtk/tests/data/genomes 2025-06-02T14:04:56,131 copying gtdbtk/tests/data/genomes/genome_2.fna -> build/lib/gtdbtk/tests/data/genomes 2025-06-02T14:04:56,198 copying gtdbtk/tests/data/genomes/genome_3.fna -> build/lib/gtdbtk/tests/data/genomes 2025-06-02T14:04:56,360 copying gtdbtk/tests/data/genomes/genome_1.fna -> build/lib/gtdbtk/tests/data/genomes 2025-06-02T14:04:56,446 running build_scripts 2025-06-02T14:04:56,446 creating build/scripts-3.11 2025-06-02T14:04:56,447 copying and adjusting scripts/gtdb_to_ncbi_majority_vote.py -> build/scripts-3.11 2025-06-02T14:04:56,450 changing mode of build/scripts-3.11/gtdb_to_ncbi_majority_vote.py from 644 to 755 2025-06-02T14:04:56,500 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-06-02T14:04:56,500 !! 2025-06-02T14:04:56,501 ******************************************************************************** 2025-06-02T14:04:56,502 Please avoid running ``setup.py`` directly. 2025-06-02T14:04:56,503 Instead, use pypa/build, pypa/installer or other 2025-06-02T14:04:56,503 standards-based tools. 2025-06-02T14:04:56,504 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-02T14:04:56,505 or your builds will no longer be supported. 2025-06-02T14:04:56,506 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-06-02T14:04:56,506 ******************************************************************************** 2025-06-02T14:04:56,508 !! 2025-06-02T14:04:56,508 self.initialize_options() 2025-06-02T14:04:56,531 installing to build/bdist.linux-armv7l/wheel 2025-06-02T14:04:56,531 running install 2025-06-02T14:04:56,555 running install_lib 2025-06-02T14:04:56,583 creating build/bdist.linux-armv7l/wheel 2025-06-02T14:04:56,585 creating build/bdist.linux-armv7l/wheel/tests 2025-06-02T14:04:56,586 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk 2025-06-02T14:04:56,588 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_files 2025-06-02T14:04:56,590 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:56,591 copying build/lib/tests/test_gtdbtk/test_files/test_marker/__init__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:56,593 copying build/lib/tests/test_gtdbtk/test_files/test_marker/test_copy_number.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:56,595 copying build/lib/tests/test_gtdbtk/test_files/test_marker/test_tophit.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_files/test_marker 2025-06-02T14:04:56,598 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_files/test_prodigal 2025-06-02T14:04:56,599 copying build/lib/tests/test_gtdbtk/test_files/test_prodigal/__init__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_files/test_prodigal 2025-06-02T14:04:56,601 copying build/lib/tests/test_gtdbtk/test_files/test_prodigal/test_tln_table_summary.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_files/test_prodigal 2025-06-02T14:04:56,603 copying build/lib/tests/test_gtdbtk/test_files/__init__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_files 2025-06-02T14:04:56,605 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_external 2025-06-02T14:04:56,606 copying build/lib/tests/test_gtdbtk/test_external/test_fastani.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_external 2025-06-02T14:04:56,609 copying build/lib/tests/test_gtdbtk/test_external/test_fasttree.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_external 2025-06-02T14:04:56,611 copying build/lib/tests/test_gtdbtk/test_external/__init__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_external 2025-06-02T14:04:56,613 copying build/lib/tests/test_gtdbtk/test_external/test_skani.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_external 2025-06-02T14:04:56,615 copying build/lib/tests/test_gtdbtk/test__main__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk 2025-06-02T14:04:56,618 copying build/lib/tests/test_gtdbtk/test_main.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk 2025-06-02T14:04:56,620 copying build/lib/tests/test_gtdbtk/test_tools.