2025-03-28T15:41:34,363 Created temporary directory: /tmp/pip-build-tracker-pziaajku 2025-03-28T15:41:34,364 Initialized build tracking at /tmp/pip-build-tracker-pziaajku 2025-03-28T15:41:34,364 Created build tracker: /tmp/pip-build-tracker-pziaajku 2025-03-28T15:41:34,365 Entered build tracker: /tmp/pip-build-tracker-pziaajku 2025-03-28T15:41:34,365 Created temporary directory: /tmp/pip-wheel-7crx1ydy 2025-03-28T15:41:34,369 Created temporary directory: /tmp/pip-ephem-wheel-cache-gbyf30rf 2025-03-28T15:41:34,413 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-03-28T15:41:34,416 2 location(s) to search for versions of abutils: 2025-03-28T15:41:34,416 * https://pypi.org/simple/abutils/ 2025-03-28T15:41:34,416 * https://www.piwheels.org/simple/abutils/ 2025-03-28T15:41:34,417 Fetching project page and analyzing links: https://pypi.org/simple/abutils/ 2025-03-28T15:41:34,418 Getting page https://pypi.org/simple/abutils/ 2025-03-28T15:41:34,419 Found index 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(requires-python:>=3.8), version: 0.4.18 2025-03-28T15:41:34,696 Skipping link: No binaries permitted for abutils: https://files.pythonhosted.org/packages/c5/81/8a9d99a2f18ae4e3486a3144bc86ba974b7572e0af7e393d94247c6c07c2/abutils-0.5.0-py3-none-any.whl (from https://pypi.org/simple/abutils/) (requires-python:>=3.8) 2025-03-28T15:41:34,697 Found link https://files.pythonhosted.org/packages/03/a6/9f22bbc825b9f9d4b1ab512b5dd6f839e0d34713e3d9314101dc256a6153/abutils-0.5.0.tar.gz (from https://pypi.org/simple/abutils/) (requires-python:>=3.8), version: 0.5.0 2025-03-28T15:41:34,698 Fetching project page and analyzing links: https://www.piwheels.org/simple/abutils/ 2025-03-28T15:41:34,698 Getting page https://www.piwheels.org/simple/abutils/ 2025-03-28T15:41:34,700 Found index url https://www.piwheels.org/simple/ 2025-03-28T15:41:34,859 Fetched page https://www.piwheels.org/simple/abutils/ as text/html 2025-03-28T15:41:34,869 Skipping link: No binaries permitted for abutils: 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candidates 2025-03-28T15:41:34,915 Collecting abutils==0.5.0 2025-03-28T15:41:34,918 Created temporary directory: /tmp/pip-unpack-adlcg63d 2025-03-28T15:41:35,149 Downloading abutils-0.5.0.tar.gz (86.1 MB) 2025-03-28T15:41:58,308 Added abutils==0.5.0 from https://files.pythonhosted.org/packages/03/a6/9f22bbc825b9f9d4b1ab512b5dd6f839e0d34713e3d9314101dc256a6153/abutils-0.5.0.tar.gz to build tracker '/tmp/pip-build-tracker-pziaajku' 2025-03-28T15:41:58,311 Running setup.py (path:/tmp/pip-wheel-7crx1ydy/abutils_3163974d231b461cb0d2bbf9a7957bb7/setup.py) egg_info for package abutils 2025-03-28T15:41:58,312 Created temporary directory: /tmp/pip-pip-egg-info-wj0zydz0 2025-03-28T15:41:58,313 Preparing metadata (setup.py): started 2025-03-28T15:41:58,314 Running command python setup.py egg_info 2025-03-28T15:41:58,840 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T15:41:58,840 !! 2025-03-28T15:41:58,841 ******************************************************************************** 2025-03-28T15:41:58,841 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T15:41:58,842 versions. Please use the underscore name 'description_file' instead. 2025-03-28T15:41:58,843 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T15:41:58,843 calls to avoid build errors in the future. 2025-03-28T15:41:58,844 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T15:41:58,845 ******************************************************************************** 2025-03-28T15:41:58,846 !! 2025-03-28T15:41:58,846 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T15:41:59,591 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T15:41:59,592 !! 2025-03-28T15:41:59,593 ******************************************************************************** 2025-03-28T15:41:59,594 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T15:41:59,595 versions. Please use the underscore name 'description_file' instead. 2025-03-28T15:41:59,596 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T15:41:59,597 calls to avoid build errors in the future. 2025-03-28T15:41:59,598 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T15:41:59,599 ******************************************************************************** 2025-03-28T15:41:59,600 !! 2025-03-28T15:41:59,601 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T15:41:59,628 running egg_info 2025-03-28T15:41:59,658 creating /tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info 2025-03-28T15:41:59,659 writing /tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/PKG-INFO 2025-03-28T15:41:59,663 writing dependency_links to /tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/dependency_links.txt 2025-03-28T15:41:59,665 writing requirements to /tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/requires.txt 2025-03-28T15:41:59,666 writing top-level names to /tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/top_level.txt 2025-03-28T15:41:59,668 writing manifest file '/tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/SOURCES.txt' 2025-03-28T15:41:59,766 reading manifest file '/tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/SOURCES.txt' 2025-03-28T15:41:59,768 reading manifest template 'MANIFEST.in' 2025-03-28T15:41:59,772 warning: no files found matching 'abutils/tenx/*' 2025-03-28T15:41:59,788 adding license file 'LICENSE' 2025-03-28T15:41:59,797 writing manifest file '/tmp/pip-pip-egg-info-wj0zydz0/abutils.egg-info/SOURCES.txt' 2025-03-28T15:41:59,907 Preparing metadata (setup.py): finished with status 'done' 2025-03-28T15:41:59,912 Source in /tmp/pip-wheel-7crx1ydy/abutils_3163974d231b461cb0d2bbf9a7957bb7 has version 0.5.0, which satisfies requirement abutils==0.5.0 from https://files.pythonhosted.org/packages/03/a6/9f22bbc825b9f9d4b1ab512b5dd6f839e0d34713e3d9314101dc256a6153/abutils-0.5.0.tar.gz 2025-03-28T15:41:59,913 Removed abutils==0.5.0 from https://files.pythonhosted.org/packages/03/a6/9f22bbc825b9f9d4b1ab512b5dd6f839e0d34713e3d9314101dc256a6153/abutils-0.5.0.tar.gz from build tracker '/tmp/pip-build-tracker-pziaajku' 2025-03-28T15:41:59,923 Created temporary directory: /tmp/pip-unpack-cwsycc86 2025-03-28T15:41:59,924 Created temporary directory: /tmp/pip-unpack-ouwmhat0 2025-03-28T15:41:59,925 Building wheels for collected packages: abutils 2025-03-28T15:41:59,929 Created temporary directory: /tmp/pip-wheel-d7xv64if 2025-03-28T15:41:59,929 Building wheel for abutils (setup.py): started 2025-03-28T15:41:59,930 Destination directory: /tmp/pip-wheel-d7xv64if 2025-03-28T15:41:59,931 Running command python setup.py bdist_wheel 2025-03-28T15:42:00,424 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T15:42:00,424 !! 2025-03-28T15:42:00,425 ******************************************************************************** 2025-03-28T15:42:00,426 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T15:42:00,426 versions. Please use the underscore name 'description_file' instead. 2025-03-28T15:42:00,427 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T15:42:00,427 calls to avoid build errors in the future. 2025-03-28T15:42:00,428 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T15:42:00,429 ******************************************************************************** 2025-03-28T15:42:00,430 !! 2025-03-28T15:42:00,431 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T15:42:00,958 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-03-28T15:42:00,958 !! 2025-03-28T15:42:00,959 ******************************************************************************** 2025-03-28T15:42:00,960 Usage of dash-separated 'description-file' will not be supported in future 2025-03-28T15:42:00,961 versions. Please use the underscore name 'description_file' instead. 2025-03-28T15:42:00,962 This deprecation is overdue, please update your project and remove deprecated 2025-03-28T15:42:00,963 calls to avoid build errors in the future. 2025-03-28T15:42:00,964 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-03-28T15:42:00,965 ******************************************************************************** 2025-03-28T15:42:00,966 !! 