2025-03-28T13:32:08,773 Created temporary directory: /tmp/pip-build-tracker-al76by37 2025-03-28T13:32:08,774 Initialized build tracking at /tmp/pip-build-tracker-al76by37 2025-03-28T13:32:08,775 Created build tracker: /tmp/pip-build-tracker-al76by37 2025-03-28T13:32:08,775 Entered build tracker: /tmp/pip-build-tracker-al76by37 2025-03-28T13:32:08,777 Created temporary directory: /tmp/pip-wheel-bpki83pm 2025-03-28T13:32:08,781 Created temporary directory: /tmp/pip-ephem-wheel-cache-0fby1cl5 2025-03-28T13:32:08,827 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-03-28T13:32:08,830 2 location(s) to search for versions of pymlst: 2025-03-28T13:32:08,830 * https://pypi.org/simple/pymlst/ 2025-03-28T13:32:08,830 * https://www.piwheels.org/simple/pymlst/ 2025-03-28T13:32:08,830 Fetching project page and analyzing links: https://pypi.org/simple/pymlst/ 2025-03-28T13:32:08,831 Getting page https://pypi.org/simple/pymlst/ 2025-03-28T13:32:08,833 Found index url https://pypi.org/simple/ 2025-03-28T13:32:09,109 Fetched page https://pypi.org/simple/pymlst/ as application/vnd.pypi.simple.v1+json 2025-03-28T13:32:09,115 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/c9/58/b20aff870603ed350a23e651f3051764f84411f47dce6a04fb7005da52a4/PyMLST-2.0.1-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,116 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/ee/ae/cb1ae640761c8bd7001800973a72b475552793dd99b8caa5e078f29a0faa/PyMLST-2.1.0-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,116 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/46/2d/d32aed32e3a77ae21226a144f0ca31b040907cfa65c6b0de4c95a49768bf/PyMLST-2.1.1-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,117 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/a1/ac/76b9312b65e1f7f7638b6eb46cecb9341c7d55a34a9796b96ce22366522f/PyMLST-2.1.2-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,118 Found link https://files.pythonhosted.org/packages/b8/96/cca409adee7a3c61adc124ac12da584545819427f10487a01d84eadc71c5/PyMLST-2.1.2.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.1.2 2025-03-28T13:32:09,119 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/79/fa/b291f5dbc74c78c7ff6f0e4225d1199d10d3e750c4273935f83327fbfedd/PyMLST-2.1.3-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,121 Found link https://files.pythonhosted.org/packages/f1/ee/77f0663a2221d7e44b07a14f74c6d3279c19640338e84f2c39ed984bb166/PyMLST-2.1.3.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.1.3 2025-03-28T13:32:09,122 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/58/2c/9087cc4a524d0ebf9a2104e229422266299f5e37d01d09f75d10288d7162/PyMLST-2.1.4-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,123 Found link https://files.pythonhosted.org/packages/58/54/4ddd2e96629a17bf60e728e48e53e47f0720710db9b1416b3d34716f9824/PyMLST-2.1.4.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.1.4 2025-03-28T13:32:09,124 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/10/24/f5fe2d09f56d6e608f0807a60f2734c2919a594bfeaee597af31dfc74324/PyMLST-2.1.5-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,125 Found link https://files.pythonhosted.org/packages/e4/b0/96c1a8c9399e5bb594048bf3c9cbedb1f1708d2bd251cd540460dfb343eb/PyMLST-2.1.5.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.1.5 2025-03-28T13:32:09,126 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/dd/50/964d6216670084035fbd5eba552322f6899802ac8603b8ba68e5806d64b8/PyMLST-2.1.6-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,127 Found link https://files.pythonhosted.org/packages/d9/20/714bafa3d1d2d2ec7bbed2ada2109fa23c00432f7b4c31892b216b5bc3b4/PyMLST-2.1.6.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.1.6 2025-03-28T13:32:09,129 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/9b/66/70a19f60f1d2f8acea2ed6bdc84acd5b71e947404392cd39c6bfd7729b67/pymlst-2.2.0-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,130 Found link https://files.pythonhosted.org/packages/f9/ab/7603a73eb36681c9b81757f2626058a3f816e91803f32bca22404e3be926/pymlst-2.2.0.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.2.0 2025-03-28T13:32:09,131 Skipping link: No binaries permitted for pymlst: https://files.pythonhosted.org/packages/30/f7/bd5fbf3bbc63e3314e8fedd0e29848c446743e9d53d3260044466d2e25b1/pymlst-2.2.1-py3-none-any.whl (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,132 Found link https://files.pythonhosted.org/packages/e6/ab/4c8c0da60a0102a3fc0b148e26989f6f32b3fe592cb9c1477b42dc316995/pymlst-2.2.1.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0), version: 2.2.1 2025-03-28T13:32:09,133 Fetching project page and analyzing links: https://www.piwheels.org/simple/pymlst/ 2025-03-28T13:32:09,134 Getting page https://www.piwheels.org/simple/pymlst/ 2025-03-28T13:32:09,136 Found index url https://www.piwheels.org/simple/ 2025-03-28T13:32:09,347 Fetched page https://www.piwheels.org/simple/pymlst/ as text/html 2025-03-28T13:32:09,350 Skipping link: No binaries permitted for pymlst: https://www.piwheels.org/simple/pymlst/PyMLST-2.1.6-py3-none-any.whl#sha256=ece835bc63448a03352c031050db6b7df4b52e97b6937f9ec14af3dc2c362727 (from https://www.piwheels.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,351 Skipping link: No binaries permitted for pymlst: https://www.piwheels.org/simple/pymlst/PyMLST-2.1.5-py3-none-any.whl#sha256=e38b9c1963b2c716d732ab1dc563d6f74b98e4ccef1a40ae039525256743bd7a (from https://www.piwheels.