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk 2025-06-02T14:04:56,623 copying build/lib/tests/test_gtdbtk/test_trim_msa.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk 2025-06-02T14:04:56,625 copying build/lib/tests/test_gtdbtk/__init__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk 2025-06-02T14:04:56,627 creating build/bdist.linux-armv7l/wheel/tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:56,628 copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_newick.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:56,631 copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_common.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:56,633 copying build/lib/tests/test_gtdbtk/test_biolib_lite/__init__.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:56,635 copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:56,637 copying build/lib/tests/test_gtdbtk/test_biolib_lite/test_seq_io.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk/test_biolib_lite 2025-06-02T14:04:56,639 copying build/lib/tests/test_gtdbtk/test_markers.py -> build/bdist.linux-armv7l/wheel/./tests/test_gtdbtk 2025-06-02T14:04:56,641 copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-02T14:04:56,643 copying build/lib/tests/test_classify.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-02T14:04:56,645 copying build/lib/tests/common.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-02T14:04:56,648 copying build/lib/tests/test_cli.py -> build/bdist.linux-armv7l/wheel/./tests 2025-06-02T14:04:56,651 creating build/bdist.linux-armv7l/wheel/gtdbtk 2025-06-02T14:04:56,652 copying build/lib/gtdbtk/infer_ranks.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,655 copying build/lib/gtdbtk/exceptions.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,658 copying build/lib/gtdbtk/markers.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,663 creating build/bdist.linux-armv7l/wheel/gtdbtk/tests 2025-06-02T14:04:56,665 creating build/bdist.linux-armv7l/wheel/gtdbtk/tests/data 2025-06-02T14:04:56,668 creating build/bdist.linux-armv7l/wheel/gtdbtk/tests/data/genomes 2025-06-02T14:04:56,683 copying build/lib/gtdbtk/tests/data/genomes/genome_2.fna -> build/bdist.linux-armv7l/wheel/./gtdbtk/tests/data/genomes 2025-06-02T14:04:56,729 copying build/lib/gtdbtk/tests/data/genomes/genome_3.fna -> build/bdist.linux-armv7l/wheel/./gtdbtk/tests/data/genomes 2025-06-02T14:04:56,751 copying build/lib/gtdbtk/tests/data/genomes/genome_1.fna -> build/bdist.linux-armv7l/wheel/./gtdbtk/tests/data/genomes 2025-06-02T14:04:56,799 creating build/bdist.linux-armv7l/wheel/gtdbtk/biolib_lite 2025-06-02T14:04:56,801 copying build/lib/gtdbtk/biolib_lite/logger.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,803 copying build/lib/gtdbtk/biolib_lite/exceptions.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,806 copying build/lib/gtdbtk/biolib_lite/parallel.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,809 copying build/lib/gtdbtk/biolib_lite/taxonomy.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,812 copying build/lib/gtdbtk/biolib_lite/execute.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,814 copying build/lib/gtdbtk/biolib_lite/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,816 copying build/lib/gtdbtk/biolib_lite/custom_help_formatter.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,819 copying build/lib/gtdbtk/biolib_lite/prodigal_biolib.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,822 copying build/lib/gtdbtk/biolib_lite/newick.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,824 copying build/lib/gtdbtk/biolib_lite/seq_io.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,827 copying build/lib/gtdbtk/biolib_lite/common.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/biolib_lite 2025-06-02T14:04:56,830 copying build/lib/gtdbtk/relative_distance.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,833 copying build/lib/gtdbtk/split.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,837 copying build/lib/gtdbtk/misc.