2025-04-01T03:40:47,179 Created temporary directory: /tmp/pip-build-tracker-9w8u3rg9 2025-04-01T03:40:47,180 Initialized build tracking at /tmp/pip-build-tracker-9w8u3rg9 2025-04-01T03:40:47,181 Created build tracker: /tmp/pip-build-tracker-9w8u3rg9 2025-04-01T03:40:47,181 Entered build tracker: /tmp/pip-build-tracker-9w8u3rg9 2025-04-01T03:40:47,182 Created temporary directory: /tmp/pip-wheel-vqbzdpu1 2025-04-01T03:40:47,186 Created temporary directory: /tmp/pip-ephem-wheel-cache-hp1albo7 2025-04-01T03:40:47,232 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-04-01T03:40:47,235 2 location(s) to search for versions of abutils: 2025-04-01T03:40:47,235 * https://pypi.org/simple/abutils/ 2025-04-01T03:40:47,235 * https://www.piwheels.org/simple/abutils/ 2025-04-01T03:40:47,236 Fetching project page and analyzing links: https://pypi.org/simple/abutils/ 2025-04-01T03:40:47,236 Getting page https://pypi.org/simple/abutils/ 2025-04-01T03:40:47,238 Found index 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https://files.pythonhosted.org/packages/aa/99/c8973219cdbbe16e49bf7185a83cff4e0434f997c982ee792f68702ee818/abutils-0.5.2.tar.gz to build tracker '/tmp/pip-build-tracker-9w8u3rg9' 2025-04-01T03:41:13,742 Running setup.py (path:/tmp/pip-wheel-vqbzdpu1/abutils_11572cb87ef74803a0a447ceb4f1c1db/setup.py) egg_info for package abutils 2025-04-01T03:41:13,743 Created temporary directory: /tmp/pip-pip-egg-info-czheo65f 2025-04-01T03:41:13,743 Preparing metadata (setup.py): started 2025-04-01T03:41:13,745 Running command python setup.py egg_info 2025-04-01T03:41:14,294 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-04-01T03:41:14,294 !! 2025-04-01T03:41:14,295 ******************************************************************************** 2025-04-01T03:41:14,296 Usage of dash-separated 'description-file' will not be supported in future 2025-04-01T03:41:14,296 versions. Please use the underscore name 'description_file' instead. 2025-04-01T03:41:14,298 This deprecation is overdue, please update your project and remove deprecated 2025-04-01T03:41:14,298 calls to avoid build errors in the future. 2025-04-01T03:41:14,299 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-04-01T03:41:14,300 ******************************************************************************** 2025-04-01T03:41:14,301 !! 2025-04-01T03:41:14,302 opt = self.warn_dash_deprecation(opt, section) 2025-04-01T03:41:14,845 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-04-01T03:41:14,845 !! 2025-04-01T03:41:14,847 ******************************************************************************** 2025-04-01T03:41:14,847 Usage of dash-separated 'description-file' will not be supported in future 2025-04-01T03:41:14,848 versions. Please use the underscore name 'description_file' instead. 2025-04-01T03:41:14,849 This deprecation is overdue, please update your project and remove deprecated 2025-04-01T03:41:14,850 calls to avoid build errors in the future. 2025-04-01T03:41:14,851 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-04-01T03:41:14,852 ******************************************************************************** 2025-04-01T03:41:14,853 !! 2025-04-01T03:41:14,853 opt = self.warn_dash_deprecation(opt, section) 2025-04-01T03:41:14,879 running egg_info 2025-04-01T03:41:14,908 creating /tmp/pip-pip-egg-info-czheo65f/abutils.egg-info 2025-04-01T03:41:14,909 writing /tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/PKG-INFO 2025-04-01T03:41:14,913 writing dependency_links to /tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/dependency_links.txt 2025-04-01T03:41:14,915 writing requirements to /tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/requires.txt 2025-04-01T03:41:14,916 writing top-level names to /tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/top_level.txt 2025-04-01T03:41:14,917 writing manifest file '/tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/SOURCES.txt' 2025-04-01T03:41:15,012 reading manifest file '/tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/SOURCES.txt' 2025-04-01T03:41:15,013 reading manifest template 'MANIFEST.in' 2025-04-01T03:41:15,018 warning: no files found matching 'abutils/tenx/*' 2025-04-01T03:41:15,032 adding license file 'LICENSE' 2025-04-01T03:41:15,041 writing manifest file '/tmp/pip-pip-egg-info-czheo65f/abutils.egg-info/SOURCES.txt' 2025-04-01T03:41:15,149 Preparing metadata (setup.py): finished with status 'done' 2025-04-01T03:41:15,153 Source in /tmp/pip-wheel-vqbzdpu1/abutils_11572cb87ef74803a0a447ceb4f1c1db has version 0.5.2, which satisfies requirement abutils==0.5.2 from https://files.pythonhosted.org/packages/aa/99/c8973219cdbbe16e49bf7185a83cff4e0434f997c982ee792f68702ee818/abutils-0.5.2.tar.gz 2025-04-01T03:41:15,155 Removed abutils==0.5.2 from https://files.pythonhosted.org/packages/aa/99/c8973219cdbbe16e49bf7185a83cff4e0434f997c982ee792f68702ee818/abutils-0.5.2.tar.gz from build tracker '/tmp/pip-build-tracker-9w8u3rg9' 2025-04-01T03:41:15,165 Created temporary directory: /tmp/pip-unpack-uzw2i72o 2025-04-01T03:41:15,166 Created temporary directory: /tmp/pip-unpack-w70jyrzi 2025-04-01T03:41:15,166 Building wheels for collected packages: abutils 2025-04-01T03:41:15,170 Created temporary directory: /tmp/pip-wheel-wq_56z8t 2025-04-01T03:41:15,171 Building wheel for abutils (setup.py): started 2025-04-01T03:41:15,172 Destination directory: /tmp/pip-wheel-wq_56z8t 2025-04-01T03:41:15,173 Running command python setup.py bdist_wheel 2025-04-01T03:41:15,667 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-04-01T03:41:15,668 !! 2025-04-01T03:41:15,669 ******************************************************************************** 2025-04-01T03:41:15,670 Usage of dash-separated 'description-file' will not be supported in future 2025-04-01T03:41:15,670 versions. Please use the underscore name 'description_file' instead. 2025-04-01T03:41:15,671 This deprecation is overdue, please update your project and remove deprecated 2025-04-01T03:41:15,672 calls to avoid build errors in the future. 2025-04-01T03:41:15,673 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-04-01T03:41:15,674 ******************************************************************************** 2025-04-01T03:41:15,675 !! 2025-04-01T03:41:15,675 opt = self.warn_dash_deprecation(opt, section) 2025-04-01T03:41:16,205 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:495: SetuptoolsDeprecationWarning: Invalid dash-separated options 2025-04-01T03:41:16,206 !! 2025-04-01T03:41:16,207 ******************************************************************************** 2025-04-01T03:41:16,207 Usage of dash-separated 'description-file' will not be supported in future 2025-04-01T03:41:16,208 versions. Please use the underscore name 'description_file' instead. 2025-04-01T03:41:16,209 This deprecation is overdue, please update your project and remove deprecated 2025-04-01T03:41:16,210 calls to avoid build errors in the future. 2025-04-01T03:41:16,211 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-04-01T03:41:16,212 ******************************************************************************** 2025-04-01T03:41:16,213 !! 2025-04-01T03:41:16,213 opt = self.warn_dash_deprecation(opt, section) 2025-04-01T03:41:16,214 running bdist_wheel 2025-04-01T03:41:16,346 running build 2025-04-01T03:41:16,347 running build_py 2025-04-01T03:41:16,377 creating build/lib/abutils 2025-04-01T03:41:16,378 copying abutils/pp.py -> build/lib/abutils 2025-04-01T03:41:16,381 copying abutils/cl.py -> build/lib/abutils 2025-04-01T03:41:16,382 copying abutils/bin.py -> build/lib/abutils 2025-04-01T03:41:16,385 copying abutils/pl.py -> build/lib/abutils 2025-04-01T03:41:16,386 copying abutils/tl.py -> build/lib/abutils 2025-04-01T03:41:16,388 copying abutils/version.py -> build/lib/abutils 2025-04-01T03:41:16,390 copying abutils/io.py -> build/lib/abutils 2025-04-01T03:41:16,393 copying abutils/log.py -> build/lib/abutils 2025-04-01T03:41:16,394 copying abutils/__init__.py -> build/lib/abutils 2025-04-01T03:41:16,397 creating build/lib/abutils/plots 2025-04-01T03:41:16,397 copying abutils/plots/ring.py -> build/lib/abutils/plots 2025-04-01T03:41:16,400 copying abutils/plots/base.py -> build/lib/abutils/plots 2025-04-01T03:41:16,402 copying abutils/plots/ridge.py -> build/lib/abutils/plots 2025-04-01T03:41:16,404 copying abutils/plots/summary.py -> build/lib/abutils/plots 2025-04-01T03:41:16,406 copying abutils/plots/data.py -> build/lib/abutils/plots 2025-04-01T03:41:16,408 copying abutils/plots/lineage.py -> build/lib/abutils/plots 2025-04-01T03:41:16,410 copying abutils/plots/donut.py -> build/lib/abutils/plots 2025-04-01T03:41:16,413 copying abutils/plots/kde.py -> build/lib/abutils/plots 2025-04-01T03:41:16,416 copying abutils/plots/scatter.py -> build/lib/abutils/plots 2025-04-01T03:41:16,419 copying abutils/plots/utils.py -> build/lib/abutils/plots 2025-04-01T03:41:16,420 copying abutils/plots/__init__.py -> build/lib/abutils/plots 2025-04-01T03:41:16,422 copying abutils/plots/heatmap.py -> build/lib/abutils/plots 2025-04-01T03:41:16,425 copying abutils/plots/bar.py -> build/lib/abutils/plots 2025-04-01T03:41:16,428 creating build/lib/abutils/tools 2025-04-01T03:41:16,429 