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,352 Skipping link: No binaries permitted for pymlst: https://www.piwheels.org/simple/pymlst/PyMLST-2.1.4-py3-none-any.whl#sha256=1ef8f7966d09ce4aaf7cb04b9eb249944571ae0ea90baf0208af43def98b40aa (from https://www.piwheels.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,352 Skipping link: No binaries permitted for pymlst: https://www.piwheels.org/simple/pymlst/PyMLST-2.1.3-py3-none-any.whl#sha256=f2069f50ecc8c8b203e9257f5c011010e50959605a806e70142dfde35d0e77eb (from https://www.piwheels.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,353 Skipping link: No binaries permitted for pymlst: https://www.piwheels.org/simple/pymlst/PyMLST-2.1.2-py3-none-any.whl#sha256=23fec25be78d92f9683e799227d86c9a19ca909d5f9ecae088c1d70ef372395b (from https://www.piwheels.org/simple/pymlst/) (requires-python:>=3.7.0) 2025-03-28T13:32:09,354 Skipping link: not a file: https://www.piwheels.org/simple/pymlst/ 2025-03-28T13:32:09,354 Skipping link: not a file: https://pypi.org/simple/pymlst/ 2025-03-28T13:32:09,374 Given no hashes to check 1 links for project 'pymlst': discarding no candidates 2025-03-28T13:32:09,376 Collecting pymlst==2.2.0 2025-03-28T13:32:09,378 Created temporary directory: /tmp/pip-unpack-n17tp0da 2025-03-28T13:32:09,597 Downloading pymlst-2.2.0.tar.gz (44 kB) 2025-03-28T13:32:09,786 Added pymlst==2.2.0 from https://files.pythonhosted.org/packages/f9/ab/7603a73eb36681c9b81757f2626058a3f816e91803f32bca22404e3be926/pymlst-2.2.0.tar.gz to build tracker '/tmp/pip-build-tracker-al76by37' 2025-03-28T13:32:09,829 Running setup.py (path:/tmp/pip-wheel-bpki83pm/pymlst_e9052936ff4646e59e2bfec3f39b3bd9/setup.py) egg_info for package pymlst 2025-03-28T13:32:09,831 Created temporary directory: /tmp/pip-pip-egg-info-qd9szc2r 2025-03-28T13:32:09,831 Preparing metadata (setup.py): started 2025-03-28T13:32:09,833 Running command python setup.py egg_info 2025-03-28T13:32:12,217 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T13:32:12,218 !! 2025-03-28T13:32:12,219 ******************************************************************************** 2025-03-28T13:32:12,219 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T13:32:12,219 versions. Please use the underscore name 'description_file' instead. 2025-03-28T13:32:12,220 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T13:32:12,221 calls to avoid build errors in the future. 2025-03-28T13:32:12,222 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T13:32:12,222 ******************************************************************************** 2025-03-28T13:32:12,223 !! 2025-03-28T13:32:12,224 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T13:32:12,453 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-03-28T13:32:12,453 !! 2025-03-28T13:32:12,454 ******************************************************************************** 2025-03-28T13:32:12,455 Requirements should be satisfied by a PEP 517 installer. 2025-03-28T13:32:12,455 If you are using pip, you can try `pip install --use-pep517`. 2025-03-28T13:32:12,456 ******************************************************************************** 2025-03-28T13:32:12,457 !! 2025-03-28T13:32:12,458 dist.fetch_build_eggs(dist.setup_requires) 2025-03-28T13:32:13,330 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T13:32:13,331 !! 2025-03-28T13:32:13,332 ******************************************************************************** 2025-03-28T13:32:13,332 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T13:32:13,333 versions. Please use the underscore name 'description_file' instead. 2025-03-28T13:32:13,334 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T13:32:13,335 calls to avoid build errors in the future. 2025-03-28T13:32:13,337 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T13:32:13,337 ******************************************************************************** 2025-03-28T13:32:13,338 !! 2025-03-28T13:32:13,339 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T13:32:13,370 running egg_info 2025-03-28T13:32:13,405 creating /tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info 2025-03-28T13:32:13,406 writing /tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/PKG-INFO 2025-03-28T13:32:13,414 writing dependency_links to /tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/dependency_links.txt 2025-03-28T13:32:13,416 writing entry points to /tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/entry_points.txt 2025-03-28T13:32:13,418 writing requirements to /tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/requires.txt 2025-03-28T13:32:13,419 writing top-level names to /tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/top_level.txt 2025-03-28T13:32:13,421 writing manifest file '/tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/SOURCES.txt' 2025-03-28T13:32:13,534 reading manifest file '/tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/SOURCES.txt' 2025-03-28T13:32:13,536 reading manifest template 'MANIFEST.in' 2025-03-28T13:32:13,541 adding license file 'LICENSE' 2025-03-28T13:32:13,545 writing manifest file '/tmp/pip-pip-egg-info-qd9szc2r/PyMLST.egg-info/SOURCES.txt' 2025-03-28T13:32:13,657 Preparing metadata (setup.py): finished with status 'done' 2025-03-28T13:32:13,663 Source in /tmp/pip-wheel-bpki83pm/pymlst_e9052936ff4646e59e2bfec3f39b3bd9 has version 2.2.0, which satisfies requirement pymlst==2.2.0 from https://files.pythonhosted.org/packages/f9/ab/7603a73eb36681c9b81757f2626058a3f816e91803f32bca22404e3be926/pymlst-2.2.0.tar.gz 2025-03-28T13:32:13,664 Removed pymlst==2.2.0 from https://files.pythonhosted.org/packages/f9/ab/7603a73eb36681c9b81757f2626058a3f816e91803f32bca22404e3be926/pymlst-2.2.0.tar.gz