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,841 creating build/bdist.linux-armv7l/wheel/gtdbtk/files 2025-06-02T14:04:56,842 copying build/lib/gtdbtk/files/stage_logger.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,846 copying build/lib/gtdbtk/files/classify_summary.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,849 copying build/lib/gtdbtk/files/marker_info.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,851 copying build/lib/gtdbtk/files/tree_mapping.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,854 copying build/lib/gtdbtk/files/red_dict.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,857 creating build/bdist.linux-armv7l/wheel/gtdbtk/files/prodigal 2025-06-02T14:04:56,859 copying build/lib/gtdbtk/files/prodigal/tln_table.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files/prodigal 2025-06-02T14:04:56,862 copying build/lib/gtdbtk/files/prodigal/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files/prodigal 2025-06-02T14:04:56,864 copying build/lib/gtdbtk/files/prodigal/tln_table_summary.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files/prodigal 2025-06-02T14:04:56,867 copying build/lib/gtdbtk/files/gtdb_radii.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,870 copying build/lib/gtdbtk/files/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,873 creating build/bdist.linux-armv7l/wheel/gtdbtk/files/marker 2025-06-02T14:04:56,875 copying build/lib/gtdbtk/files/marker/copy_number.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files/marker 2025-06-02T14:04:56,878 copying build/lib/gtdbtk/files/marker/tophit.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files/marker 2025-06-02T14:04:56,881 copying build/lib/gtdbtk/files/marker/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files/marker 2025-06-02T14:04:56,883 copying build/lib/gtdbtk/files/missing_genomes.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,886 copying build/lib/gtdbtk/files/pplacer_classification.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,889 copying build/lib/gtdbtk/files/batchfile.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/files 2025-06-02T14:04:56,891 copying build/lib/gtdbtk/trim_msa.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,894 copying build/lib/gtdbtk/tools.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,897 copying build/lib/gtdbtk/classify.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,903 creating build/bdist.linux-armv7l/wheel/gtdbtk/external 2025-06-02T14:04:56,904 copying build/lib/gtdbtk/external/mash.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,907 copying build/lib/gtdbtk/external/skani.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,911 copying build/lib/gtdbtk/external/tigrfam_search.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,914 copying build/lib/gtdbtk/external/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,916 copying build/lib/gtdbtk/external/pfam_search.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,918 copying build/lib/gtdbtk/external/prodigal.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,922 copying build/lib/gtdbtk/external/pplacer.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,925 copying build/lib/gtdbtk/external/fasttree.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,928 creating build/bdist.linux-armv7l/wheel/gtdbtk/external/pypfam 2025-06-02T14:04:56,930 creating build/bdist.linux-armv7l/wheel/gtdbtk/external/pypfam/Scan 2025-06-02T14:04:56,932 copying build/lib/gtdbtk/external/pypfam/Scan/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/Scan 2025-06-02T14:04:56,934 copying build/lib/gtdbtk/external/pypfam/Scan/PfamScan.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/Scan 2025-06-02T14:04:56,938 copying build/lib/gtdbtk/external/pypfam/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam 2025-06-02T14:04:56,941 creating build/bdist.linux-armv7l/wheel/gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,942 copying build/lib/gtdbtk/external/pypfam/HMM/HMMMatch.