2025-03-28T15:42:00,966 opt = self.warn_dash_deprecation(opt, section) 2025-03-28T15:42:00,967 running bdist_wheel 2025-03-28T15:42:01,100 running build 2025-03-28T15:42:01,101 running build_py 2025-03-28T15:42:01,132 creating build/lib/abutils 2025-03-28T15:42:01,134 copying abutils/pl.py -> build/lib/abutils 2025-03-28T15:42:01,136 copying abutils/tl.py -> build/lib/abutils 2025-03-28T15:42:01,138 copying abutils/version.py -> build/lib/abutils 2025-03-28T15:42:01,140 copying abutils/cl.py -> build/lib/abutils 2025-03-28T15:42:01,142 copying abutils/bin.py -> build/lib/abutils 2025-03-28T15:42:01,144 copying abutils/pp.py -> build/lib/abutils 2025-03-28T15:42:01,146 copying abutils/log.py -> build/lib/abutils 2025-03-28T15:42:01,148 copying abutils/__init__.py -> build/lib/abutils 2025-03-28T15:42:01,150 copying abutils/io.py -> build/lib/abutils 2025-03-28T15:42:01,153 creating build/lib/abutils/preprocess 2025-03-28T15:42:01,154 copying abutils/preprocess/preprocess.py -> build/lib/abutils/preprocess 2025-03-28T15:42:01,157 copying abutils/preprocess/__init__.py -> build/lib/abutils/preprocess 2025-03-28T15:42:01,160 creating build/lib/abutils/tests 2025-03-28T15:42:01,161 copying abutils/tests/test_clonify.py -> build/lib/abutils/tests 2025-03-28T15:42:01,163 copying abutils/tests/test_color.py -> build/lib/abutils/tests 2025-03-28T15:42:01,166 copying abutils/tests/test_cloning.py -> build/lib/abutils/tests 2025-03-28T15:42:01,168 copying abutils/tests/test_alignment.py -> build/lib/abutils/tests 2025-03-28T15:42:01,170 copying abutils/tests/test_cluster.py -> build/lib/abutils/tests 2025-03-28T15:42:01,172 copying abutils/tests/test_pair.py -> build/lib/abutils/tests 2025-03-28T15:42:01,175 copying abutils/tests/test_phylo.py -> build/lib/abutils/tests 2025-03-28T15:42:01,177 copying abutils/tests/test_sequence.py -> build/lib/abutils/tests 2025-03-28T15:42:01,179 copying abutils/tests/test_utilities.py -> build/lib/abutils/tests 2025-03-28T15:42:01,182 copying abutils/tests/__init__.py -> build/lib/abutils/tests 2025-03-28T15:42:01,184 creating build/lib/abutils/core 2025-03-28T15:42:01,185 copying abutils/core/pair.py -> build/lib/abutils/core 2025-03-28T15:42:01,188 copying abutils/core/lineage.py -> build/lib/abutils/core 2025-03-28T15:42:01,191 copying abutils/core/sequence.py -> build/lib/abutils/core 2025-03-28T15:42:01,195 copying abutils/core/__init__.py -> build/lib/abutils/core 2025-03-28T15:42:01,197 creating build/lib/abutils/utils 2025-03-28T15:42:01,198 copying abutils/utils/alignment.py -> build/lib/abutils/utils 2025-03-28T15:42:01,202 copying abutils/utils/seqio.py -> build/lib/abutils/utils 2025-03-28T15:42:01,204 copying abutils/utils/color.py -> build/lib/abutils/utils 2025-03-28T15:42:01,206 copying abutils/utils/utilities.py -> build/lib/abutils/utils 2025-03-28T15:42:01,208 copying abutils/utils/ssh_tunnel.py -> build/lib/abutils/utils 2025-03-28T15:42:01,211 copying abutils/utils/database.py -> build/lib/abutils/utils 2025-03-28T15:42:01,213 copying abutils/utils/pipeline.py -> build/lib/abutils/utils 2025-03-28T15:42:01,216 copying abutils/utils/cluster.py -> build/lib/abutils/utils 2025-03-28T15:42:01,219 copying abutils/utils/germlines.py -> build/lib/abutils/utils 2025-03-28T15:42:01,222 copying abutils/utils/codons.py -> build/lib/abutils/utils 2025-03-28T15:42:01,223 copying abutils/utils/mongodb.py -> build/lib/abutils/utils 2025-03-28T15:42:01,226 copying abutils/utils/circos.py -> build/lib/abutils/utils 2025-03-28T15:42:01,228 copying abutils/utils/phylogeny.py -> build/lib/abutils/utils 2025-03-28T15:42:01,230 copying abutils/utils/decorators.py -> build/lib/abutils/utils 2025-03-28T15:42:01,232 copying abutils/utils/progbar.py -> build/lib/abutils/utils 2025-03-28T15:42:01,234 copying abutils/utils/s3.py -> build/lib/abutils/utils 2025-03-28T15:42:01,237 copying abutils/utils/convert.py -> build/lib/abutils/utils 2025-03-28T15:42:01,239 copying abutils/utils/click.py -> build/lib/abutils/utils 2025-03-28T15:42:01,240 copying abutils/utils/log.py -> build/lib/abutils/utils 2025-03-28T15:42:01,242 copying abutils/utils/__init__.py -> build/lib/abutils/utils 2025-03-28T15:42:01,244 copying abutils/utils/jobs.py -> build/lib/abutils/utils 2025-03-28T15:42:01,247 creating build/lib/abutils/plots 2025-03-28T15:42:01,248 copying abutils/plots/utils.py -> build/lib/abutils/plots 2025-03-28T15:42:01,250 copying abutils/plots/bar.py -> build/lib/abutils/plots 2025-03-28T15:42:01,253 copying abutils/plots/summary.py -> build/lib/abutils/plots 2025-03-28T15:42:01,255 copying abutils/plots/kde.py -> build/lib/abutils/plots 2025-03-28T15:42:01,258 copying abutils/plots/ridge.py -> build/lib/abutils/plots 2025-03-28T15:42:01,260 copying abutils/plots/data.py -> build/lib/abutils/plots 2025-03-28T15:42:01,263 copying abutils/plots/scatter.py -> build/lib/abutils/plots 2025-03-28T15:42:01,265 copying abutils/plots/donut.py -> build/lib/abutils/plots 2025-03-28T15:42:01,268 copying abutils/plots/lineage.py -> build/lib/abutils/plots 2025-03-28T15:42:01,270 copying abutils/plots/heatmap.py -> build/lib/abutils/plots 2025-03-28T15:42:01,273 copying abutils/plots/ring.py -> build/lib/abutils/plots 2025-03-28T15:42:01,275 copying abutils/plots/__init__.py -> build/lib/abutils/plots 2025-03-28T15:42:01,277 copying abutils/plots/base.py -> build/lib/abutils/plots 2025-03-28T15:42:01,280 creating build/lib/abutils/tools 2025-03-28T15:42:01,281 copying abutils/tools/alignment.py -> build/lib/abutils/tools 2025-03-28T15:42:01,285 copying abutils/tools/anarci.py -> build/lib/abutils/tools 2025-03-28T15:42:01,286 copying abutils/tools/cluster.py -> build/lib/abutils/tools 2025-03-28T15:42:01,290 copying abutils/tools/clonify.py -> build/lib/abutils/tools 2025-03-28T15:42:01,293 copying abutils/tools/similarity.py -> build/lib/abutils/tools 2025-03-28T15:42:01,296 copying abutils/tools/phylo.py -> build/lib/abutils/tools 2025-03-28T15:42:01,299 copying abutils/tools/preprocessing.py -> build/lib/abutils/tools 2025-03-28T15:42:01,301 copying abutils/tools/cloning.py -> build/lib/abutils/tools 2025-03-28T15:42:01,304 copying abutils/tools/log.py -> build/lib/abutils/tools 2025-03-28T15:42:01,306 copying abutils/tools/__init__.py -> build/lib/abutils/tools 2025-03-28T15:42:01,307 copying abutils/tools/search.py -> build/lib/abutils/tools 2025-03-28T15:42:01,310 creating build/lib/abutils/plots/mixins 2025-03-28T15:42:01,312 copying abutils/plots/mixins/hue.py -> build/lib/abutils/plots/mixins 2025-03-28T15:42:01,314 copying abutils/plots/mixins/__init__.py -> build/lib/abutils/plots/mixins 2025-03-28T15:42:01,316 creating build/lib/abutils/plots/models 2025-03-28T15:42:01,317 copying abutils/plots/models/data.py -> build/lib/abutils/plots/models 2025-03-28T15:42:01,320 copying abutils/plots/models/__init__.py -> build/lib/abutils/plots/models 2025-03-28T15:42:01,321 running egg_info 2025-03-28T15:42:01,349 writing abutils.egg-info/PKG-INFO 2025-03-28T15:42:01,352 writing dependency_links to abutils.egg-info/dependency_links.txt 2025-03-28T15:42:01,355 writing requirements to abutils.egg-info/requires.txt 2025-03-28T15:42:01,356 writing top-level names to abutils.egg-info/top_level.txt 2025-03-28T15:42:01,394 reading manifest file 'abutils.egg-info/SOURCES.txt' 2025-03-28T15:42:01,408 reading manifest template 'MANIFEST.in' 2025-03-28T15:42:01,411 warning: no files found matching 'abutils/tenx/*' 2025-03-28T15:42:01,424 adding license file 'LICENSE' 2025-03-28T15:42:01,434 writing manifest file 'abutils.egg-info/SOURCES.txt' 2025-03-28T15:42:01,437 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries' is absent from the `packages` configuration. 2025-03-28T15:42:01,437 !! 2025-03-28T15:42:01,439 ******************************************************************************** 2025-03-28T15:42:01,439 ############################ 2025-03-28T15:42:01,440 # Package would be ignored # 2025-03-28T15:42:01,441 ############################ 2025-03-28T15:42:01,441 Python recognizes 'abutils.binaries' as an importable package[^1], 2025-03-28T15:42:01,442 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,443 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,443 package, please make sure that 'abutils.binaries' is explicitly added 2025-03-28T15:42:01,444 to the `packages` configuration field. 2025-03-28T15:42:01,445 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,445 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,446 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,447 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,448 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,449 If you don't want 'abutils.binaries' to be distributed and are 2025-03-28T15:42:01,450 already explicitly excluding 'abutils.binaries' via 2025-03-28T15:42:01,450 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,452 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,452 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,453 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,454 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,455 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,455 even if it does not contain any `.py` files. 2025-03-28T15:42:01,456 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,457 directory, all directories are treated like packages. 2025-03-28T15:42:01,457 ******************************************************************************** 2025-03-28T15:42:01,458 !! 2025-03-28T15:42:01,458 check.warn(importable) 2025-03-28T15:42:01,459 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries.mafft_darwin' is absent from the `packages` configuration. 2025-03-28T15:42:01,460 !! 2025-03-28T15:42:01,461 ******************************************************************************** 2025-03-28T15:42:01,461 ############################ 2025-03-28T15:42:01,462 # Package would be ignored # 2025-03-28T15:42:01,463 ############################ 2025-03-28T15:42:01,464 Python recognizes 'abutils.binaries.mafft_darwin' as an importable package[^1], 2025-03-28T15:42:01,465 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,466 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,466 package, please make sure that 'abutils.binaries.mafft_darwin' is explicitly added 2025-03-28T15:42:01,467 to the `packages` configuration field. 2025-03-28T15:42:01,470 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,470 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,471 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,472 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,473 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,475 If you don't want 'abutils.binaries.mafft_darwin' to be distributed and are 2025-03-28T15:42:01,475 already explicitly excluding 'abutils.binaries.mafft_darwin' via 2025-03-28T15:42:01,476 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,476 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,477 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,478 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,479 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,484 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,484 even if it does not contain any `.py` files. 