from build tracker '/tmp/pip-build-tracker-al76by37' 2025-03-28T13:32:13,672 WARNING: The candidate selected for download or install is a yanked version: 'pymlst' candidate (version 2.2.0 at https://files.pythonhosted.org/packages/f9/ab/7603a73eb36681c9b81757f2626058a3f816e91803f32bca22404e3be926/pymlst-2.2.0.tar.gz (from https://pypi.org/simple/pymlst/) (requires-python:>=3.7.0)) 2025-03-28T13:32:13,672 Reason for being yanked: Not working 2025-03-28T13:32:13,675 Created temporary directory: /tmp/pip-unpack-mg6c080k 2025-03-28T13:32:13,677 Created temporary directory: /tmp/pip-unpack-6q7d293l 2025-03-28T13:32:13,677 Building wheels for collected packages: pymlst 2025-03-28T13:32:13,684 Created temporary directory: /tmp/pip-wheel-w1dgs2n6 2025-03-28T13:32:13,684 Building wheel for pymlst (setup.py): started 2025-03-28T13:32:13,686 Destination directory: /tmp/pip-wheel-w1dgs2n6 2025-03-28T13:32:13,687 Running command python setup.py bdist_wheel 2025-03-28T13:32:14,239 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T13:32:14,239 !! 2025-03-28T13:32:14,241 ******************************************************************************** 2025-03-28T13:32:14,242 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T13:32:14,242 versions. Please use the underscore name 'description_file' instead. 2025-03-28T13:32:14,243 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T13:32:14,244 calls to avoid build errors in the future. 2025-03-28T13:32:14,245 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T13:32:14,246 ******************************************************************************** 2025-03-28T13:32:14,247 !! 2025-03-28T13:32:14,247 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T13:32:14,474 /usr/local/lib/python3.11/dist-packages/setuptools/__init__.py:94: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-03-28T13:32:14,475 !! 2025-03-28T13:32:14,476 ******************************************************************************** 2025-03-28T13:32:14,477 Requirements should be satisfied by a PEP 517 installer. 2025-03-28T13:32:14,477 If you are using pip, you can try `pip install --use-pep517`. 2025-03-28T13:32:14,478 ******************************************************************************** 2025-03-28T13:32:14,479 !! 2025-03-28T13:32:14,480 dist.fetch_build_eggs(dist.setup_requires) 2025-03-28T13:32:14,786 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T13:32:14,786 !! 2025-03-28T13:32:14,787 ******************************************************************************** 2025-03-28T13:32:14,788 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T13:32:14,789 versions. Please use the underscore name 'description_file' instead. 2025-03-28T13:32:14,790 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T13:32:14,790 calls to avoid build errors in the future. 2025-03-28T13:32:14,791 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T13:32:14,792 ******************************************************************************** 2025-03-28T13:32:14,793 !! 2025-03-28T13:32:14,793 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T13:32:14,794 running bdist_wheel 2025-03-28T13:32:14,927 running build 2025-03-28T13:32:14,928 running build_py 2025-03-28T13:32:14,958 creating build/lib/pymlst 2025-03-28T13:32:14,960 copying pymlst/__init__.py -> build/lib/pymlst 2025-03-28T13:32:14,962 copying pymlst/config.py -> build/lib/pymlst 2025-03-28T13:32:14,964 copying pymlst/version.py -> build/lib/pymlst 2025-03-28T13:32:14,966 copying pymlst/cmd.py -> build/lib/pymlst 2025-03-28T13:32:14,968 creating build/lib/pymlst/cla 2025-03-28T13:32:14,969 copying pymlst/cla/model.py -> build/lib/pymlst/cla 2025-03-28T13:32:14,971 copying pymlst/cla/__init__.py -> build/lib/pymlst/cla 2025-03-28T13:32:14,972 copying pymlst/cla/core.py -> build/lib/pymlst/cla 2025-03-28T13:32:14,976 creating build/lib/pymlst/common 2025-03-28T13:32:14,977 copying pymlst/common/exceptions.py -> build/lib/pymlst/common 2025-03-28T13:32:14,978 copying pymlst/common/psl.py -> build/lib/pymlst/common 2025-03-28T13:32:14,980 copying pymlst/common/mafft.py -> build/lib/pymlst/common 2025-03-28T13:32:14,982 copying pymlst/common/__init__.py -> build/lib/pymlst/common 2025-03-28T13:32:14,983 copying pymlst/common/blat.py -> build/lib/pymlst/common 2025-03-28T13:32:14,985 copying pymlst/common/utils.py -> build/lib/pymlst/common 2025-03-28T13:32:14,988 copying pymlst/common/flag.py -> build/lib/pymlst/common 2025-03-28T13:32:14,989 copying pymlst/common/kma.py -> build/lib/pymlst/common 2025-03-28T13:32:14,992 copying pymlst/common/web.py -> build/lib/pymlst/common 2025-03-28T13:32:14,994 creating build/lib/pymlst/wg 2025-03-28T13:32:14,995 copying pymlst/wg/model.py -> build/lib/pymlst/wg 2025-03-28T13:32:14,997 copying pymlst/wg/__init__.py -> build/lib/pymlst/wg 2025-03-28T13:32:14,999 copying pymlst/wg/extractors.py -> build/lib/pymlst/wg 2025-03-28T13:32:15,002 copying pymlst/wg/core.py -> build/lib/pymlst/wg 2025-03-28T13:32:15,005 creating build/lib/pymlst/cla/commands 2025-03-28T13:32:15,006 copying pymlst/cla/commands/import.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,008 copying pymlst/cla/commands/search.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,010 copying pymlst/cla/commands/remove.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,011 copying pymlst/cla/commands/__init__.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,013 copying pymlst/cla/commands/create.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,015 copying pymlst/cla/commands/info.