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,945 copying build/lib/gtdbtk/external/pypfam/HMM/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,947 copying build/lib/gtdbtk/external/pypfam/HMM/HMMUnit.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,950 copying build/lib/gtdbtk/external/pypfam/HMM/HMMSequence.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,952 copying build/lib/gtdbtk/external/pypfam/HMM/HMMResultsIO.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,956 copying build/lib/gtdbtk/external/pypfam/HMM/HMMResults.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external/pypfam/HMM 2025-06-02T14:04:56,959 copying build/lib/gtdbtk/external/fastani.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,962 copying build/lib/gtdbtk/external/hmm_aligner.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/external 2025-06-02T14:04:56,966 creating build/bdist.linux-armv7l/wheel/gtdbtk/model 2025-06-02T14:04:56,967 copying build/lib/gtdbtk/model/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/model 2025-06-02T14:04:56,970 copying build/lib/gtdbtk/model/enum.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/model 2025-06-02T14:04:56,973 creating build/bdist.linux-armv7l/wheel/gtdbtk/pipeline 2025-06-02T14:04:56,975 copying build/lib/gtdbtk/pipeline/align.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/pipeline 2025-06-02T14:04:56,978 copying build/lib/gtdbtk/pipeline/export_msa.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/pipeline 2025-06-02T14:04:56,981 copying build/lib/gtdbtk/pipeline/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/pipeline 2025-06-02T14:04:56,983 copying build/lib/gtdbtk/decorate.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,987 copying build/lib/gtdbtk/cli.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,991 copying build/lib/gtdbtk/main.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,995 copying build/lib/gtdbtk/reroot_tree.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:56,997 copying build/lib/gtdbtk/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:57,000 copying build/lib/gtdbtk/ani_screen.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:57,003 copying build/lib/gtdbtk/ani_rep.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:57,006 creating build/bdist.linux-armv7l/wheel/gtdbtk/config 2025-06-02T14:04:57,008 copying build/lib/gtdbtk/config/output.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/config 2025-06-02T14:04:57,011 copying build/lib/gtdbtk/config/__init__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/config 2025-06-02T14:04:57,014 copying build/lib/gtdbtk/config/common.py -> build/bdist.linux-armv7l/wheel/./gtdbtk/config 2025-06-02T14:04:57,017 copying build/lib/gtdbtk/__main__.py -> build/bdist.linux-armv7l/wheel/./gtdbtk 2025-06-02T14:04:57,020 running install_data 2025-06-02T14:04:57,055 creating build/bdist.linux-armv7l/wheel/gtdbtk-2.4.1.data/data 2025-06-02T14:04:57,058 copying LICENSE -> build/bdist.linux-armv7l/wheel/gtdbtk-2.4.1.data/data/. 2025-06-02T14:04:57,061 running install_egg_info 2025-06-02T14:04:57,098 running egg_info 2025-06-02T14:04:57,128 writing gtdbtk.egg-info/PKG-INFO 2025-06-02T14:04:57,132 writing dependency_links to gtdbtk.egg-info/dependency_links.txt 2025-06-02T14:04:57,134 writing entry points to gtdbtk.egg-info/entry_points.txt 2025-06-02T14:04:57,135 writing requirements to gtdbtk.egg-info/requires.txt 2025-06-02T14:04:57,136 writing top-level names to gtdbtk.egg-info/top_level.txt 2025-06-02T14:04:57,187 reading manifest file 'gtdbtk.egg-info/SOURCES.txt' 2025-06-02T14:04:57,195 adding license file 'LICENSE' 2025-06-02T14:04:57,202 writing manifest file 'gtdbtk.egg-info/SOURCES.txt' 2025-06-02T14:04:57,203 Copying gtdbtk.egg-info to build/bdist.linux-armv7l/wheel/./gtdbtk-2.4.1-py3.11.egg-info 2025-06-02T14:04:57,216 running install_scripts 2025-06-02T14:04:57,217 creating build/bdist.linux-armv7l/wheel/gtdbtk-2.4.1.data/scripts 2025-06-02T14:04:57,219 copying build/scripts-3.11/gtdb_to_ncbi_majority_vote.py -> build/bdist.linux-armv7l/wheel/gtdbtk-2.4.1.data/scripts 2025-06-02T14:04:57,222 changing mode of build/bdist.linux-armv7l/wheel/gtdbtk-2.4.1.data/scripts/gtdb_to_ncbi_majority_vote.py to 755 2025-06-02T14:04:57,238 creating build/bdist.linux-armv7l/wheel/gtdbtk-2.4.1.dist-info/WHEEL 2025-06-02T14:04:57,241 creating '/tmp/pip-wheel-2duicm3m/gtdbtk-2.4.