2025-03-28T15:42:01,485 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,485 directory, all directories are treated like packages. 2025-03-28T15:42:01,486 ******************************************************************************** 2025-03-28T15:42:01,487 !! 2025-03-28T15:42:01,487 check.warn(importable) 2025-03-28T15:42:01,488 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries.mafft_darwin.mafftdir.bin' is absent from the `packages` configuration. 2025-03-28T15:42:01,488 !! 2025-03-28T15:42:01,489 ******************************************************************************** 2025-03-28T15:42:01,490 ############################ 2025-03-28T15:42:01,490 # Package would be ignored # 2025-03-28T15:42:01,491 ############################ 2025-03-28T15:42:01,491 Python recognizes 'abutils.binaries.mafft_darwin.mafftdir.bin' as an importable package[^1], 2025-03-28T15:42:01,491 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,493 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,493 package, please make sure that 'abutils.binaries.mafft_darwin.mafftdir.bin' is explicitly added 2025-03-28T15:42:01,494 to the `packages` configuration field. 2025-03-28T15:42:01,494 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,495 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,495 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,496 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,497 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,498 If you don't want 'abutils.binaries.mafft_darwin.mafftdir.bin' to be distributed and are 2025-03-28T15:42:01,498 already explicitly excluding 'abutils.binaries.mafft_darwin.mafftdir.bin' via 2025-03-28T15:42:01,499 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,499 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,500 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,501 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,502 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,505 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,505 even if it does not contain any `.py` files. 2025-03-28T15:42:01,506 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,507 directory, all directories are treated like packages. 2025-03-28T15:42:01,507 ******************************************************************************** 2025-03-28T15:42:01,509 !! 2025-03-28T15:42:01,509 check.warn(importable) 2025-03-28T15:42:01,510 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries.mafft_darwin.mafftdir.libexec' is absent from the `packages` configuration. 2025-03-28T15:42:01,510 !! 2025-03-28T15:42:01,511 ******************************************************************************** 2025-03-28T15:42:01,512 ############################ 2025-03-28T15:42:01,513 # Package would be ignored # 2025-03-28T15:42:01,513 ############################ 2025-03-28T15:42:01,514 Python recognizes 'abutils.binaries.mafft_darwin.mafftdir.libexec' as an importable package[^1], 2025-03-28T15:42:01,514 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,516 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,517 package, please make sure that 'abutils.binaries.mafft_darwin.mafftdir.libexec' is explicitly added 2025-03-28T15:42:01,517 to the `packages` configuration field. 2025-03-28T15:42:01,518 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,519 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,520 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,521 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,522 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,523 If you don't want 'abutils.binaries.mafft_darwin.mafftdir.libexec' to be distributed and are 2025-03-28T15:42:01,523 already explicitly excluding 'abutils.binaries.mafft_darwin.mafftdir.libexec' via 2025-03-28T15:42:01,524 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,524 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,525 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,525 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,526 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,528 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,528 even if it does not contain any `.py` files. 2025-03-28T15:42:01,529 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,529 directory, all directories are treated like packages. 2025-03-28T15:42:01,529 ******************************************************************************** 2025-03-28T15:42:01,530 !! 2025-03-28T15:42:01,531 check.warn(importable) 2025-03-28T15:42:01,531 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries.mafft_linux' is absent from the `packages` configuration. 2025-03-28T15:42:01,532 !! 2025-03-28T15:42:01,537 ******************************************************************************** 2025-03-28T15:42:01,538 ############################ 2025-03-28T15:42:01,538 # Package would be ignored # 2025-03-28T15:42:01,539 ############################ 2025-03-28T15:42:01,540 Python recognizes 'abutils.binaries.mafft_linux' as an importable package[^1], 2025-03-28T15:42:01,541 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,542 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,543 package, please make sure that 'abutils.binaries.mafft_linux' is explicitly added 2025-03-28T15:42:01,543 to the `packages` configuration field. 2025-03-28T15:42:01,545 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,545 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,546 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,547 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,548 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,549 If you don't want 'abutils.binaries.mafft_linux' to be distributed and are 2025-03-28T15:42:01,550 already explicitly excluding 'abutils.binaries.mafft_linux' via 2025-03-28T15:42:01,551 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,551 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,552 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,553 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,555 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,557 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,557 even if it does not contain any `.py` files. 2025-03-28T15:42:01,558 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,559 directory, all directories are treated like packages. 2025-03-28T15:42:01,559 ******************************************************************************** 2025-03-28T15:42:01,561 !! 2025-03-28T15:42:01,561 check.warn(importable) 2025-03-28T15:42:01,562 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries.mafft_linux.mafftdir.bin' is absent from the `packages` configuration. 2025-03-28T15:42:01,562 !! 2025-03-28T15:42:01,563 ******************************************************************************** 2025-03-28T15:42:01,564 ############################ 2025-03-28T15:42:01,565 # Package would be ignored # 2025-03-28T15:42:01,565 ############################ 2025-03-28T15:42:01,566 Python recognizes 'abutils.binaries.mafft_linux.mafftdir.bin' as an importable package[^1], 2025-03-28T15:42:01,578 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,587 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,617 package, please make sure that 'abutils.binaries.mafft_linux.mafftdir.bin' is explicitly added 2025-03-28T15:42:01,644 to the `packages` configuration field. 2025-03-28T15:42:01,669 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,669 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,670 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,671 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,672 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,673 If you don't want 'abutils.binaries.mafft_linux.mafftdir.bin' to be distributed and are 2025-03-28T15:42:01,674 already explicitly excluding 'abutils.binaries.mafft_linux.mafftdir.bin' via 2025-03-28T15:42:01,674 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,675 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,676 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,677 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,678 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,679 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,680 even if it does not contain any `.py` files. 2025-03-28T15:42:01,681 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,681 directory, all directories are treated like packages. 2025-03-28T15:42:01,683 ******************************************************************************** 2025-03-28T15:42:01,685 !! 2025-03-28T15:42:01,686 check.warn(importable) 2025-03-28T15:42:01,687 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries.mafft_linux.mafftdir.libexec' is absent from the `packages` configuration. 2025-03-28T15:42:01,688 !! 