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,016 copying pymlst/cla/commands/search2.py -> build/lib/pymlst/cla/commands 2025-03-28T13:32:15,019 creating build/lib/pymlst/common/commands 2025-03-28T13:32:15,020 copying pymlst/common/commands/__init__.py -> build/lib/pymlst/common/commands 2025-03-28T13:32:15,022 copying pymlst/common/commands/configure.py -> build/lib/pymlst/common/commands 2025-03-28T13:32:15,024 creating build/lib/pymlst/wg/commands 2025-03-28T13:32:15,025 copying pymlst/wg/commands/add.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,028 copying pymlst/wg/commands/import.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,029 copying pymlst/wg/commands/recombination.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,031 copying pymlst/wg/commands/distance.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,033 copying pymlst/wg/commands/remove.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,035 copying pymlst/wg/commands/sequence.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,037 copying pymlst/wg/commands/__init__.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,039 copying pymlst/wg/commands/create.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,041 copying pymlst/wg/commands/subgraph.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,043 copying pymlst/wg/commands/add2.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,044 copying pymlst/wg/commands/msa.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,046 copying pymlst/wg/commands/gene.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,048 copying pymlst/wg/commands/stats.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,050 copying pymlst/wg/commands/mlst.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,051 copying pymlst/wg/commands/strain.py -> build/lib/pymlst/wg/commands 2025-03-28T13:32:15,053 running egg_info 2025-03-28T13:32:15,080 writing PyMLST.egg-info/PKG-INFO 2025-03-28T13:32:15,083 writing dependency_links to PyMLST.egg-info/dependency_links.txt 2025-03-28T13:32:15,085 writing entry points to PyMLST.egg-info/entry_points.txt 2025-03-28T13:32:15,086 writing requirements to PyMLST.egg-info/requires.txt 2025-03-28T13:32:15,087 writing top-level names to PyMLST.egg-info/top_level.txt 2025-03-28T13:32:15,123 reading manifest file 'PyMLST.egg-info/SOURCES.txt' 2025-03-28T13:32:15,128 reading manifest template 'MANIFEST.in' 2025-03-28T13:32:15,133 adding license file 'LICENSE' 2025-03-28T13:32:15,138 writing manifest file 'PyMLST.egg-info/SOURCES.txt' 2025-03-28T13:32:15,140 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'pymlst.data.alembic' is absent from the `packages` configuration. 2025-03-28T13:32:15,140 !! 2025-03-28T13:32:15,141 ******************************************************************************** 2025-03-28T13:32:15,142 ############################ 2025-03-28T13:32:15,143 # Package would be ignored # 2025-03-28T13:32:15,143 ############################ 2025-03-28T13:32:15,144 Python recognizes 'pymlst.data.alembic' as an importable package[^1], 2025-03-28T13:32:15,144 but it is absent from setuptools' `packages` configuration. 2025-03-28T13:32:15,145 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T13:32:15,146 package, please make sure that 'pymlst.data.alembic' is explicitly added 2025-03-28T13:32:15,146 to the `packages` configuration field. 2025-03-28T13:32:15,147 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T13:32:15,148 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T13:32:15,149 instead of `find_packages(...)`/`find:`). 2025-03-28T13:32:15,150 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T13:32:15,151 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T13:32:15,152 If you don't want 'pymlst.data.alembic' to be distributed and are 2025-03-28T13:32:15,152 already explicitly excluding 'pymlst.data.alembic' via 2025-03-28T13:32:15,153 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T13:32:15,154 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T13:32:15,154 combination with a more fine grained `package-data` configuration. 2025-03-28T13:32:15,155 You can read more about "package data files" on setuptools documentation page: 2025-03-28T13:32:15,156 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T13:32:15,158 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T13:32:15,159 even if it does not contain any `.py` files. 2025-03-28T13:32:15,159 On the other hand, currently there is no concept of package data 2025-03-28T13:32:15,160 directory, all directories are treated like packages. 2025-03-28T13:32:15,160 ******************************************************************************** 2025-03-28T13:32:15,162 !! 2025-03-28T13:32:15,162 check.warn(importable) 2025-03-28T13:32:15,163 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'pymlst.data.alembic.cla' is absent from the `packages` configuration. 2025-03-28T13:32:15,164 !! 2025-03-28T13:32:15,164 ******************************************************************************** 2025-03-28T13:32:15,165 ############################ 2025-03-28T13:32:15,165 # Package would be ignored # 2025-03-28T13:32:15,166 ############################ 2025-03-28T13:32:15,166 Python recognizes 'pymlst.data.alembic.cla' as an importable package[^1], 2025-03-28T13:32:15,167 but it is absent from setuptools' `packages` configuration. 2025-03-28T13:32:15,168 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T13:32:15,169 package, please make sure that 'pymlst.data.alembic.cla' is explicitly added 2025-03-28T13:32:15,169 to the `packages` configuration field. 