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-06-02T14:04:57,244 adding 'gtdbtk/__init__.py' 2025-06-02T14:04:57,246 adding 'gtdbtk/__main__.py' 2025-06-02T14:04:57,249 adding 'gtdbtk/ani_rep.py' 2025-06-02T14:04:57,251 adding 'gtdbtk/ani_screen.py' 2025-06-02T14:04:57,264 adding 'gtdbtk/classify.py' 2025-06-02T14:04:57,268 adding 'gtdbtk/cli.py' 2025-06-02T14:04:57,271 adding 'gtdbtk/decorate.py' 2025-06-02T14:04:57,273 adding 'gtdbtk/exceptions.py' 2025-06-02T14:04:57,275 adding 'gtdbtk/infer_ranks.py' 2025-06-02T14:04:57,280 adding 'gtdbtk/main.py' 2025-06-02T14:04:57,284 adding 'gtdbtk/markers.py' 2025-06-02T14:04:57,286 adding 'gtdbtk/misc.py' 2025-06-02T14:04:57,289 adding 'gtdbtk/relative_distance.py' 2025-06-02T14:04:57,290 adding 'gtdbtk/reroot_tree.py' 2025-06-02T14:04:57,293 adding 'gtdbtk/split.py' 2025-06-02T14:04:57,296 adding 'gtdbtk/tools.py' 2025-06-02T14:04:57,298 adding 'gtdbtk/trim_msa.py' 2025-06-02T14:04:57,300 adding 'gtdbtk/biolib_lite/__init__.py' 2025-06-02T14:04:57,302 adding 'gtdbtk/biolib_lite/common.py' 2025-06-02T14:04:57,303 adding 'gtdbtk/biolib_lite/custom_help_formatter.py' 2025-06-02T14:04:57,305 adding 'gtdbtk/biolib_lite/exceptions.py' 2025-06-02T14:04:57,307 adding 'gtdbtk/biolib_lite/execute.py' 2025-06-02T14:04:57,309 adding 'gtdbtk/biolib_lite/logger.py' 2025-06-02T14:04:57,310 adding 'gtdbtk/biolib_lite/newick.py' 2025-06-02T14:04:57,312 adding 'gtdbtk/biolib_lite/parallel.py' 2025-06-02T14:04:57,314 adding 'gtdbtk/biolib_lite/prodigal_biolib.py' 2025-06-02T14:04:57,316 adding 'gtdbtk/biolib_lite/seq_io.py' 2025-06-02T14:04:57,320 adding 'gtdbtk/biolib_lite/taxonomy.py' 2025-06-02T14:04:57,322 adding 'gtdbtk/config/__init__.py' 2025-06-02T14:04:57,324 adding 'gtdbtk/config/common.py' 2025-06-02T14:04:57,326 adding 'gtdbtk/config/output.py' 2025-06-02T14:04:57,328 adding 'gtdbtk/external/__init__.py' 2025-06-02T14:04:57,330 adding 'gtdbtk/external/fastani.py' 2025-06-02T14:04:57,332 adding 'gtdbtk/external/fasttree.py' 2025-06-02T14:04:57,334 adding 'gtdbtk/external/hmm_aligner.py' 2025-06-02T14:04:57,336 adding 'gtdbtk/external/mash.py' 2025-06-02T14:04:57,338 adding 'gtdbtk/external/pfam_search.py' 2025-06-02T14:04:57,340 adding 'gtdbtk/external/pplacer.py' 2025-06-02T14:04:57,342 adding 'gtdbtk/external/prodigal.py' 2025-06-02T14:04:57,344 adding 'gtdbtk/external/skani.py' 2025-06-02T14:04:57,346 adding 'gtdbtk/external/tigrfam_search.py' 2025-06-02T14:04:57,348 adding 'gtdbtk/external/pypfam/__init__.py' 2025-06-02T14:04:57,349 adding 'gtdbtk/external/pypfam/HMM/HMMMatch.py' 2025-06-02T14:04:57,351 adding 'gtdbtk/external/pypfam/HMM/HMMResults.py' 2025-06-02T14:04:57,354 adding 'gtdbtk/external/pypfam/HMM/HMMResultsIO.py' 2025-06-02T14:04:57,355 adding 'gtdbtk/external/pypfam/HMM/HMMSequence.py' 2025-06-02T14:04:57,357 adding 'gtdbtk/external/pypfam/HMM/HMMUnit.py' 2025-06-02T14:04:57,358 adding 'gtdbtk/external/pypfam/HMM/__init__.py' 2025-06-02T14:04:57,361 adding 'gtdbtk/external/pypfam/Scan/PfamScan.py' 2025-06-02T14:04:57,362 adding 'gtdbtk/external/pypfam/Scan/__init__.py' 2025-06-02T14:04:57,364 adding 'gtdbtk/files/__init__.py' 2025-06-02T14:04:57,365 adding 'gtdbtk/files/batchfile.py' 2025-06-02T14:04:57,367 adding 'gtdbtk/files/classify_summary.py' 2025-06-02T14:04:57,368 adding 'gtdbtk/files/gtdb_radii.py' 2025-06-02T14:04:57,370 adding 'gtdbtk/files/marker_info.py' 2025-06-02T14:04:57,371 adding 'gtdbtk/files/missing_genomes.py' 2025-06-02T14:04:57,373 adding 'gtdbtk/files/pplacer_classification.py' 2025-06-02T14:04:57,374 adding 'gtdbtk/files/red_dict.py' 2025-06-02T14:04:57,376 adding 