copying abutils/tools/preprocessing.py -> build/lib/abutils/tools 2025-04-01T03:41:16,432 copying abutils/tools/clonify.py -> build/lib/abutils/tools 2025-04-01T03:41:16,435 copying abutils/tools/cloning.py -> build/lib/abutils/tools 2025-04-01T03:41:16,437 copying abutils/tools/alignment.py -> build/lib/abutils/tools 2025-04-01T03:41:16,441 copying abutils/tools/log.py -> build/lib/abutils/tools 2025-04-01T03:41:16,444 copying abutils/tools/search.py -> build/lib/abutils/tools 2025-04-01T03:41:16,446 copying abutils/tools/__init__.py -> build/lib/abutils/tools 2025-04-01T03:41:16,448 copying abutils/tools/similarity.py -> build/lib/abutils/tools 2025-04-01T03:41:16,450 copying abutils/tools/anarci.py -> build/lib/abutils/tools 2025-04-01T03:41:16,452 copying abutils/tools/cluster.py -> build/lib/abutils/tools 2025-04-01T03:41:16,455 copying abutils/tools/phylo.py -> build/lib/abutils/tools 2025-04-01T03:41:16,459 creating build/lib/abutils/utils 2025-04-01T03:41:16,461 copying abutils/utils/mongodb.py -> build/lib/abutils/utils 2025-04-01T03:41:16,463 copying abutils/utils/s3.py -> build/lib/abutils/utils 2025-04-01T03:41:16,465 copying abutils/utils/decorators.py -> build/lib/abutils/utils 2025-04-01T03:41:16,467 copying abutils/utils/convert.py -> build/lib/abutils/utils 2025-04-01T03:41:16,469 copying abutils/utils/seqio.py -> build/lib/abutils/utils 2025-04-01T03:41:16,471 copying abutils/utils/path.py -> build/lib/abutils/utils 2025-04-01T03:41:16,474 copying abutils/utils/germlines.py -> build/lib/abutils/utils 2025-04-01T03:41:16,476 copying abutils/utils/codons.py -> build/lib/abutils/utils 2025-04-01T03:41:16,478 copying abutils/utils/utilities.py -> build/lib/abutils/utils 2025-04-01T03:41:16,480 copying abutils/utils/circos.py -> build/lib/abutils/utils 2025-04-01T03:41:16,482 copying abutils/utils/progbar.py -> build/lib/abutils/utils 2025-04-01T03:41:16,483 copying abutils/utils/click.py -> build/lib/abutils/utils 2025-04-01T03:41:16,485 copying abutils/utils/color.py -> build/lib/abutils/utils 2025-04-01T03:41:16,487 copying abutils/utils/alignment.py -> build/lib/abutils/utils 2025-04-01T03:41:16,491 copying abutils/utils/jobs.py -> build/lib/abutils/utils 2025-04-01T03:41:16,493 copying abutils/utils/ssh_tunnel.py -> build/lib/abutils/utils 2025-04-01T03:41:16,495 copying abutils/utils/log.py -> build/lib/abutils/utils 2025-04-01T03:41:16,497 copying abutils/utils/__init__.py -> build/lib/abutils/utils 2025-04-01T03:41:16,499 copying abutils/utils/database.py -> build/lib/abutils/utils 2025-04-01T03:41:16,501 copying abutils/utils/phylogeny.py -> build/lib/abutils/utils 2025-04-01T03:41:16,504 copying abutils/utils/cluster.py -> build/lib/abutils/utils 2025-04-01T03:41:16,508 creating build/lib/abutils/core 2025-04-01T03:41:16,509 copying abutils/core/sequence.py -> build/lib/abutils/core 2025-04-01T03:41:16,512 copying abutils/core/lineage.py -> build/lib/abutils/core 2025-04-01T03:41:16,515 copying abutils/core/pair.py -> build/lib/abutils/core 2025-04-01T03:41:16,519 copying abutils/core/__init__.py -> build/lib/abutils/core 2025-04-01T03:41:16,521 creating build/lib/abutils/preprocess 2025-04-01T03:41:16,522 copying abutils/preprocess/preprocess.py -> build/lib/abutils/preprocess 2025-04-01T03:41:16,524 copying abutils/preprocess/__init__.py -> build/lib/abutils/preprocess 2025-04-01T03:41:16,527 creating build/lib/abutils/tests 2025-04-01T03:41:16,528 copying abutils/tests/test_sequence.py -> build/lib/abutils/tests 2025-04-01T03:41:16,530 copying abutils/tests/test_color.py -> build/lib/abutils/tests 2025-04-01T03:41:16,532 copying abutils/tests/test_cluster.py -> build/lib/abutils/tests 2025-04-01T03:41:16,535 copying abutils/tests/test_pair.py -> build/lib/abutils/tests 2025-04-01T03:41:16,537 copying abutils/tests/test_phylo.py -> build/lib/abutils/tests 2025-04-01T03:41:16,539 copying abutils/tests/test_clonify.py -> build/lib/abutils/tests 2025-04-01T03:41:16,541 copying abutils/tests/test_preprocessing.py -> build/lib/abutils/tests 2025-04-01T03:41:16,544 copying abutils/tests/test_alignment.py -> build/lib/abutils/tests 2025-04-01T03:41:16,547 copying abutils/tests/test_utilities.py -> build/lib/abutils/tests 2025-04-01T03:41:16,548 copying abutils/tests/__init__.py -> build/lib/abutils/tests 2025-04-01T03:41:16,550 copying abutils/tests/test_cloning.py -> build/lib/abutils/tests 2025-04-01T03:41:16,552 creating build/lib/abutils/plots/mixins 2025-04-01T03:41:16,553 copying abutils/plots/mixins/hue.py -> build/lib/abutils/plots/mixins 2025-04-01T03:41:16,555 copying abutils/plots/mixins/__init__.py -> build/lib/abutils/plots/mixins 2025-04-01T03:41:16,558 creating build/lib/abutils/plots/models 2025-04-01T03:41:16,559 copying abutils/plots/models/data.py -> build/lib/abutils/plots/models 2025-04-01T03:41:16,562 copying abutils/plots/models/__init__.py -> build/lib/abutils/plots/models 2025-04-01T03:41:16,563 running egg_info 2025-04-01T03:41:16,591 writing abutils.egg-info/PKG-INFO 2025-04-01T03:41:16,594 writing dependency_links to abutils.egg-info/dependency_links.txt 2025-04-01T03:41:16,596 writing requirements to abutils.egg-info/requires.txt 2025-04-01T03:41:16,597 writing top-level names to abutils.egg-info/top_level.txt 2025-04-01T03:41:16,634 reading manifest file 'abutils.egg-info/SOURCES.txt' 2025-04-01T03:41:16,648 reading manifest template 'MANIFEST.in' 2025-04-01T03:41:16,652 warning: no files found matching 'abutils/tenx/*' 2025-04-01T03:41:16,664 adding license file 'LICENSE' 2025-04-01T03:41:16,675 writing manifest file 'abutils.egg-info/SOURCES.txt' 2025-04-01T03:41:16,677 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.binaries' is absent from the `packages` configuration. 2025-04-01T03:41:16,678 !! 2025-04-01T03:41:16,679 ******************************************************************************** 2025-04-01T03:41:16,679 ############################ 2025-04-01T03:41:16,679 # Package would be ignored # 2025-04-01T03:41:16,680 ############################ 2025-04-01T03:41:16,680 Python recognizes 'abutils.binaries' as an importable package[^1], 2025-04-01T03:41:16,681 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,682 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,682 package, please make sure that 'abutils.binaries' is explicitly added 2025-04-01T03:41:16,683 to the `packages` configuration field. 2025-04-01T03:41:16,683 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,684 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,684 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,685 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,686 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,687 If you don't want 'abutils.binaries' to be distributed and are 2025-04-01T03:41:16,687 already explicitly excluding 'abutils.binaries' via 2025-04-01T03:41:16,688 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,688 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,689 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,690 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,691 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,692 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,693 even if it does not contain any `.py` files. 2025-04-01T03:41:16,693 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,694 directory, all directories are treated like packages. 2025-04-01T03:41:16,694 ******************************************************************************** 2025-04-01T03:41:16,696 !! 2025-04-01T03:41:16,696 check.warn(importable) 2025-04-01T03:41:16,697 /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. 2025-04-01T03:41:16,697 !! 2025-04-01T03:41:16,698 ******************************************************************************** 2025-04-01T03:41:16,699 ############################ 2025-04-01T03:41:16,699 # Package would be ignored # 2025-04-01T03:41:16,700 ############################ 2025-04-01T03:41:16,700 Python recognizes 'abutils.binaries.mafft_darwin' as an importable package[^1], 2025-04-01T03:41:16,701 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,702 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,703 package, please make sure that 'abutils.binaries.mafft_darwin' is explicitly added 2025-04-01T03:41:16,703 to the `packages` configuration field. 2025-04-01T03:41:16,704 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,705 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,706 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,707 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,708 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,708 If you don't want 'abutils.binaries.mafft_darwin' to be distributed and are 2025-04-01T03:41:16,709 already explicitly excluding 'abutils.binaries.mafft_darwin' via 2025-04-01T03:41:16,709 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,710 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,710 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,711 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,713 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,714 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,715 even if it does not contain any `.py` files. 