2025-03-28T13:32:15,170 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T13:32:15,171 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T13:32:15,171 instead of `find_packages(...)`/`find:`). 2025-03-28T13:32:15,172 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T13:32:15,173 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T13:32:15,174 If you don't want 'pymlst.data.alembic.cla' to be distributed and are 2025-03-28T13:32:15,175 already explicitly excluding 'pymlst.data.alembic.cla' via 2025-03-28T13:32:15,175 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T13:32:15,176 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T13:32:15,176 combination with a more fine grained `package-data` configuration. 2025-03-28T13:32:15,178 You can read more about "package data files" on setuptools documentation page: 2025-03-28T13:32:15,179 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T13:32:15,180 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T13:32:15,181 even if it does not contain any `.py` files. 2025-03-28T13:32:15,182 On the other hand, currently there is no concept of package data 2025-03-28T13:32:15,182 directory, all directories are treated like packages. 2025-03-28T13:32:15,183 ******************************************************************************** 2025-03-28T13:32:15,184 !! 2025-03-28T13:32:15,184 check.warn(importable) 2025-03-28T13:32:15,185 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'pymlst.data.alembic.cla.versions' is absent from the `packages` configuration. 2025-03-28T13:32:15,186 !! 2025-03-28T13:32:15,187 ******************************************************************************** 2025-03-28T13:32:15,187 ############################ 2025-03-28T13:32:15,188 # Package would be ignored # 2025-03-28T13:32:15,188 ############################ 2025-03-28T13:32:15,189 Python recognizes 'pymlst.data.alembic.cla.versions' as an importable package[^1], 2025-03-28T13:32:15,190 but it is absent from setuptools' `packages` configuration. 2025-03-28T13:32:15,191 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T13:32:15,191 package, please make sure that 'pymlst.data.alembic.cla.versions' is explicitly added 2025-03-28T13:32:15,192 to the `packages` configuration field. 2025-03-28T13:32:15,193 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T13:32:15,194 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T13:32:15,195 instead of `find_packages(...)`/`find:`). 2025-03-28T13:32:15,196 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T13:32:15,197 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T13:32:15,198 If you don't want 'pymlst.data.alembic.cla.versions' to be distributed and are 2025-03-28T13:32:15,198 already explicitly excluding 'pymlst.data.alembic.cla.versions' via 2025-03-28T13:32:15,199 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T13:32:15,199 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T13:32:15,200 combination with a more fine grained `package-data` configuration. 2025-03-28T13:32:15,200 You can read more about "package data files" on setuptools documentation page: 2025-03-28T13:32:15,201 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T13:32:15,203 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T13:32:15,203 even if it does not contain any `.py` files. 2025-03-28T13:32:15,204 On the other hand, currently there is no concept of package data 2025-03-28T13:32:15,204 directory, all directories are treated like packages. 2025-03-28T13:32:15,205 ******************************************************************************** 2025-03-28T13:32:15,206 !! 2025-03-28T13:32:15,206 check.warn(importable) 2025-03-28T13:32:15,207 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'pymlst.data.alembic.wg' is absent from the `packages` configuration. 2025-03-28T13:32:15,208 !! 2025-03-28T13:32:15,209 ******************************************************************************** 2025-03-28T13:32:15,209 ############################ 2025-03-28T13:32:15,210 # Package would be ignored # 2025-03-28T13:32:15,211 ############################ 2025-03-28T13:32:15,212 Python recognizes 'pymlst.data.alembic.wg' as an importable package[^1], 2025-03-28T13:32:15,212 but it is absent from setuptools' `packages` configuration. 2025-03-28T13:32:15,214 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T13:32:15,214 package, please make sure that 'pymlst.data.alembic.wg' is explicitly added 2025-03-28T13:32:15,215 to the `packages` configuration field. 2025-03-28T13:32:15,216 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T13:32:15,217 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T13:32:15,218 instead of `find_packages(...)`/`find:`). 2025-03-28T13:32:15,219 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T13:32:15,220 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T13:32:15,221 If you don't want 'pymlst.data.alembic.wg' to be distributed and are 2025-03-28T13:32:15,222 already explicitly excluding 'pymlst.data.alembic.wg' via 2025-03-28T13:32:15,222 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T13:32:15,223 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T13:32:15,223 combination with a more fine grained `package-data` configuration. 2025-03-28T13:32:15,224 You can read more about "package data files" on setuptools documentation page: 2025-03-28T13:32:15,226 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T13:32:15,228 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T13:32:15,228 even if it does not contain any `.py` files. 