2025-03-28T15:42:01,693 ******************************************************************************** 2025-03-28T15:42:01,695 ############################ 2025-03-28T15:42:01,695 # Package would be ignored # 2025-03-28T15:42:01,696 ############################ 2025-03-28T15:42:01,697 Python recognizes 'abutils.binaries.mafft_linux.mafftdir.libexec' as an importable package[^1], 2025-03-28T15:42:01,698 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,704 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,705 package, please make sure that 'abutils.binaries.mafft_linux.mafftdir.libexec' is explicitly added 2025-03-28T15:42:01,705 to the `packages` configuration field. 2025-03-28T15:42:01,706 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,707 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,707 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,711 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,711 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,713 If you don't want 'abutils.binaries.mafft_linux.mafftdir.libexec' to be distributed and are 2025-03-28T15:42:01,713 already explicitly excluding 'abutils.binaries.mafft_linux.mafftdir.libexec' via 2025-03-28T15:42:01,713 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,714 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,714 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,715 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,716 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,718 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,718 even if it does not contain any `.py` files. 2025-03-28T15:42:01,720 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,725 directory, all directories are treated like packages. 2025-03-28T15:42:01,732 ******************************************************************************** 2025-03-28T15:42:01,733 !! 2025-03-28T15:42:01,734 check.warn(importable) 2025-03-28T15:42:01,735 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.utils.matrices' is absent from the `packages` configuration. 2025-03-28T15:42:01,735 !! 2025-03-28T15:42:01,744 ******************************************************************************** 2025-03-28T15:42:01,745 ############################ 2025-03-28T15:42:01,745 # Package would be ignored # 2025-03-28T15:42:01,746 ############################ 2025-03-28T15:42:01,747 Python recognizes 'abutils.utils.matrices' as an importable package[^1], 2025-03-28T15:42:01,747 but it is absent from setuptools' `packages` configuration. 2025-03-28T15:42:01,749 This leads to an ambiguous overall configuration. If you want to distribute this 2025-03-28T15:42:01,749 package, please make sure that 'abutils.utils.matrices' is explicitly added 2025-03-28T15:42:01,750 to the `packages` configuration field. 2025-03-28T15:42:01,751 Alternatively, you can also rely on setuptools' discovery methods 2025-03-28T15:42:01,752 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-03-28T15:42:01,752 instead of `find_packages(...)`/`find:`). 2025-03-28T15:42:01,753 You can read more about "package discovery" on setuptools documentation page: 2025-03-28T15:42:01,755 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-03-28T15:42:01,756 If you don't want 'abutils.utils.matrices' to be distributed and are 2025-03-28T15:42:01,757 already explicitly excluding 'abutils.utils.matrices' via 2025-03-28T15:42:01,757 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-03-28T15:42:01,758 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-03-28T15:42:01,759 combination with a more fine grained `package-data` configuration. 2025-03-28T15:42:01,760 You can read more about "package data files" on setuptools documentation page: 2025-03-28T15:42:01,761 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-03-28T15:42:01,762 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-03-28T15:42:01,762 even if it does not contain any `.py` files. 2025-03-28T15:42:01,763 On the other hand, currently there is no concept of package data 2025-03-28T15:42:01,763 directory, all directories are treated like packages. 2025-03-28T15:42:01,764 ******************************************************************************** 2025-03-28T15:42:01,765 !! 2025-03-28T15:42:01,765 check.warn(importable) 2025-03-28T15:42:01,765 creating build/lib/abutils/binaries 2025-03-28T15:42:01,771 copying abutils/binaries/cdhit_darwin_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,772 copying abutils/binaries/cdhit_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,773 copying abutils/binaries/cdhit_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,783 copying abutils/binaries/fastp_darwin -> build/lib/abutils/binaries 2025-03-28T15:42:01,820 copying abutils/binaries/fastp_linux -> build/lib/abutils/binaries 2025-03-28T15:42:01,849 copying abutils/binaries/fasttree_darwin_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,852 copying abutils/binaries/fasttree_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,853 copying abutils/binaries/fasttree_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,853 copying abutils/binaries/minimap2_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,854 copying abutils/binaries/minimap2_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,854 copying abutils/binaries/mmseqs_darwin_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:01,855 copying abutils/binaries/mmseqs_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:02,402 copying abutils/binaries/mmseqs_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,050 copying abutils/binaries/muscle3_darwin -> build/lib/abutils/binaries 2025-03-28T15:42:05,069 copying abutils/binaries/muscle3_linux -> build/lib/abutils/binaries 2025-03-28T15:42:05,088 copying abutils/binaries/muscle_darwin_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,139 copying abutils/binaries/muscle_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,189 copying abutils/binaries/muscle_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,307 copying abutils/binaries/sickle_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,313 copying abutils/binaries/sickle_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,320 copying abutils/binaries/vsearch_darwin_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,344 copying abutils/binaries/vsearch_darwin_arm64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,378 copying abutils/binaries/vsearch_linux_amd64 -> build/lib/abutils/binaries 2025-03-28T15:42:05,458 creating build/lib/abutils/binaries/mafft_darwin 2025-03-28T15:42:05,459 copying abutils/binaries/mafft_darwin/mafft.bat -> build/lib/abutils/binaries/mafft_darwin 2025-03-28T15:42:05,464 creating build/lib/abutils/binaries/mafft_darwin/mafftdir/bin 2025-03-28T15:42:05,467 copying abutils/binaries/mafft_darwin/mafftdir/bin/mafft -> build/lib/abutils/binaries/mafft_darwin/mafftdir/bin 2025-03-28T15:42:05,475 creating build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,477 copying abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,568 copying abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,594 copying abutils/binaries/mafft_darwin/mafftdir/libexec/countlen -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,606 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,896 copying abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,930 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,960 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,979 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:05,998 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,030 copying abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,039 copying abutils/binaries/mafft_darwin/mafftdir/libexec/filter -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,053 copying abutils/binaries/mafft_darwin/mafftdir/libexec/getlag -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,077 copying abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,083 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,098 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,100 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,127 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,130 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,133 copying abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,188 copying abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,214 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,230 copying abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,249 copying abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,275 copying abutils/binaries/mafft_darwin/mafftdir/libexec/pairash -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,301 copying abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,327 copying abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,344 copying abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,359 copying abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,373 copying abutils/binaries/mafft_darwin/mafftdir/libexec/score -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,388 copying abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,391 copying abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,399 copying abutils/binaries/mafft_darwin/mafftdir/libexec/setcore -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,430 copying abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,445 copying abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,463 copying abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,489 copying abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,518 copying abutils/binaries/mafft_darwin/mafftdir/libexec/version -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:06,523 