2025-04-01T03:41:16,715 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,715 directory, all directories are treated like packages. 2025-04-01T03:41:16,716 ******************************************************************************** 2025-04-01T03:41:16,717 !! 2025-04-01T03:41:16,717 check.warn(importable) 2025-04-01T03:41:16,718 /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. 2025-04-01T03:41:16,718 !! 2025-04-01T03:41:16,721 ******************************************************************************** 2025-04-01T03:41:16,721 ############################ 2025-04-01T03:41:16,722 # Package would be ignored # 2025-04-01T03:41:16,722 ############################ 2025-04-01T03:41:16,723 Python recognizes 'abutils.binaries.mafft_darwin.mafftdir.bin' as an importable package[^1], 2025-04-01T03:41:16,724 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,726 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,726 package, please make sure that 'abutils.binaries.mafft_darwin.mafftdir.bin' is explicitly added 2025-04-01T03:41:16,727 to the `packages` configuration field. 2025-04-01T03:41:16,728 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,729 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,729 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,734 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,736 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,738 If you don't want 'abutils.binaries.mafft_darwin.mafftdir.bin' to be distributed and are 2025-04-01T03:41:16,749 already explicitly excluding 'abutils.binaries.mafft_darwin.mafftdir.bin' via 2025-04-01T03:41:16,749 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,750 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,751 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,752 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,753 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,754 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,755 even if it does not contain any `.py` files. 2025-04-01T03:41:16,756 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,756 directory, all directories are treated like packages. 2025-04-01T03:41:16,756 ******************************************************************************** 2025-04-01T03:41:16,757 !! 2025-04-01T03:41:16,758 check.warn(importable) 2025-04-01T03:41:16,758 /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. 2025-04-01T03:41:16,759 !! 2025-04-01T03:41:16,759 ******************************************************************************** 2025-04-01T03:41:16,760 ############################ 2025-04-01T03:41:16,760 # Package would be ignored # 2025-04-01T03:41:16,761 ############################ 2025-04-01T03:41:16,761 Python recognizes 'abutils.binaries.mafft_darwin.mafftdir.libexec' as an importable package[^1], 2025-04-01T03:41:16,762 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,763 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,763 package, please make sure that 'abutils.binaries.mafft_darwin.mafftdir.libexec' is explicitly added 2025-04-01T03:41:16,764 to the `packages` configuration field. 2025-04-01T03:41:16,764 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,765 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,765 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,767 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,768 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,769 If you don't want 'abutils.binaries.mafft_darwin.mafftdir.libexec' to be distributed and are 2025-04-01T03:41:16,770 already explicitly excluding 'abutils.binaries.mafft_darwin.mafftdir.libexec' via 2025-04-01T03:41:16,770 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,771 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,771 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,773 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,774 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,776 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,776 even if it does not contain any `.py` files. 2025-04-01T03:41:16,777 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,778 directory, all directories are treated like packages. 2025-04-01T03:41:16,778 ******************************************************************************** 2025-04-01T03:41:16,779 !! 2025-04-01T03:41:16,780 check.warn(importable) 2025-04-01T03:41:16,780 /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. 2025-04-01T03:41:16,781 !! 2025-04-01T03:41:16,782 ******************************************************************************** 2025-04-01T03:41:16,783 ############################ 2025-04-01T03:41:16,784 # Package would be ignored # 2025-04-01T03:41:16,784 ############################ 2025-04-01T03:41:16,785 Python recognizes 'abutils.binaries.mafft_linux' as an importable package[^1], 2025-04-01T03:41:16,786 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,787 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,788 package, please make sure that 'abutils.binaries.mafft_linux' is explicitly added 2025-04-01T03:41:16,788 to the `packages` configuration field. 2025-04-01T03:41:16,789 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,789 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,790 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,791 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,791 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,792 If you don't want 'abutils.binaries.mafft_linux' to be distributed and are 2025-04-01T03:41:16,793 already explicitly excluding 'abutils.binaries.mafft_linux' via 2025-04-01T03:41:16,793 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,794 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,794 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,795 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,796 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,798 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,798 even if it does not contain any `.py` files. 2025-04-01T03:41:16,816 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,828 directory, all directories are treated like packages. 2025-04-01T03:41:16,846 ******************************************************************************** 2025-04-01T03:41:16,900 !! 2025-04-01T03:41:16,902 check.warn(importable) 2025-04-01T03:41:16,903 /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. 2025-04-01T03:41:16,903 !! 2025-04-01T03:41:16,904 ******************************************************************************** 2025-04-01T03:41:16,905 ############################ 2025-04-01T03:41:16,905 # Package would be ignored # 2025-04-01T03:41:16,906 ############################ 2025-04-01T03:41:16,907 Python recognizes 'abutils.binaries.mafft_linux.mafftdir.bin' as an importable package[^1], 2025-04-01T03:41:16,907 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,908 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,909 package, please make sure that 'abutils.binaries.mafft_linux.mafftdir.bin' is explicitly added 2025-04-01T03:41:16,911 to the `packages` configuration field. 2025-04-01T03:41:16,914 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,915 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,915 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,916 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,918 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,923 If you don't want 'abutils.binaries.mafft_linux.mafftdir.bin' to be distributed and are 2025-04-01T03:41:16,924 already explicitly excluding 'abutils.binaries.mafft_linux.mafftdir.bin' via 2025-04-01T03:41:16,925 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,928 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,932 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,933 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,934 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,938 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,939 even if it does not contain any `.py` files. 2025-04-01T03:41:16,939 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,940 directory, all directories are treated like packages. 2025-04-01T03:41:16,940 ******************************************************************************** 2025-04-01T03:41:16,941 !! 2025-04-01T03:41:16,942 check.warn(importable) 2025-04-01T03:41:16,942 /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. 2025-04-01T03:41:16,943 !! 2025-04-01T03:41:16,943 ******************************************************************************** 2025-04-01T03:41:16,944 ############################ 2025-04-01T03:41:16,945 # Package would be ignored # 2025-04-01T03:41:16,945 ############################ 2025-04-01T03:41:16,945 Python recognizes 'abutils.binaries.mafft_linux.mafftdir.libexec' as an importable package[^1], 2025-04-01T03:41:16,950 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,951 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,954 package, please make sure that 'abutils.binaries.mafft_linux.mafftdir.libexec' is explicitly added 2025-04-01T03:41:16,958 to the `packages` configuration field. 