2025-03-28T13:32:15,229 On the other hand, currently there is no concept of package data 2025-03-28T13:32:15,230 directory, all directories are treated like packages. 2025-03-28T13:32:15,230 ******************************************************************************** 2025-03-28T13:32:15,231 !! 2025-03-28T13:32:15,231 check.warn(importable) 2025-03-28T13:32:15,232 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'pymlst.data.alembic.wg.versions' is absent from the `packages` configuration. 2025-03-28T13:32:15,232 !! 2025-03-28T13:32:15,233 ******************************************************************************** 2025-03-28T13:32:15,234 ############################ 2025-03-28T13:32:15,234 # Package would be ignored # 2025-03-28T13:32:15,234 ############################ 2025-03-28T13:32:15,235 Python recognizes 'pymlst.data.alembic.wg.versions' as an importable package[^1], 2025-03-28T13:32:15,235 but it is absent from setuptools' `packages` configuration. 2025-03-28T13:32:15,236 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T13:32:15,237 package, please make sure that 'pymlst.data.alembic.wg.versions' is explicitly added 2025-03-28T13:32:15,237 to the `packages` configuration field. 2025-03-28T13:32:15,238 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T13:32:15,239 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T13:32:15,239 instead of `find_packages(...)`/`find:`). 2025-03-28T13:32:15,240 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T13:32:15,241 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T13:32:15,243 If you don't want 'pymlst.data.alembic.wg.versions' to be distributed and are 2025-03-28T13:32:15,243 already explicitly excluding 'pymlst.data.alembic.wg.versions' via 2025-03-28T13:32:15,244 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T13:32:15,244 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T13:32:15,245 combination with a more fine grained `package-data` configuration. 2025-03-28T13:32:15,246 You can read more about "package data files" on setuptools documentation page: 2025-03-28T13:32:15,247 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T13:32:15,249 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T13:32:15,249 even if it does not contain any `.py` files. 2025-03-28T13:32:15,250 On the other hand, currently there is no concept of package data 2025-03-28T13:32:15,250 directory, all directories are treated like packages. 2025-03-28T13:32:15,251 ******************************************************************************** 2025-03-28T13:32:15,252 !! 2025-03-28T13:32:15,252 check.warn(importable) 2025-03-28T13:32:15,253 creating build/lib/pymlst/data/alembic 2025-03-28T13:32:15,253 copying pymlst/data/alembic/alembic.ini -> build/lib/pymlst/data/alembic 2025-03-28T13:32:15,254 creating build/lib/pymlst/data/alembic/cla 2025-03-28T13:32:15,254 copying pymlst/data/alembic/cla/env.py -> build/lib/pymlst/data/alembic/cla 2025-03-28T13:32:15,255 copying pymlst/data/alembic/cla/script.py.mako -> build/lib/pymlst/data/alembic/cla 2025-03-28T13:32:15,255 creating build/lib/pymlst/data/alembic/cla/versions 2025-03-28T13:32:15,256 copying pymlst/data/alembic/cla/versions/21efe503d07d_initial.py -> build/lib/pymlst/data/alembic/cla/versions 2025-03-28T13:32:15,257 copying pymlst/data/alembic/cla/versions/c0f871a99d96_add_database_infos.py -> build/lib/pymlst/data/alembic/cla/versions 2025-03-28T13:32:15,257 creating build/lib/pymlst/data/alembic/wg 2025-03-28T13:32:15,258 copying pymlst/data/alembic/wg/env.py -> build/lib/pymlst/data/alembic/wg 2025-03-28T13:32:15,258 copying pymlst/data/alembic/wg/script.py.mako -> build/lib/pymlst/data/alembic/wg 2025-03-28T13:32:15,259 creating build/lib/pymlst/data/alembic/wg/versions 2025-03-28T13:32:15,259 copying pymlst/data/alembic/wg/versions/52ae99cb5f33_initial.py -> build/lib/pymlst/data/alembic/wg/versions 2025-03-28T13:32:15,259 copying pymlst/data/alembic/wg/versions/a793f8f3fd83_add_database_infos.py -> build/lib/pymlst/data/alembic/wg/versions 2025-03-28T13:32:15,260 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-03-28T13:32:15,260 !! 2025-03-28T13:32:15,261 ******************************************************************************** 2025-03-28T13:32:15,262 Please avoid running ``setup.py`` directly. 2025-03-28T13:32:15,262 Instead, use pypa/build, pypa/installer or other 2025-03-28T13:32:15,262 standards-based tools. 2025-03-28T13:32:15,263 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-03-28T13:32:15,264 ******************************************************************************** 2025-03-28T13:32:15,265 !! 2025-03-28T13:32:15,266 self.initialize_options() 2025-03-28T13:32:15,266 installing to build/bdist.linux-armv7l/wheel 2025-03-28T13:32:15,266 running install 2025-03-28T13:32:15,273 running install_lib 2025-03-28T13:32:15,300 creating build/bdist.linux-armv7l/wheel 2025-03-28T13:32:15,302 creating build/bdist.linux-armv7l/wheel/pymlst 2025-03-28T13:32:15,304 creating build/bdist.linux-armv7l/wheel/pymlst/cla 2025-03-28T13:32:15,305 copying build/lib/pymlst/cla/model.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla 2025-03-28T13:32:15,307 copying build/lib/pymlst/cla/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla 2025-03-28T13:32:15,308 copying build/lib/pymlst/cla/core.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla 2025-03-28T13:32:15,312 creating build/bdist.linux-armv7l/wheel/pymlst/cla/commands 2025-03-28T13:32:15,313 copying build/lib/pymlst/cla/commands/import.