creating build/lib/abutils/binaries/mafft_linux 2025-03-28T15:42:06,524 copying abutils/binaries/mafft_linux/mafft.bat -> build/lib/abutils/binaries/mafft_linux 2025-03-28T15:42:06,526 creating build/lib/abutils/binaries/mafft_linux/mafftdir/bin 2025-03-28T15:42:06,528 copying abutils/binaries/mafft_linux/mafftdir/bin/mafft -> build/lib/abutils/binaries/mafft_linux/mafftdir/bin 2025-03-28T15:42:06,533 creating build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,534 copying abutils/binaries/mafft_linux/mafftdir/libexec/addsingle -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,560 copying abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,577 copying abutils/binaries/mafft_linux/mafftdir/libexec/countlen -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,590 copying abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,594 copying abutils/binaries/mafft_linux/mafftdir/libexec/dash_client -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,658 copying abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,661 copying abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,684 copying abutils/binaries/mafft_linux/mafftdir/libexec/dndblast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,706 copying abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,722 copying abutils/binaries/mafft_linux/mafftdir/libexec/dndpre -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,739 copying abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,760 copying abutils/binaries/mafft_linux/mafftdir/libexec/f2cl -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,772 copying abutils/binaries/mafft_linux/mafftdir/libexec/filter -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,790 copying abutils/binaries/mafft_linux/mafftdir/libexec/getlag -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,808 copying abutils/binaries/mafft_linux/mafftdir/libexec/hat3 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,810 copying abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,822 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,846 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,848 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,876 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,879 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,882 copying abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,900 copying abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,947 copying abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,963 copying abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:06,980 copying abutils/binaries/mafft_linux/mafftdir/libexec/nodepair -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:07,002 copying abutils/binaries/mafft_linux/mafftdir/libexec/pairash -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:07,022 copying abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:07,041 copying abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:07,057 copying abutils/binaries/mafft_linux/mafftdir/libexec/replaceu -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,576 copying abutils/binaries/mafft_linux/mafftdir/libexec/restoreu -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,616 copying abutils/binaries/mafft_linux/mafftdir/libexec/score -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,660 copying abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,666 copying abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,692 copying abutils/binaries/mafft_linux/mafftdir/libexec/setcore -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,747 copying abutils/binaries/mafft_linux/mafftdir/libexec/setdirection -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,793 copying abutils/binaries/mafft_linux/mafftdir/libexec/sextet5 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,846 copying abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,905 copying abutils/binaries/mafft_linux/mafftdir/libexec/tbfast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,954 copying abutils/binaries/mafft_linux/mafftdir/libexec/version -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:08,976 creating build/lib/abutils/utils/matrices 2025-03-28T15:42:08,977 copying abutils/utils/matrices/blosum62 -> build/lib/abutils/utils/matrices 2025-03-28T15:42:08,981 copying abutils/utils/matrices/match1mismatch0 -> build/lib/abutils/utils/matrices 2025-03-28T15:42:08,985 copying abutils/utils/matrices/match3mismatch2 -> build/lib/abutils/utils/matrices 2025-03-28T15:42:09,038 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-03-28T15:42:09,039 !! 2025-03-28T15:42:09,040 ******************************************************************************** 2025-03-28T15:42:09,041 Please avoid running ``setup.py`` directly. 2025-03-28T15:42:09,041 Instead, use pypa/build, pypa/installer or other 2025-03-28T15:42:09,042 standards-based tools. 2025-03-28T15:42:09,043 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-03-28T15:42:09,044 ******************************************************************************** 2025-03-28T15:42:09,045 !! 2025-03-28T15:42:09,046 self.initialize_options() 2025-03-28T15:42:09,080 installing to build/bdist.linux-armv7l/wheel 2025-03-28T15:42:09,080 running install 2025-03-28T15:42:09,115 running install_lib 2025-03-28T15:42:09,146 creating build/bdist.linux-armv7l/wheel 2025-03-28T15:42:09,149 creating build/bdist.linux-armv7l/wheel/abutils 2025-03-28T15:42:09,150 copying build/lib/abutils/pl.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:09,153 creating build/bdist.linux-armv7l/wheel/abutils/preprocess 2025-03-28T15:42:09,154 copying build/lib/abutils/preprocess/preprocess.py -> build/bdist.linux-armv7l/wheel/./abutils/preprocess 2025-03-28T15:42:09,157 copying build/lib/abutils/preprocess/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/preprocess 2025-03-28T15:42:09,159 copying build/lib/abutils/tl.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:09,162 creating build/bdist.linux-armv7l/wheel/abutils/tests 2025-03-28T15:42:09,163 copying build/lib/abutils/tests/test_clonify.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,165 copying build/lib/abutils/tests/test_color.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,168 copying build/lib/abutils/tests/test_cloning.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,170 copying build/lib/abutils/tests/test_alignment.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,173 copying build/lib/abutils/tests/test_cluster.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,175 copying build/lib/abutils/tests/test_pair.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,178 copying build/lib/abutils/tests/test_phylo.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,180 copying build/lib/abutils/tests/test_sequence.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,183 copying build/lib/abutils/tests/test_utilities.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,186 copying build/lib/abutils/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-03-28T15:42:09,188 copying build/lib/abutils/version.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:09,191 creating build/bdist.linux-armv7l/wheel/abutils/core 2025-03-28T15:42:09,192 copying build/lib/abutils/core/pair.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-03-28T15:42:09,196 copying build/lib/abutils/core/lineage.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-03-28T15:42:09,199 copying build/lib/abutils/core/sequence.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-03-28T15:42:09,203 copying build/lib/abutils/core/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-03-28T15:42:09,206 creating build/bdist.linux-armv7l/wheel/abutils/utils 2025-03-28T15:42:09,208 copying build/lib/abutils/utils/alignment.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,212 copying build/lib/abutils/utils/seqio.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,215 copying build/lib/abutils/utils/color.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,217 copying build/lib/abutils/utils/utilities.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,219 copying build/lib/abutils/utils/ssh_tunnel.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,221 copying build/lib/abutils/utils/database.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,224 creating build/bdist.linux-armv7l/wheel/abutils/utils/matrices 2025-03-28T15:42:09,225 copying build/lib/abutils/utils/matrices/match1mismatch0 -> build/bdist.linux-armv7l/wheel/./abutils/utils/matrices 2025-03-28T15:42:09,227 copying build/lib/abutils/utils/matrices/match3mismatch2 -> build/bdist.linux-armv7l/wheel/./abutils/utils/matrices 2025-03-28T15:42:09,229 copying build/lib/abutils/utils/matrices/blosum62 -> build/bdist.linux-armv7l/wheel/./abutils/utils/matrices 2025-03-28T15:42:09,231 copying build/lib/abutils/utils/pipeline.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,235 copying build/lib/abutils/utils/cluster.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,239 copying build/lib/abutils/utils/germlines.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,241 copying build/lib/abutils/utils/codons.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,243 copying build/lib/abutils/utils/mongodb.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,246 copying build/lib/abutils/utils/circos.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,248 copying build/lib/abutils/utils/phylogeny.