2025-04-01T03:41:16,962 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,962 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,963 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,969 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,970 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,971 If you don't want 'abutils.binaries.mafft_linux.mafftdir.libexec' to be distributed and are 2025-04-01T03:41:16,972 already explicitly excluding 'abutils.binaries.mafft_linux.mafftdir.libexec' via 2025-04-01T03:41:16,972 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,973 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,973 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,975 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,976 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:16,978 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:16,978 even if it does not contain any `.py` files. 2025-04-01T03:41:16,979 On the other hand, currently there is no concept of package data 2025-04-01T03:41:16,979 directory, all directories are treated like packages. 2025-04-01T03:41:16,980 ******************************************************************************** 2025-04-01T03:41:16,981 !! 2025-04-01T03:41:16,982 check.warn(importable) 2025-04-01T03:41:16,983 /usr/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:220: _Warning: Package 'abutils.utils.matrices' is absent from the `packages` configuration. 2025-04-01T03:41:16,984 !! 2025-04-01T03:41:16,984 ******************************************************************************** 2025-04-01T03:41:16,985 ############################ 2025-04-01T03:41:16,985 # Package would be ignored # 2025-04-01T03:41:16,986 ############################ 2025-04-01T03:41:16,986 Python recognizes 'abutils.utils.matrices' as an importable package[^1], 2025-04-01T03:41:16,987 but it is absent from setuptools' `packages` configuration. 2025-04-01T03:41:16,987 This leads to an ambiguous overall configuration. If you want to distribute this 2025-04-01T03:41:16,988 package, please make sure that 'abutils.utils.matrices' is explicitly added 2025-04-01T03:41:16,989 to the `packages` configuration field. 2025-04-01T03:41:16,990 Alternatively, you can also rely on setuptools' discovery methods 2025-04-01T03:41:16,990 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-04-01T03:41:16,991 instead of `find_packages(...)`/`find:`). 2025-04-01T03:41:16,992 You can read more about "package discovery" on setuptools documentation page: 2025-04-01T03:41:16,993 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-04-01T03:41:16,993 If you don't want 'abutils.utils.matrices' to be distributed and are 2025-04-01T03:41:16,994 already explicitly excluding 'abutils.utils.matrices' via 2025-04-01T03:41:16,994 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-04-01T03:41:16,995 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-04-01T03:41:16,996 combination with a more fine grained `package-data` configuration. 2025-04-01T03:41:16,997 You can read more about "package data files" on setuptools documentation page: 2025-04-01T03:41:16,998 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-04-01T03:41:17,000 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-04-01T03:41:17,000 even if it does not contain any `.py` files. 2025-04-01T03:41:17,001 On the other hand, currently there is no concept of package data 2025-04-01T03:41:17,002 directory, all directories are treated like packages. 2025-04-01T03:41:17,009 ******************************************************************************** 2025-04-01T03:41:17,023 !! 2025-04-01T03:41:17,039 check.warn(importable) 2025-04-01T03:41:17,060 creating build/lib/abutils/binaries 2025-04-01T03:41:17,081 copying abutils/binaries/cdhit_darwin_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,083 copying abutils/binaries/cdhit_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,083 copying abutils/binaries/cdhit_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,084 copying abutils/binaries/fastp_darwin -> build/lib/abutils/binaries 2025-04-01T03:41:17,084 copying abutils/binaries/fastp_linux -> build/lib/abutils/binaries 2025-04-01T03:41:17,085 copying abutils/binaries/fasttree_darwin_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,085 copying abutils/binaries/fasttree_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,086 copying abutils/binaries/fasttree_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,086 copying abutils/binaries/minimap2_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,087 copying abutils/binaries/minimap2_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,087 copying abutils/binaries/mmseqs_darwin_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,088 copying abutils/binaries/mmseqs_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:17,636 copying abutils/binaries/mmseqs_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,661 copying abutils/binaries/muscle3_darwin -> build/lib/abutils/binaries 2025-04-01T03:41:18,669 copying abutils/binaries/muscle3_linux -> build/lib/abutils/binaries 2025-04-01T03:41:18,677 copying abutils/binaries/muscle_darwin_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,695 copying abutils/binaries/muscle_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,710 copying abutils/binaries/muscle_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,754 copying abutils/binaries/sickle_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,758 copying abutils/binaries/sickle_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,762 copying abutils/binaries/vsearch_darwin_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,772 copying abutils/binaries/vsearch_darwin_arm64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,781 copying abutils/binaries/vsearch_linux_amd64 -> build/lib/abutils/binaries 2025-04-01T03:41:18,821 creating build/lib/abutils/binaries/mafft_darwin 2025-04-01T03:41:18,822 copying abutils/binaries/mafft_darwin/mafft.bat -> build/lib/abutils/binaries/mafft_darwin 2025-04-01T03:41:18,824 creating build/lib/abutils/binaries/mafft_darwin/mafftdir/bin 2025-04-01T03:41:18,826 copying abutils/binaries/mafft_darwin/mafftdir/bin/mafft -> build/lib/abutils/binaries/mafft_darwin/mafftdir/bin 2025-04-01T03:41:18,830 creating build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:18,831 copying abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:18,858 copying abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:18,874 copying abutils/binaries/mafft_darwin/mafftdir/libexec/countlen -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:18,883 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,088 copying abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,114 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,133 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,150 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,168 copying abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,201 copying abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,211 copying abutils/binaries/mafft_darwin/mafftdir/libexec/filter -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,225 copying abutils/binaries/mafft_darwin/mafftdir/libexec/getlag -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,250 copying abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,254 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,272 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,275 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,299 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,303 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,306 copying abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,311 copying abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,341 copying abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,356 copying abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,375 copying abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,402 copying abutils/binaries/mafft_darwin/mafftdir/libexec/pairash -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,428 copying abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,454 copying abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,477 copying abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,491 copying abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,506 copying abutils/binaries/mafft_darwin/mafftdir/libexec/score -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,522 copying abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,525 copying abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,534 copying abutils/binaries/mafft_darwin/mafftdir/libexec/setcore -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,559 copying abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,573 copying abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5 -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,588 copying abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,616 copying abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,645 copying abutils/binaries/mafft_darwin/mafftdir/libexec/version -> build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:19,650 creating build/lib/abutils/binaries/mafft_linux 2025-04-01T03:41:19,651 