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,315 copying build/lib/pymlst/cla/commands/search.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,317 copying build/lib/pymlst/cla/commands/remove.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,318 copying build/lib/pymlst/cla/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,320 copying build/lib/pymlst/cla/commands/create.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,322 copying build/lib/pymlst/cla/commands/info.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,323 copying build/lib/pymlst/cla/commands/search2.py -> build/bdist.linux-armv7l/wheel/./pymlst/cla/commands 2025-03-28T13:32:15,326 creating build/bdist.linux-armv7l/wheel/pymlst/common 2025-03-28T13:32:15,327 copying build/lib/pymlst/common/exceptions.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,329 copying build/lib/pymlst/common/psl.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,331 copying build/lib/pymlst/common/mafft.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,333 copying build/lib/pymlst/common/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,335 copying build/lib/pymlst/common/blat.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,337 copying build/lib/pymlst/common/utils.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,339 copying build/lib/pymlst/common/flag.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,342 creating build/bdist.linux-armv7l/wheel/pymlst/common/commands 2025-03-28T13:32:15,343 copying build/lib/pymlst/common/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst/common/commands 2025-03-28T13:32:15,344 copying build/lib/pymlst/common/commands/configure.py -> build/bdist.linux-armv7l/wheel/./pymlst/common/commands 2025-03-28T13:32:15,346 copying build/lib/pymlst/common/kma.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,348 copying build/lib/pymlst/common/web.py -> build/bdist.linux-armv7l/wheel/./pymlst/common 2025-03-28T13:32:15,350 copying build/lib/pymlst/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst 2025-03-28T13:32:15,352 creating build/bdist.linux-armv7l/wheel/pymlst/data 2025-03-28T13:32:15,354 creating build/bdist.linux-armv7l/wheel/pymlst/data/alembic 2025-03-28T13:32:15,356 creating build/bdist.linux-armv7l/wheel/pymlst/data/alembic/cla 2025-03-28T13:32:15,357 copying build/lib/pymlst/data/alembic/cla/env.py -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/cla 2025-03-28T13:32:15,359 copying build/lib/pymlst/data/alembic/cla/script.py.mako -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/cla 2025-03-28T13:32:15,362 creating build/bdist.linux-armv7l/wheel/pymlst/data/alembic/cla/versions 2025-03-28T13:32:15,363 copying build/lib/pymlst/data/alembic/cla/versions/21efe503d07d_initial.py -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/cla/versions 2025-03-28T13:32:15,365 copying build/lib/pymlst/data/alembic/cla/versions/c0f871a99d96_add_database_infos.py -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/cla/versions 2025-03-28T13:32:15,367 copying build/lib/pymlst/data/alembic/alembic.ini -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic 2025-03-28T13:32:15,370 creating build/bdist.linux-armv7l/wheel/pymlst/data/alembic/wg 2025-03-28T13:32:15,371 copying build/lib/pymlst/data/alembic/wg/env.py -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/wg 2025-03-28T13:32:15,374 copying build/lib/pymlst/data/alembic/wg/script.py.mako -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/wg 2025-03-28T13:32:15,376 creating build/bdist.linux-armv7l/wheel/pymlst/data/alembic/wg/versions 2025-03-28T13:32:15,377 copying build/lib/pymlst/data/alembic/wg/versions/52ae99cb5f33_initial.py -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/wg/versions 2025-03-28T13:32:15,379 copying build/lib/pymlst/data/alembic/wg/versions/a793f8f3fd83_add_database_infos.py -> build/bdist.linux-armv7l/wheel/./pymlst/data/alembic/wg/versions 2025-03-28T13:32:15,382 creating build/bdist.linux-armv7l/wheel/pymlst/wg 2025-03-28T13:32:15,383 copying build/lib/pymlst/wg/model.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg 2025-03-28T13:32:15,385 copying build/lib/pymlst/wg/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg 2025-03-28T13:32:15,387 copying build/lib/pymlst/wg/extractors.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg 2025-03-28T13:32:15,389 copying build/lib/pymlst/wg/core.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg 2025-03-28T13:32:15,392 creating build/bdist.linux-armv7l/wheel/pymlst/wg/commands 2025-03-28T13:32:15,393 copying build/lib/pymlst/wg/commands/add.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,395 copying build/lib/pymlst/wg/commands/import.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,398 copying build/lib/pymlst/wg/commands/recombination.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,399 copying build/lib/pymlst/wg/commands/distance.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,401 copying build/lib/pymlst/wg/commands/remove.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,403 copying build/lib/pymlst/wg/commands/sequence.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,405 copying build/lib/pymlst/wg/commands/__init__.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,407 copying build/lib/pymlst/wg/commands/create.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,409 copying build/lib/pymlst/wg/commands/subgraph.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,411 copying build/lib/pymlst/wg/commands/add2.