'gtdbtk/files/stage_logger.py' 2025-06-02T14:04:57,377 adding 'gtdbtk/files/tree_mapping.py' 2025-06-02T14:04:57,379 adding 'gtdbtk/files/marker/__init__.py' 2025-06-02T14:04:57,381 adding 'gtdbtk/files/marker/copy_number.py' 2025-06-02T14:04:57,383 adding 'gtdbtk/files/marker/tophit.py' 2025-06-02T14:04:57,385 adding 'gtdbtk/files/prodigal/__init__.py' 2025-06-02T14:04:57,386 adding 'gtdbtk/files/prodigal/tln_table.py' 2025-06-02T14:04:57,388 adding 'gtdbtk/files/prodigal/tln_table_summary.py' 2025-06-02T14:04:57,390 adding 'gtdbtk/model/__init__.py' 2025-06-02T14:04:57,391 adding 'gtdbtk/model/enum.py' 2025-06-02T14:04:57,393 adding 'gtdbtk/pipeline/__init__.py' 2025-06-02T14:04:57,395 adding 'gtdbtk/pipeline/align.py' 2025-06-02T14:04:57,396 adding 'gtdbtk/pipeline/export_msa.py' 2025-06-02T14:04:58,948 adding 'gtdbtk/tests/data/genomes/genome_1.fna' 2025-06-02T14:04:59,648 adding 'gtdbtk/tests/data/genomes/genome_2.fna' 2025-06-02T14:05:00,288 adding 'gtdbtk/tests/data/genomes/genome_3.fna' 2025-06-02T14:05:00,302 adding 'gtdbtk-2.4.1.data/data/LICENSE' 2025-06-02T14:05:00,306 adding 'gtdbtk-2.4.1.data/scripts/gtdb_to_ncbi_majority_vote.py' 2025-06-02T14:05:00,313 adding 'gtdbtk-2.4.1.dist-info/licenses/LICENSE' 2025-06-02T14:05:00,315 adding 'tests/__init__.py' 2025-06-02T14:05:00,316 adding 'tests/common.py' 2025-06-02T14:05:00,318 adding 'tests/test_classify.py' 2025-06-02T14:05:00,320 adding 'tests/test_cli.py' 2025-06-02T14:05:00,322 adding 'tests/test_gtdbtk/__init__.py' 2025-06-02T14:05:00,324 adding 'tests/test_gtdbtk/test__main__.py' 2025-06-02T14:05:00,326 adding 'tests/test_gtdbtk/test_main.py' 2025-06-02T14:05:00,327 adding 'tests/test_gtdbtk/test_markers.py' 2025-06-02T14:05:00,329 adding 'tests/test_gtdbtk/test_tools.py' 2025-06-02T14:05:00,331 adding 'tests/test_gtdbtk/test_trim_msa.py' 2025-06-02T14:05:00,333 adding 'tests/test_gtdbtk/test_biolib_lite/__init__.py' 2025-06-02T14:05:00,334 adding 'tests/test_gtdbtk/test_biolib_lite/test_common.py' 2025-06-02T14:05:00,335 adding 'tests/test_gtdbtk/test_biolib_lite/test_newick.py' 2025-06-02T14:05:00,337 adding 'tests/test_gtdbtk/test_biolib_lite/test_seq_io.py' 2025-06-02T14:05:00,338 adding 'tests/test_gtdbtk/test_biolib_lite/test_taxonomy.py' 2025-06-02T14:05:00,340 adding 'tests/test_gtdbtk/test_external/__init__.py' 2025-06-02T14:05:00,342 adding 'tests/test_gtdbtk/test_external/test_fastani.py' 2025-06-02T14:05:00,343 adding 'tests/test_gtdbtk/test_external/test_fasttree.py' 2025-06-02T14:05:00,344 adding 'tests/test_gtdbtk/test_external/test_skani.py' 2025-06-02T14:05:00,346 adding 'tests/test_gtdbtk/test_files/__init__.py' 2025-06-02T14:05:00,348 adding 'tests/test_gtdbtk/test_files/test_marker/__init__.py' 2025-06-02T14:05:00,350 adding 'tests/test_gtdbtk/test_files/test_marker/test_copy_number.py' 2025-06-02T14:05:00,351 adding 'tests/test_gtdbtk/test_files/test_marker/test_tophit.py' 2025-06-02T14:05:00,353 adding 'tests/test_gtdbtk/test_files/test_prodigal/__init__.py' 2025-06-02T14:05:00,354 adding 'tests/test_gtdbtk/test_files/test_prodigal/test_tln_table_summary.py' 2025-06-02T14:05:00,356 adding 'gtdbtk-2.4.1.dist-info/METADATA' 2025-06-02T14:05:00,357 adding 'gtdbtk-2.4.1.dist-info/WHEEL' 2025-06-02T14:05:00,358 adding 'gtdbtk-2.4.1.dist-info/entry_points.txt' 2025-06-02T14:05:00,359 adding 'gtdbtk-2.4.1.dist-info/top_level.txt' 2025-06-02T14:05:00,361 adding 'gtdbtk-2.4.1.dist-info/RECORD' 2025-06-02T14:05:00,392 removing build/bdist.linux-armv7l/wheel 2025-06-02T14:05:00,542 Building wheel for gtdbtk (setup.py): finished with status 'done' 2025-06-02T14:05:00,565 Created wheel for gtdbtk: filename=gtdbtk-2.4.1-py3-none-any.whl size=1842063 sha256=4ffb05db757b24ca667d0ef2c32dd368bd1e82406c63dedfe9f1f05e83610a07 2025-06-02T14:05:00,567 Stored in directory: /tmp/pip-ephem-wheel-cache-y_wnciml/wheels/b1/e2/2f/a9271c49dbbd7a04a4132a8e099d28d129d24cf509b3fee1f2 2025-06-02T14:05:00,585 Successfully built gtdbtk 2025-06-02T14:05:00,635 Removed build tracker: '/tmp/pip-build-tracker-jzctkhqi'