copying abutils/binaries/mafft_linux/mafft.bat -> build/lib/abutils/binaries/mafft_linux 2025-04-01T03:41:19,654 creating build/lib/abutils/binaries/mafft_linux/mafftdir/bin 2025-04-01T03:41:19,656 copying abutils/binaries/mafft_linux/mafftdir/bin/mafft -> build/lib/abutils/binaries/mafft_linux/mafftdir/bin 2025-04-01T03:41:19,661 creating build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,662 copying abutils/binaries/mafft_linux/mafftdir/libexec/addsingle -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,685 copying abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,702 copying abutils/binaries/mafft_linux/mafftdir/libexec/countlen -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,714 copying abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,719 copying abutils/binaries/mafft_linux/mafftdir/libexec/dash_client -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,784 copying abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,787 copying abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,811 copying abutils/binaries/mafft_linux/mafftdir/libexec/dndblast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,827 copying abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,845 copying abutils/binaries/mafft_linux/mafftdir/libexec/dndpre -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,861 copying abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,882 copying abutils/binaries/mafft_linux/mafftdir/libexec/f2cl -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,896 copying abutils/binaries/mafft_linux/mafftdir/libexec/filter -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,911 copying abutils/binaries/mafft_linux/mafftdir/libexec/getlag -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,932 copying abutils/binaries/mafft_linux/mafftdir/libexec/hat3 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,934 copying abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,944 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,961 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,963 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,986 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,989 copying abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:19,992 copying abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,003 copying abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,031 copying abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,048 copying abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,065 copying abutils/binaries/mafft_linux/mafftdir/libexec/nodepair -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,086 copying abutils/binaries/mafft_linux/mafftdir/libexec/pairash -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,107 copying abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,129 copying abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,144 copying abutils/binaries/mafft_linux/mafftdir/libexec/replaceu -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,161 copying abutils/binaries/mafft_linux/mafftdir/libexec/restoreu -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,176 copying abutils/binaries/mafft_linux/mafftdir/libexec/score -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,192 copying abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,195 copying abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,208 copying abutils/binaries/mafft_linux/mafftdir/libexec/setcore -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,230 copying abutils/binaries/mafft_linux/mafftdir/libexec/setdirection -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,245 copying abutils/binaries/mafft_linux/mafftdir/libexec/sextet5 -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,263 copying abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,287 copying abutils/binaries/mafft_linux/mafftdir/libexec/tbfast -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,313 copying abutils/binaries/mafft_linux/mafftdir/libexec/version -> build/lib/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,323 creating build/lib/abutils/utils/matrices 2025-04-01T03:41:20,325 copying abutils/utils/matrices/blosum62 -> build/lib/abutils/utils/matrices 2025-04-01T03:41:20,327 copying abutils/utils/matrices/match1mismatch0 -> build/lib/abutils/utils/matrices 2025-04-01T03:41:20,330 copying abutils/utils/matrices/match3mismatch2 -> build/lib/abutils/utils/matrices 2025-04-01T03:41:20,364 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-04-01T03:41:20,365 !! 2025-04-01T03:41:20,366 ******************************************************************************** 2025-04-01T03:41:20,366 Please avoid running ``setup.py`` directly. 2025-04-01T03:41:20,367 Instead, use pypa/build, pypa/installer or other 2025-04-01T03:41:20,367 standards-based tools. 2025-04-01T03:41:20,369 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-04-01T03:41:20,369 ******************************************************************************** 2025-04-01T03:41:20,371 !! 2025-04-01T03:41:20,371 self.initialize_options() 2025-04-01T03:41:20,393 installing to build/bdist.linux-armv7l/wheel 2025-04-01T03:41:20,393 running install 2025-04-01T03:41:20,417 running install_lib 2025-04-01T03:41:20,445 creating build/bdist.linux-armv7l/wheel 2025-04-01T03:41:20,447 creating build/bdist.linux-armv7l/wheel/abutils 2025-04-01T03:41:20,449 creating build/bdist.linux-armv7l/wheel/abutils/binaries 2025-04-01T03:41:20,451 copying build/lib/abutils/binaries/muscle_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:20,467 copying build/lib/abutils/binaries/fastp_linux -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:20,695 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux 2025-04-01T03:41:20,696 copying build/lib/abutils/binaries/mafft_linux/mafft.bat -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux 2025-04-01T03:41:20,699 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux/mafftdir 2025-04-01T03:41:20,701 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,703 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/countlen -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,718 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/tbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,755 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,784 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/getlag -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,819 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,844 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,860 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/addsingle -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,881 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,892 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/score -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,913 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,915 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/pairash -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,935 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,938 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,949 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,965 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,967 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:20,986 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dash_client -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,049 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,062 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,078 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/hat3 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,080 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,082 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,087 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/version -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,097 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,100 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/filter -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,116 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,132 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,155 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,170 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/f2cl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,183 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,203 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,222 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/nodepair -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,243 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/setdirection -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,258 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dndpre -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,274 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/sextet5 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,293 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,313 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/setcore -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,333 