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,412 copying build/lib/pymlst/wg/commands/msa.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,414 copying build/lib/pymlst/wg/commands/gene.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,416 copying build/lib/pymlst/wg/commands/stats.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,418 copying build/lib/pymlst/wg/commands/mlst.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,419 copying build/lib/pymlst/wg/commands/strain.py -> build/bdist.linux-armv7l/wheel/./pymlst/wg/commands 2025-03-28T13:32:15,421 copying build/lib/pymlst/config.py -> build/bdist.linux-armv7l/wheel/./pymlst 2025-03-28T13:32:15,423 copying build/lib/pymlst/version.py -> build/bdist.linux-armv7l/wheel/./pymlst 2025-03-28T13:32:15,425 copying build/lib/pymlst/cmd.py -> build/bdist.linux-armv7l/wheel/./pymlst 2025-03-28T13:32:15,427 running install_egg_info 2025-03-28T13:32:15,456 Copying PyMLST.egg-info to build/bdist.linux-armv7l/wheel/./PyMLST-2.2.0-py3.11.egg-info 2025-03-28T13:32:15,466 running install_scripts 2025-03-28T13:32:15,485 creating build/bdist.linux-armv7l/wheel/PyMLST-2.2.0.dist-info/WHEEL 2025-03-28T13:32:15,488 creating '/tmp/pip-wheel-w1dgs2n6/PyMLST-2.2.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-03-28T13:32:15,491 adding 'pymlst/__init__.py' 2025-03-28T13:32:15,492 adding 'pymlst/cmd.py' 2025-03-28T13:32:15,494 adding 'pymlst/config.py' 2025-03-28T13:32:15,495 adding 'pymlst/version.py' 2025-03-28T13:32:15,497 adding 'pymlst/cla/__init__.py' 2025-03-28T13:32:15,500 adding 'pymlst/cla/core.py' 2025-03-28T13:32:15,502 adding 'pymlst/cla/model.py' 2025-03-28T13:32:15,503 adding 'pymlst/cla/commands/__init__.py' 2025-03-28T13:32:15,505 adding 'pymlst/cla/commands/create.py' 2025-03-28T13:32:15,506 adding 'pymlst/cla/commands/import.py' 2025-03-28T13:32:15,507 adding 'pymlst/cla/commands/info.py' 2025-03-28T13:32:15,508 adding 'pymlst/cla/commands/remove.py' 2025-03-28T13:32:15,510 adding 'pymlst/cla/commands/search.py' 2025-03-28T13:32:15,511 adding 'pymlst/cla/commands/search2.py' 2025-03-28T13:32:15,512 adding 'pymlst/common/__init__.py' 2025-03-28T13:32:15,514 adding 'pymlst/common/blat.py' 2025-03-28T13:32:15,515 adding 'pymlst/common/exceptions.py' 2025-03-28T13:32:15,516 adding 'pymlst/common/flag.py' 2025-03-28T13:32:15,518 adding 'pymlst/common/kma.py' 2025-03-28T13:32:15,519 adding 'pymlst/common/mafft.py' 2025-03-28T13:32:15,520 adding 'pymlst/common/psl.py' 2025-03-28T13:32:15,522 adding 'pymlst/common/utils.py' 2025-03-28T13:32:15,524 adding 'pymlst/common/web.py' 2025-03-28T13:32:15,526 adding 'pymlst/common/commands/__init__.py' 2025-03-28T13:32:15,527 adding 'pymlst/common/commands/configure.py' 2025-03-28T13:32:15,529 adding 'pymlst/data/alembic/alembic.ini' 2025-03-28T13:32:15,531 adding 'pymlst/data/alembic/cla/env.py' 2025-03-28T13:32:15,534 adding 'pymlst/data/alembic/cla/script.py.mako' 2025-03-28T13:32:15,536 adding 'pymlst/data/alembic/cla/versions/21efe503d07d_initial.py' 2025-03-28T13:32:15,537 adding 'pymlst/data/alembic/cla/versions/c0f871a99d96_add_database_infos.py' 2025-03-28T13:32:15,539 adding 'pymlst/data/alembic/wg/env.py' 2025-03-28T13:32:15,540 adding 'pymlst/data/alembic/wg/script.py.mako' 2025-03-28T13:32:15,542 adding 'pymlst/data/alembic/wg/versions/52ae99cb5f33_initial.py' 2025-03-28T13:32:15,543 adding 'pymlst/data/alembic/wg/versions/a793f8f3fd83_add_database_infos.py' 2025-03-28T13:32:15,545 adding 'pymlst/wg/__init__.py' 2025-03-28T13:32:15,549 adding 'pymlst/wg/core.py' 2025-03-28T13:32:15,551 adding 'pymlst/wg/extractors.py' 2025-03-28T13:32:15,552 adding 'pymlst/wg/model.py' 2025-03-28T13:32:15,554 adding 'pymlst/wg/commands/__init__.py' 2025-03-28T13:32:15,555 adding 'pymlst/wg/commands/add.py' 2025-03-28T13:32:15,556 adding 'pymlst/wg/commands/add2.py' 2025-03-28T13:32:15,557 adding 'pymlst/wg/commands/create.py' 2025-03-28T13:32:15,558 adding 'pymlst/wg/commands/distance.py' 2025-03-28T13:32:15,559 adding 'pymlst/wg/commands/gene.py' 2025-03-28T13:32:15,561 adding 'pymlst/wg/commands/import.py' 2025-03-28T13:32:15,562 adding 'pymlst/wg/commands/mlst.py' 2025-03-28T13:32:15,563 adding 'pymlst/wg/commands/msa.py' 2025-03-28T13:32:15,565 adding 'pymlst/wg/commands/recombination.py' 2025-03-28T13:32:15,566 adding 'pymlst/wg/commands/remove.py' 2025-03-28T13:32:15,567 adding 'pymlst/wg/commands/sequence.py' 2025-03-28T13:32:15,568 adding 'pymlst/wg/commands/stats.py' 2025-03-28T13:32:15,570 adding 'pymlst/wg/commands/strain.py' 2025-03-28T13:32:15,571 adding 'pymlst/wg/commands/subgraph.py' 2025-03-28T13:32:15,572 adding 'PyMLST-2.2.0.dist-info/LICENSE' 2025-03-28T13:32:15,573 adding 'PyMLST-2.2.0.dist-info/METADATA' 2025-03-28T13:32:15,574 adding 'PyMLST-2.2.0.dist-info/WHEEL' 2025-03-28T13:32:15,575 adding 'PyMLST-2.2.0.dist-info/entry_points.txt' 2025-03-28T13:32:15,576 adding 'PyMLST-2.2.0.dist-info/top_level.txt' 2025-03-28T13:32:15,577 adding 'PyMLST-2.2.0.dist-info/RECORD' 2025-03-28T13:32:15,579 removing build/bdist.linux-armv7l/wheel 2025-03-28T13:32:15,710 Building wheel for pymlst (setup.py): finished with status 'done' 2025-03-28T13:32:15,713 Created wheel for pymlst: filename=PyMLST-2.2.0-py3-none-any.whl size=58906 sha256=c915538feda73b6751ef6a6b9741f62f25c84c0dd636d498a34ffc1b97bb6a97 2025-03-28T13:32:15,714 Stored in directory: /tmp/pip-ephem-wheel-cache-0fby1cl5/wheels/67/9b/c8/1ba1d87970de12f762db42c90d2c0c14bf6a99ff24af1f29c7 2025-03-28T13:32:15,726 Successfully built pymlst 2025-03-28T13:32:15,731 Removed build tracker: '/tmp/pip-build-tracker-al76by37'