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,253 copying build/lib/abutils/utils/decorators.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,256 copying build/lib/abutils/utils/progbar.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,260 copying build/lib/abutils/utils/s3.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,263 copying build/lib/abutils/utils/convert.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,266 copying build/lib/abutils/utils/click.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,269 copying build/lib/abutils/utils/log.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,273 copying build/lib/abutils/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,276 copying build/lib/abutils/utils/jobs.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-03-28T15:42:09,282 creating build/bdist.linux-armv7l/wheel/abutils/plots 2025-03-28T15:42:09,283 copying build/lib/abutils/plots/utils.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,286 copying build/lib/abutils/plots/bar.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,290 copying build/lib/abutils/plots/summary.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,293 creating build/bdist.linux-armv7l/wheel/abutils/plots/mixins 2025-03-28T15:42:09,295 copying build/lib/abutils/plots/mixins/hue.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/mixins 2025-03-28T15:42:09,297 copying build/lib/abutils/plots/mixins/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/mixins 2025-03-28T15:42:09,299 copying build/lib/abutils/plots/kde.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,303 copying build/lib/abutils/plots/ridge.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,307 copying build/lib/abutils/plots/data.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,309 copying build/lib/abutils/plots/scatter.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,312 copying build/lib/abutils/plots/donut.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,315 copying build/lib/abutils/plots/lineage.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,318 creating build/bdist.linux-armv7l/wheel/abutils/plots/models 2025-03-28T15:42:09,320 copying build/lib/abutils/plots/models/data.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/models 2025-03-28T15:42:09,323 copying build/lib/abutils/plots/models/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/models 2025-03-28T15:42:09,325 copying build/lib/abutils/plots/heatmap.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,328 copying build/lib/abutils/plots/ring.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,331 copying build/lib/abutils/plots/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,333 copying build/lib/abutils/plots/base.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-03-28T15:42:09,335 copying build/lib/abutils/cl.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:09,337 copying build/lib/abutils/bin.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:09,341 creating build/bdist.linux-armv7l/wheel/abutils/tools 2025-03-28T15:42:09,342 copying build/lib/abutils/tools/alignment.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,346 copying build/lib/abutils/tools/anarci.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,348 copying build/lib/abutils/tools/cluster.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,352 copying build/lib/abutils/tools/clonify.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,355 copying build/lib/abutils/tools/similarity.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,358 copying build/lib/abutils/tools/phylo.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,362 copying build/lib/abutils/tools/preprocessing.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,365 copying build/lib/abutils/tools/cloning.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,368 copying build/lib/abutils/tools/log.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,371 copying build/lib/abutils/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,373 copying build/lib/abutils/tools/search.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-03-28T15:42:09,376 creating build/bdist.linux-armv7l/wheel/abutils/binaries 2025-03-28T15:42:09,378 copying build/lib/abutils/binaries/muscle_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:09,394 copying build/lib/abutils/binaries/cdhit_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:09,399 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin 2025-03-28T15:42:09,400 copying build/lib/abutils/binaries/mafft_darwin/mafft.bat -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin 2025-03-28T15:42:09,403 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin/mafftdir 2025-03-28T15:42:09,405 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin/mafftdir/bin 2025-03-28T15:42:09,406 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/bin/mafft -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/bin 2025-03-28T15:42:09,411 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,413 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,428 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,457 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,459 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/version -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,464 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,468 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,492 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,508 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/filter -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,520 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,530 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,546 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,565 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/score -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,579 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,592 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,617 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/pairash -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,642 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,651 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,656 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,670 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,696 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,721 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,723 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,753 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,756 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,785 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/setcore -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,809 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,845 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/getlag -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,882 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,902 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,923 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,944 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/countlen -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,953 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,955 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,971 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:09,986 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:10,011 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:10,026 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-03-28T15:42:10,214 copying build/lib/abutils/binaries/vsearch_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:10,246 copying build/lib/abutils/binaries/fastp_darwin -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:10,258 copying build/lib/abutils/binaries/muscle3_darwin -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:10,268 copying build/lib/abutils/binaries/fasttree_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:10,276 copying build/lib/abutils/binaries/fastp_linux -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:10,444 copying build/lib/abutils/binaries/sickle_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:10,447 copying build/lib/abutils/binaries/mmseqs_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:15,406 copying build/lib/abutils/binaries/cdhit_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:15,412 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux 2025-03-28T15:42:15,413 copying build/lib/abutils/binaries/mafft_linux/mafft.bat -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux 2025-03-28T15:42:15,415 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux/mafftdir 2025-03-28T15:42:15,417 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux/mafftdir/bin 2025-03-28T15:42:15,418 copying build/lib/abutils/binaries/mafft_linux/mafftdir/bin/mafft -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/bin 2025-03-28T15:42:15,423 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,425 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/hat3 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,427 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dndblast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,446 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,470 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,472 