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/dndblast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,349 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/replaceu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,368 copying build/lib/abutils/binaries/mafft_linux/mafftdir/libexec/restoreu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/libexec 2025-04-01T03:41:21,385 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_linux/mafftdir/bin 2025-04-01T03:41:21,387 copying build/lib/abutils/binaries/mafft_linux/mafftdir/bin/mafft -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_linux/mafftdir/bin 2025-04-01T03:41:21,391 copying build/lib/abutils/binaries/minimap2_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,396 copying build/lib/abutils/binaries/minimap2_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,416 copying build/lib/abutils/binaries/fasttree_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,422 copying build/lib/abutils/binaries/vsearch_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,461 copying build/lib/abutils/binaries/muscle_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,521 copying build/lib/abutils/binaries/fasttree_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,530 copying build/lib/abutils/binaries/mmseqs_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,634 copying build/lib/abutils/binaries/vsearch_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,644 copying build/lib/abutils/binaries/cdhit_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,648 copying build/lib/abutils/binaries/sickle_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,651 copying build/lib/abutils/binaries/muscle_darwin_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,669 copying build/lib/abutils/binaries/fasttree_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,676 copying build/lib/abutils/binaries/sickle_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,680 copying build/lib/abutils/binaries/muscle3_linux -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,687 copying build/lib/abutils/binaries/muscle3_darwin -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:21,696 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin 2025-04-01T03:41:21,698 copying build/lib/abutils/binaries/mafft_darwin/mafft.bat -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin 2025-04-01T03:41:21,700 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin/mafftdir 2025-04-01T03:41:21,703 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,705 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/countlen -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,712 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,746 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,764 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/getlag -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,805 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,846 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,872 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,922 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,929 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/score -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:21,959 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/pairash -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,003 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,007 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,011 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,027 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,030 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,059 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,261 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,273 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,289 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,292 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/version -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,297 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,299 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/filter -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,313 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,326 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,360 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,381 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,396 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,431 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,460 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,489 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,503 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,517 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5 -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,533 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,558 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/setcore -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,581 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,599 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,612 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/libexec 2025-04-01T03:41:22,626 creating build/bdist.linux-armv7l/wheel/abutils/binaries/mafft_darwin/mafftdir/bin 2025-04-01T03:41:22,627 copying build/lib/abutils/binaries/mafft_darwin/mafftdir/bin/mafft -> build/bdist.linux-armv7l/wheel/./abutils/binaries/mafft_darwin/mafftdir/bin 2025-04-01T03:41:22,632 copying build/lib/abutils/binaries/cdhit_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:22,636 copying build/lib/abutils/binaries/mmseqs_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:23,309 copying build/lib/abutils/binaries/fastp_darwin -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:23,319 copying build/lib/abutils/binaries/vsearch_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:23,328 copying build/lib/abutils/binaries/cdhit_darwin_arm64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:23,334 copying build/lib/abutils/binaries/mmseqs_linux_amd64 -> build/bdist.linux-armv7l/wheel/./abutils/binaries 2025-04-01T03:41:24,510 creating build/bdist.linux-armv7l/wheel/abutils/plots 2025-04-01T03:41:24,511 copying build/lib/abutils/plots/ring.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,514 copying build/lib/abutils/plots/base.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,516 copying build/lib/abutils/plots/ridge.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,519 copying build/lib/abutils/plots/summary.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,522 creating build/bdist.linux-armv7l/wheel/abutils/plots/mixins 2025-04-01T03:41:24,523 copying build/lib/abutils/plots/mixins/hue.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/mixins 2025-04-01T03:41:24,525 copying build/lib/abutils/plots/mixins/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/mixins 2025-04-01T03:41:24,527 copying build/lib/abutils/plots/data.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,530 copying build/lib/abutils/plots/lineage.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,532 copying build/lib/abutils/plots/donut.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,535 copying build/lib/abutils/plots/kde.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,539 creating build/bdist.linux-armv7l/wheel/abutils/plots/models 2025-04-01T03:41:24,541 copying build/lib/abutils/plots/models/data.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/models 2025-04-01T03:41:24,544 copying build/lib/abutils/plots/models/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/plots/models 2025-04-01T03:41:24,546 copying build/lib/abutils/plots/scatter.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,549 copying build/lib/abutils/plots/utils.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,551 copying build/lib/abutils/plots/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,553 copying build/lib/abutils/plots/heatmap.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,556 copying build/lib/abutils/plots/bar.py -> build/bdist.linux-armv7l/wheel/./abutils/plots 2025-04-01T03:41:24,559 copying build/lib/abutils/pp.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,561 copying build/lib/abutils/cl.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,563 copying build/lib/abutils/bin.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,566 creating build/bdist.linux-armv7l/wheel/abutils/tools 2025-04-01T03:41:24,567 copying build/lib/abutils/tools/preprocessing.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,571 copying build/lib/abutils/tools/clonify.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,575 copying build/lib/abutils/tools/cloning.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,577 copying build/lib/abutils/tools/alignment.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,581 copying build/lib/abutils/tools/log.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,583 copying build/lib/abutils/tools/search.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,586 copying build/lib/abutils/tools/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,588 copying build/lib/abutils/tools/similarity.