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,475 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/version -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,485 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,495 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,520 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,538 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/filter -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,554 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/f2cl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,568 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,584 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,601 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/score -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,623 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/replaceu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,642 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,662 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/pairash -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,682 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,696 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,707 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/setdirection -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,724 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,748 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/nodepair -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,770 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,772 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/addsingle -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,795 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,798 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/tbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,817 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/setcore -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,840 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,862 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/getlag -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,890 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,912 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,931 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,947 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/countlen -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,959 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,961 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/sextet5 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,976 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/restoreu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:15,991 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:16,015 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:16,019 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dndpre -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:16,036 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dash_client -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-03-28T15:42:16,104 copying build/lib/abutils/binaries/mmseqs_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,505 copying build/lib/abutils/binaries/mmseqs_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,634 copying build/lib/abutils/binaries/cdhit_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,639 copying build/lib/abutils/binaries/sickle_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,643 copying build/lib/abutils/binaries/muscle_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,671 copying build/lib/abutils/binaries/fasttree_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,679 copying build/lib/abutils/binaries/minimap2_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,686 copying build/lib/abutils/binaries/fasttree_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,694 copying build/lib/abutils/binaries/vsearch_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,703 copying build/lib/abutils/binaries/vsearch_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,716 copying build/lib/abutils/binaries/muscle_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,771 copying build/lib/abutils/binaries/muscle3_linux -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,779 copying build/lib/abutils/binaries/minimap2_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-03-28T15:42:18,798 copying build/lib/abutils/pp.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:18,801 copying build/lib/abutils/log.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:18,803 copying build/lib/abutils/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:18,805 copying build/lib/abutils/io.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-03-28T15:42:18,808 running install_egg_info 2025-03-28T15:42:18,851 Copying abutils.egg-info to build/bdist.linux-armv7l/wheel/./abutils-0.5.0-py3.11.egg-info 2025-03-28T15:42:18,863 running install_scripts 2025-03-28T15:42:18,883 creating build/bdist.linux-armv7l/wheel/abutils-0.5.0.dist-info/WHEEL 2025-03-28T15:42:18,886 creating '/tmp/pip-wheel-d7xv64if/abutils-0.5.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-03-28T15:42:18,889 adding 'abutils/__init__.py' 2025-03-28T15:42:18,891 adding 'abutils/bin.py' 2025-03-28T15:42:18,892 adding 'abutils/cl.py' 2025-03-28T15:42:18,897 adding 'abutils/io.py' 2025-03-28T15:42:18,899 adding 'abutils/log.py' 2025-03-28T15:42:18,900 adding 'abutils/pl.py' 2025-03-28T15:42:18,902 adding 'abutils/pp.py' 2025-03-28T15:42:18,903 adding 'abutils/tl.py' 2025-03-28T15:42:18,905 adding 'abutils/version.py' 2025-03-28T15:42:18,932 adding 'abutils/binaries/cdhit_darwin_amd64' 2025-03-28T15:42:18,960 adding 'abutils/binaries/cdhit_darwin_arm64' 2025-03-28T15:42:18,984 adding 'abutils/binaries/cdhit_linux_amd64' 2025-03-28T15:42:19,061 adding 'abutils/binaries/fastp_darwin' 2025-03-28T15:42:20,732 adding 'abutils/binaries/fastp_linux' 2025-03-28T15:42:20,840 adding 'abutils/binaries/fasttree_darwin_amd64' 2025-03-28T15:42:20,900 adding 'abutils/binaries/fasttree_darwin_arm64' 2025-03-28T15:42:20,970 adding 'abutils/binaries/fasttree_linux_amd64' 2025-03-28T15:42:21,000 adding 'abutils/binaries/minimap2_darwin_arm64' 2025-03-28T15:42:21,176 adding 'abutils/binaries/minimap2_linux_amd64' 2025-03-28T15:42:22,284 adding 'abutils/binaries/mmseqs_darwin_amd64' 2025-03-28T15:42:31,841 adding 'abutils/binaries/mmseqs_darwin_arm64' 2025-03-28T15:42:44,581 adding 'abutils/binaries/mmseqs_linux_amd64' 2025-03-28T15:42:45,121 adding 'abutils/binaries/muscle3_darwin' 2025-03-28T15:42:45,184 adding 'abutils/binaries/muscle3_linux' 2025-03-28T15:42:45,361 adding 'abutils/binaries/muscle_darwin_amd64' 2025-03-28T15:42:45,516 adding 'abutils/binaries/muscle_darwin_arm64' 2025-03-28T15:42:46,026 adding 'abutils/binaries/muscle_linux_amd64' 2025-03-28T15:42:46,049 adding 'abutils/binaries/sickle_darwin_arm64' 2025-03-28T15:42:46,055 adding 'abutils/binaries/sickle_linux_amd64' 2025-03-28T15:42:46,128 adding 'abutils/binaries/vsearch_darwin_amd64' 2025-03-28T15:42:46,195 adding 'abutils/binaries/vsearch_darwin_arm64' 2025-03-28T15:42:46,508 adding 'abutils/binaries/vsearch_linux_amd64' 2025-03-28T15:42:46,523 adding 'abutils/binaries/mafft_darwin/mafft.bat' 2025-03-28T15:42:46,534 adding 'abutils/binaries/mafft_darwin/mafftdir/bin/mafft' 2025-03-28T15:42:46,839 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle' 2025-03-28T15:42:46,994 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap' 2025-03-28T15:42:47,042 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/countlen' 2025-03-28T15:42:49,360 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client' 2025-03-28T15:42:49,841 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast' 2025-03-28T15:42:50,003 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast' 2025-03-28T15:42:50,160 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7' 2025-03-28T15:42:50,310 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre' 2025-03-28T15:42:50,626 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr' 2025-03-28T15:42:50,702 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl' 2025-03-28T15:42:50,827 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/filter' 2025-03-28T15:42:51,108 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/getlag' 2025-03-28T15:42:51,124 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext' 2025-03-28T15:42:51,277 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance' 2025-03-28T15:42:51,284 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1' 2025-03-28T15:42:51,559 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile' 2025-03-28T15:42:51,571 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1' 2025-03-28T15:42:51,573 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl' 2025-03-28T15:42:51,578 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex' 2025-03-28T15:42:51,867 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist' 2025-03-28T15:42:52,023 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap' 2025-03-28T15:42:52,187 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s' 2025-03-28T15:42:52,499 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair' 2025-03-28T15:42:52,793 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/pairash' 2025-03-28T15:42:53,097 