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,591 copying build/lib/abutils/tools/anarci.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,593 copying build/lib/abutils/tools/cluster.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,597 copying build/lib/abutils/tools/phylo.py -> build/bdist.linux-armv7l/wheel/./abutils/tools 2025-04-01T03:41:24,601 creating build/bdist.linux-armv7l/wheel/abutils/utils 2025-04-01T03:41:24,602 copying build/lib/abutils/utils/mongodb.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,605 copying build/lib/abutils/utils/s3.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,608 copying build/lib/abutils/utils/decorators.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,610 copying build/lib/abutils/utils/convert.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,612 copying build/lib/abutils/utils/seqio.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,615 creating build/bdist.linux-armv7l/wheel/abutils/utils/matrices 2025-04-01T03:41:24,617 copying build/lib/abutils/utils/matrices/blosum62 -> build/bdist.linux-armv7l/wheel/./abutils/utils/matrices 2025-04-01T03:41:24,619 copying build/lib/abutils/utils/matrices/match3mismatch2 -> build/bdist.linux-armv7l/wheel/./abutils/utils/matrices 2025-04-01T03:41:24,621 copying build/lib/abutils/utils/matrices/match1mismatch0 -> build/bdist.linux-armv7l/wheel/./abutils/utils/matrices 2025-04-01T03:41:24,624 copying build/lib/abutils/utils/path.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,626 copying build/lib/abutils/utils/germlines.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,629 copying build/lib/abutils/utils/codons.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,631 copying build/lib/abutils/utils/utilities.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,633 copying build/lib/abutils/utils/circos.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,635 copying build/lib/abutils/utils/progbar.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,637 copying build/lib/abutils/utils/click.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,639 copying build/lib/abutils/utils/color.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,642 copying build/lib/abutils/utils/alignment.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,646 copying build/lib/abutils/utils/jobs.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,649 copying build/lib/abutils/utils/ssh_tunnel.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,651 copying build/lib/abutils/utils/log.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,654 copying build/lib/abutils/utils/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,656 copying build/lib/abutils/utils/database.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,659 copying build/lib/abutils/utils/phylogeny.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,662 copying build/lib/abutils/utils/cluster.py -> build/bdist.linux-armv7l/wheel/./abutils/utils 2025-04-01T03:41:24,665 copying build/lib/abutils/pl.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,667 copying build/lib/abutils/tl.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,669 copying build/lib/abutils/version.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,672 creating build/bdist.linux-armv7l/wheel/abutils/core 2025-04-01T03:41:24,673 copying build/lib/abutils/core/sequence.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-04-01T03:41:24,677 copying build/lib/abutils/core/lineage.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-04-01T03:41:24,681 copying build/lib/abutils/core/pair.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-04-01T03:41:24,685 copying build/lib/abutils/core/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/core 2025-04-01T03:41:24,688 creating build/bdist.linux-armv7l/wheel/abutils/preprocess 2025-04-01T03:41:24,689 copying build/lib/abutils/preprocess/preprocess.py -> build/bdist.linux-armv7l/wheel/./abutils/preprocess 2025-04-01T03:41:24,692 copying build/lib/abutils/preprocess/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/preprocess 2025-04-01T03:41:24,694 copying build/lib/abutils/io.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,698 copying build/lib/abutils/log.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,700 copying build/lib/abutils/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils 2025-04-01T03:41:24,702 creating build/bdist.linux-armv7l/wheel/abutils/tests 2025-04-01T03:41:24,704 copying build/lib/abutils/tests/test_sequence.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,707 copying build/lib/abutils/tests/test_color.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,709 copying build/lib/abutils/tests/test_cluster.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,712 copying build/lib/abutils/tests/test_pair.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,715 copying build/lib/abutils/tests/test_phylo.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,717 copying build/lib/abutils/tests/test_clonify.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,720 copying build/lib/abutils/tests/test_preprocessing.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,723 copying build/lib/abutils/tests/test_alignment.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,726 copying build/lib/abutils/tests/test_utilities.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,728 copying build/lib/abutils/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,730 copying build/lib/abutils/tests/test_cloning.py -> build/bdist.linux-armv7l/wheel/./abutils/tests 2025-04-01T03:41:24,732 running install_egg_info 2025-04-01T03:41:24,766 Copying abutils.egg-info to build/bdist.linux-armv7l/wheel/./abutils-0.5.2-py3.11.egg-info 2025-04-01T03:41:24,777 running install_scripts 2025-04-01T03:41:24,796 creating build/bdist.linux-armv7l/wheel/abutils-0.5.2.dist-info/WHEEL 2025-04-01T03:41:24,799 creating '/tmp/pip-wheel-wq_56z8t/abutils-0.5.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-04-01T03:41:24,802 adding 'abutils/__init__.py' 2025-04-01T03:41:24,804 adding 'abutils/bin.py' 2025-04-01T03:41:24,806 adding 'abutils/cl.py' 2025-04-01T03:41:24,810 adding 'abutils/io.py' 2025-04-01T03:41:24,812 adding 'abutils/log.py' 2025-04-01T03:41:24,814 adding 'abutils/pl.py' 2025-04-01T03:41:24,816 adding 'abutils/pp.py' 2025-04-01T03:41:24,818 adding 'abutils/tl.py' 2025-04-01T03:41:24,819 adding 'abutils/version.py' 2025-04-01T03:41:24,847 adding 'abutils/binaries/cdhit_darwin_amd64' 2025-04-01T03:41:24,874 adding 'abutils/binaries/cdhit_darwin_arm64' 2025-04-01T03:41:24,898 adding 'abutils/binaries/cdhit_linux_amd64' 2025-04-01T03:41:24,975 adding 'abutils/binaries/fastp_darwin' 2025-04-01T03:41:26,647 adding 'abutils/binaries/fastp_linux' 2025-04-01T03:41:26,758 adding 'abutils/binaries/fasttree_darwin_amd64' 2025-04-01T03:41:26,817 adding 'abutils/binaries/fasttree_darwin_arm64' 2025-04-01T03:41:26,886 adding 'abutils/binaries/fasttree_linux_amd64' 2025-04-01T03:41:26,916 adding 'abutils/binaries/minimap2_darwin_arm64' 2025-04-01T03:41:27,091 adding 'abutils/binaries/minimap2_linux_amd64' 2025-04-01T03:41:28,193 adding 'abutils/binaries/mmseqs_darwin_amd64' 2025-04-01T03:41:37,697 adding 'abutils/binaries/mmseqs_darwin_arm64' 2025-04-01T03:41:50,373 adding 'abutils/binaries/mmseqs_linux_amd64' 2025-04-01T03:41:50,912 adding 'abutils/binaries/muscle3_darwin' 2025-04-01T03:41:50,974 adding 'abutils/binaries/muscle3_linux' 2025-04-01T03:41:51,149 adding 'abutils/binaries/muscle_darwin_amd64' 2025-04-01T03:41:51,303 adding 'abutils/binaries/muscle_darwin_arm64' 2025-04-01T03:41:51,811 adding 'abutils/binaries/muscle_linux_amd64' 2025-04-01T03:41:51,833 adding 'abutils/binaries/sickle_darwin_arm64' 2025-04-01T03:41:51,840 adding 'abutils/binaries/sickle_linux_amd64' 2025-04-01T03:41:51,913 adding 'abutils/binaries/vsearch_darwin_amd64' 2025-04-01T03:41:51,979 adding 'abutils/binaries/vsearch_darwin_arm64' 2025-04-01T03:41:52,290 adding 'abutils/binaries/vsearch_linux_amd64' 2025-04-01T03:41:52,304 adding 'abutils/binaries/mafft_darwin/mafft.bat' 2025-04-01T03:41:52,315 adding 'abutils/binaries/mafft_darwin/mafftdir/bin/mafft' 2025-04-01T03:41:52,619 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/addsingle' 2025-04-01T03:41:52,773 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/contrafoldwrap' 2025-04-01T03:41:52,820 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/countlen' 2025-04-01T03:41:55,120 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dash_client' 2025-04-01T03:41:55,580 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/disttbfast' 2025-04-01T03:41:55,741 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dndblast' 2025-04-01T03:41:55,898 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dndfast7' 2025-04-01T03:41:56,047 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dndpre' 2025-04-01T03:41:56,361 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/dvtditr' 2025-04-01T03:41:56,437 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/f2cl' 2025-04-01T03:41:56,561 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/filter' 2025-04-01T03:41:56,841 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/getlag' 