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign' 2025-03-28T15:42:53,235 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq' 2025-03-28T15:42:54,868 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu' 2025-03-28T15:42:55,051 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu' 2025-03-28T15:42:55,200 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/score' 2025-03-28T15:42:55,208 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl' 2025-03-28T15:42:55,251 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable' 2025-03-28T15:42:55,528 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/setcore' 2025-03-28T15:42:55,661 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection' 2025-03-28T15:42:55,817 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5' 2025-03-28T15:42:56,112 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast' 2025-03-28T15:42:56,448 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast' 2025-03-28T15:42:56,465 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/version' 2025-03-28T15:42:56,467 adding 'abutils/binaries/mafft_linux/mafft.bat' 2025-03-28T15:42:56,479 adding 'abutils/binaries/mafft_linux/mafftdir/bin/mafft' 2025-03-28T15:42:56,736 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/addsingle' 2025-03-28T15:42:56,916 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap' 2025-03-28T15:42:57,038 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/countlen' 2025-03-28T15:42:57,048 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments' 2025-03-28T15:42:57,878 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dash_client' 2025-03-28T15:42:57,907 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa' 2025-03-28T15:42:58,165 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast' 2025-03-28T15:42:58,348 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dndblast' 2025-03-28T15:42:58,529 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7' 2025-03-28T15:42:58,708 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dndpre' 2025-03-28T15:42:58,963 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr' 2025-03-28T15:42:59,103 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/f2cl' 2025-03-28T15:42:59,271 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/filter' 2025-03-28T15:42:59,509 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/getlag' 2025-03-28T15:42:59,518 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/hat3' 2025-03-28T15:42:59,620 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext' 2025-03-28T15:42:59,800 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance' 2025-03-28T15:42:59,808 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1' 2025-03-28T15:43:00,040 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile' 2025-03-28T15:43:00,050 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1' 2025-03-28T15:43:00,053 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl' 2025-03-28T15:43:00,156 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex' 2025-03-28T15:43:00,395 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist' 2025-03-28T15:43:00,576 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap' 2025-03-28T15:43:00,766 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s' 2025-03-28T15:43:01,021 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/nodepair' 2025-03-28T15:43:01,264 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/pairash' 2025-03-28T15:43:01,511 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign' 2025-03-28T15:43:01,681 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq' 2025-03-28T15:43:01,849 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/replaceu' 2025-03-28T15:43:02,017 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/restoreu' 2025-03-28T15:43:02,197 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/score' 2025-03-28T15:43:02,205 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl' 2025-03-28T15:43:02,322 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable' 2025-03-28T15:43:02,558 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/setcore' 2025-03-28T15:43:02,729 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/setdirection' 2025-03-28T15:43:02,908 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/sextet5' 2025-03-28T15:43:03,151 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast' 2025-03-28T15:43:03,416 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/tbfast' 2025-03-28T15:43:03,526 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/version' 2025-03-28T15:43:03,531 adding 'abutils/core/__init__.py' 2025-03-28T15:43:03,538 adding 'abutils/core/lineage.py' 2025-03-28T15:43:03,544 adding 'abutils/core/pair.py' 2025-03-28T15:43:03,551 adding 'abutils/core/sequence.py' 2025-03-28T15:43:03,554 adding 'abutils/plots/__init__.py' 2025-03-28T15:43:03,556 adding 'abutils/plots/bar.py' 2025-03-28T15:43:03,558 adding 'abutils/plots/base.py' 2025-03-28T15:43:03,561 adding 'abutils/plots/data.py' 2025-03-28T15:43:03,564 adding 'abutils/plots/donut.py' 2025-03-28T15:43:03,567 adding 'abutils/plots/heatmap.py' 2025-03-28T15:43:03,572 adding 'abutils/plots/kde.py' 2025-03-28T15:43:03,575 adding 'abutils/plots/lineage.py' 2025-03-28T15:43:03,577 adding 'abutils/plots/ridge.py' 2025-03-28T15:43:03,578 adding 'abutils/plots/ring.py' 2025-03-28T15:43:03,581 adding 'abutils/plots/scatter.py' 2025-03-28T15:43:03,583 adding 'abutils/plots/summary.py' 2025-03-28T15:43:03,585 adding 'abutils/plots/utils.py' 2025-03-28T15:43:03,586 adding 'abutils/plots/mixins/__init__.py' 2025-03-28T15:43:03,587 adding 'abutils/plots/mixins/hue.py' 2025-03-28T15:43:03,589 adding 'abutils/plots/models/__init__.py' 2025-03-28T15:43:03,592 adding 'abutils/plots/models/data.py' 2025-03-28T15:43:03,594 adding 'abutils/preprocess/__init__.py' 2025-03-28T15:43:03,596 adding 'abutils/preprocess/preprocess.py' 2025-03-28T15:43:03,598 adding 'abutils/tests/__init__.py' 2025-03-28T15:43:03,600 adding 'abutils/tests/test_alignment.py' 2025-03-28T15:43:03,601 adding 'abutils/tests/test_clonify.py' 2025-03-28T15:43:03,603 adding 'abutils/tests/test_cloning.py' 2025-03-28T15:43:03,604 adding 'abutils/tests/test_cluster.py' 2025-03-28T15:43:03,605 adding 'abutils/tests/test_color.py' 2025-03-28T15:43:03,607 adding 'abutils/tests/test_pair.py' 2025-03-28T15:43:03,609 adding 'abutils/tests/test_phylo.py' 2025-03-28T15:43:03,610 adding 'abutils/tests/test_sequence.py' 2025-03-28T15:43:03,611 adding 'abutils/tests/test_utilities.py' 2025-03-28T15:43:03,613 adding 'abutils/tools/__init__.py' 2025-03-28T15:43:03,620 adding 'abutils/tools/alignment.py' 2025-03-28T15:43:03,621 adding 'abutils/tools/anarci.py' 2025-03-28T15:43:03,626 adding 'abutils/tools/clonify.py' 2025-03-28T15:43:03,628 adding 'abutils/tools/cloning.py' 2025-03-28T15:43:03,633 adding 'abutils/tools/cluster.py' 2025-03-28T15:43:03,635 adding 'abutils/tools/log.py' 2025-03-28T15:43:03,639 adding 'abutils/tools/phylo.py' 2025-03-28T15:43:03,641 adding 'abutils/tools/preprocessing.py' 2025-03-28T15:43:03,643 adding 'abutils/tools/search.py' 2025-03-28T15:43:03,646 adding 'abutils/tools/similarity.py' 2025-03-28T15:43:03,648 adding 'abutils/utils/__init__.py' 2025-03-28T15:43:03,655 adding 'abutils/utils/alignment.py' 2025-03-28T15:43:03,657 adding 'abutils/utils/circos.py' 2025-03-28T15:43:03,658 adding 'abutils/utils/click.py' 2025-03-28T15:43:03,663 adding 'abutils/utils/cluster.py' 2025-03-28T15:43:03,664 adding 'abutils/utils/codons.py' 2025-03-28T15:43:03,666 adding 'abutils/utils/color.py' 2025-03-28T15:43:03,668 adding 'abutils/utils/convert.py' 2025-03-28T15:43:03,670 adding 'abutils/utils/database.py' 2025-03-28T15:43:03,671 adding 'abutils/utils/decorators.py' 2025-03-28T15:43:03,673 adding 'abutils/utils/germlines.py' 2025-03-28T15:43:03,675 adding 'abutils/utils/jobs.py' 2025-03-28T15:43:03,676 adding 'abutils/utils/log.py' 2025-03-28T15:43:03,678 adding 'abutils/utils/mongodb.py' 2025-03-28T15:43:03,683 adding 'abutils/utils/phylogeny.py' 2025-03-28T15:43:03,684 adding 'abutils/utils/pipeline.py' 2025-03-28T15:43:03,686 adding 'abutils/utils/progbar.py' 2025-03-28T15:43:03,688 adding 'abutils/utils/s3.py' 2025-03-28T15:43:03,690 adding 'abutils/utils/seqio.py' 2025-03-28T15:43:03,691 adding 'abutils/utils/ssh_tunnel.py' 2025-03-28T15:43:03,693 adding 'abutils/utils/utilities.py' 2025-03-28T15:43:03,695 adding 'abutils/utils/matrices/blosum62' 2025-03-28T15:43:03,696 adding 'abutils/utils/matrices/match1mismatch0' 2025-03-28T15:43:03,697 adding 'abutils/utils/matrices/match3mismatch2' 2025-03-28T15:43:03,700 adding 'abutils-0.5.0.dist-info/LICENSE' 2025-03-28T15:43:03,701 adding 'abutils-0.5.0.dist-info/METADATA' 2025-03-28T15:43:03,702 adding 'abutils-0.5.0.dist-info/WHEEL' 2025-03-28T15:43:03,703 adding 'abutils-0.5.0.dist-info/top_level.txt' 2025-03-28T15:43:03,706 adding 'abutils-0.5.0.dist-info/RECORD' 2025-03-28T15:43:03,924 removing build/bdist.linux-armv7l/wheel 2025-03-28T15:43:04,174 Building wheel for abutils (setup.py): finished with status 'done' 2025-03-28T15:43:06,024 Created wheel for abutils: filename=abutils-0.5.0-py3-none-any.whl size=86644873 sha256=854d787c69b4172b0fcc77818217863aa03dbf314d7289f4d28d3e409e7417fc 2025-03-28T15:43:06,025 Stored in directory: /tmp/pip-ephem-wheel-cache-gbyf30rf/wheels/44/e1/0c/3e346b00ddc458a2ac51ec75b9960d92a5bab5698639893988 2025-03-28T15:43:06,068 Successfully built abutils 2025-03-28T15:43:08,198 Removed build tracker: '/tmp/pip-build-tracker-pziaajku'