2025-04-01T03:41:56,856 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/hex2maffttext' 2025-04-01T03:41:57,008 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-distance' 2025-04-01T03:41:57,015 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-homologs.1' 2025-04-01T03:41:57,290 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft-profile' 2025-04-01T03:41:57,302 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafft.1' 2025-04-01T03:41:57,304 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mafftash_premafft.pl' 2025-04-01T03:41:57,310 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/maffttext2hex' 2025-04-01T03:41:57,598 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/makedirectionlist' 2025-04-01T03:41:57,753 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/mccaskillwrap' 2025-04-01T03:41:57,916 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/multi2hat3s' 2025-04-01T03:41:58,227 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/nodepair' 2025-04-01T03:41:58,520 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/pairash' 2025-04-01T03:41:58,823 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/pairlocalalign' 2025-04-01T03:41:58,962 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/regtable2seq' 2025-04-01T03:41:59,116 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/replaceu' 2025-04-01T03:41:59,243 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/restoreu' 2025-04-01T03:41:59,391 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/score' 2025-04-01T03:41:59,399 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/seekquencer_premafft.pl' 2025-04-01T03:41:59,441 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/seq2regtable' 2025-04-01T03:41:59,718 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/setcore' 2025-04-01T03:41:59,850 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/setdirection' 2025-04-01T03:42:00,005 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/sextet5' 2025-04-01T03:42:00,298 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/splittbfast' 2025-04-01T03:42:00,634 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/tbfast' 2025-04-01T03:42:00,650 adding 'abutils/binaries/mafft_darwin/mafftdir/libexec/version' 2025-04-01T03:42:00,653 adding 'abutils/binaries/mafft_linux/mafft.bat' 2025-04-01T03:42:00,664 adding 'abutils/binaries/mafft_linux/mafftdir/bin/mafft' 2025-04-01T03:42:00,919 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/addsingle' 2025-04-01T03:42:01,098 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/contrafoldwrap' 2025-04-01T03:42:01,224 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/countlen' 2025-04-01T03:42:01,229 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dash_alignments' 2025-04-01T03:42:02,011 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dash_client' 2025-04-01T03:42:02,040 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dash_sequences.fa' 2025-04-01T03:42:02,297 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/disttbfast' 2025-04-01T03:42:02,886 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dndblast' 2025-04-01T03:42:03,066 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dndfast7' 2025-04-01T03:42:03,243 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dndpre' 2025-04-01T03:42:03,494 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/dvtditr' 2025-04-01T03:42:03,634 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/f2cl' 2025-04-01T03:42:03,801 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/filter' 2025-04-01T03:42:04,038 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/getlag' 2025-04-01T03:42:04,047 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/hat3' 2025-04-01T03:42:04,149 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/hex2maffttext' 2025-04-01T03:42:04,325 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft-distance' 2025-04-01T03:42:04,333 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft-homologs.1' 2025-04-01T03:42:04,564 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft-profile' 2025-04-01T03:42:04,574 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafft.1' 2025-04-01T03:42:04,576 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mafftash_premafft.pl' 2025-04-01T03:42:04,678 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/maffttext2hex' 2025-04-01T03:42:04,917 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/makedirectionlist' 2025-04-01T03:42:05,097 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/mccaskillwrap' 2025-04-01T03:42:05,285 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/multi2hat3s' 2025-04-01T03:42:05,534 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/nodepair' 2025-04-01T03:42:05,776 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/pairash' 2025-04-01T03:42:06,021 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/pairlocalalign' 2025-04-01T03:42:06,191 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/regtable2seq' 2025-04-01T03:42:06,358 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/replaceu' 2025-04-01T03:42:06,525 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/restoreu' 2025-04-01T03:42:06,701 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/score' 2025-04-01T03:42:06,710 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/seekquencer_premafft.pl' 2025-04-01T03:42:06,826 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/seq2regtable' 2025-04-01T03:42:07,062 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/setcore' 2025-04-01T03:42:07,232 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/setdirection' 2025-04-01T03:42:07,410 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/sextet5' 2025-04-01T03:42:07,653 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/splittbfast' 2025-04-01T03:42:07,913 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/tbfast' 2025-04-01T03:42:08,023 adding 'abutils/binaries/mafft_linux/mafftdir/libexec/version' 2025-04-01T03:42:08,028 adding 'abutils/core/__init__.py' 2025-04-01T03:42:08,035 adding 'abutils/core/lineage.py' 2025-04-01T03:42:08,041 adding 'abutils/core/pair.py' 2025-04-01T03:42:08,048 adding 'abutils/core/sequence.py' 2025-04-01T03:42:08,051 adding 'abutils/plots/__init__.py' 2025-04-01T03:42:08,053 adding 'abutils/plots/bar.py' 2025-04-01T03:42:08,055 adding 'abutils/plots/base.py' 2025-04-01T03:42:08,057 adding 'abutils/plots/data.py' 2025-04-01T03:42:08,060 adding 'abutils/plots/donut.py' 2025-04-01T03:42:08,063 adding 'abutils/plots/heatmap.py' 2025-04-01T03:42:08,070 adding 'abutils/plots/kde.py' 2025-04-01T03:42:08,072 adding 'abutils/plots/lineage.py' 2025-04-01T03:42:08,074 adding 'abutils/plots/ridge.py' 2025-04-01T03:42:08,076 adding 'abutils/plots/ring.py' 2025-04-01T03:42:08,080 adding 'abutils/plots/scatter.py' 2025-04-01T03:42:08,082 adding 'abutils/plots/summary.py' 2025-04-01T03:42:08,084 adding 'abutils/plots/utils.py' 2025-04-01T03:42:08,086 adding 'abutils/plots/mixins/__init__.py' 2025-04-01T03:42:08,087 adding 'abutils/plots/mixins/hue.py' 2025-04-01T03:42:08,089 adding 'abutils/plots/models/__init__.py' 2025-04-01T03:42:08,092 adding 'abutils/plots/models/data.py' 2025-04-01T03:42:08,095 adding 'abutils/preprocess/__init__.py' 2025-04-01T03:42:08,097 adding 'abutils/preprocess/preprocess.py' 2025-04-01T03:42:08,100 adding 'abutils/tests/__init__.py' 2025-04-01T03:42:08,102 adding 'abutils/tests/test_alignment.py' 2025-04-01T03:42:08,104 adding 'abutils/tests/test_clonify.py' 2025-04-01T03:42:08,105 adding 'abutils/tests/test_cloning.py' 2025-04-01T03:42:08,107 adding 'abutils/tests/test_cluster.py' 2025-04-01T03:42:08,109 adding 'abutils/tests/test_color.py' 2025-04-01T03:42:08,111 adding 'abutils/tests/test_pair.py' 2025-04-01T03:42:08,113 adding 'abutils/tests/test_phylo.py' 2025-04-01T03:42:08,116 adding 'abutils/tests/test_preprocessing.py' 2025-04-01T03:42:08,118 adding 'abutils/tests/test_sequence.py' 2025-04-01T03:42:08,120 adding 'abutils/tests/test_utilities.py' 2025-04-01T03:42:08,122 adding 'abutils/tools/__init__.py' 2025-04-01T03:42:08,129 adding 'abutils/tools/alignment.py' 2025-04-01T03:42:08,131 adding 'abutils/tools/anarci.py' 2025-04-01T03:42:08,135 adding 'abutils/tools/clonify.py' 2025-04-01T03:42:08,138 adding 'abutils/tools/cloning.py' 2025-04-01T03:42:08,143 adding 'abutils/tools/cluster.py' 2025-04-01T03:42:08,145 adding 'abutils/tools/log.py' 2025-04-01T03:42:08,150 adding 'abutils/tools/phylo.py' 2025-04-01T03:42:08,154 adding 'abutils/tools/preprocessing.py' 2025-04-01T03:42:08,157 adding 'abutils/tools/search.py' 2025-04-01T03:42:08,160 adding 'abutils/tools/similarity.py' 2025-04-01T03:42:08,162 adding 'abutils/utils/__init__.py' 2025-04-01T03:42:08,170 adding 'abutils/utils/alignment.py' 2025-04-01T03:42:08,172 adding 'abutils/utils/circos.py' 2025-04-01T03:42:08,173 adding 'abutils/utils/click.py' 2025-04-01T03:42:08,178 adding 'abutils/utils/cluster.py' 2025-04-01T03:42:08,180 adding 'abutils/utils/codons.py' 2025-04-01T03:42:08,182 adding 'abutils/utils/color.py' 2025-04-01T03:42:08,184 adding 'abutils/utils/convert.py' 2025-04-01T03:42:08,186 adding 'abutils/utils/database.py' 2025-04-01T03:42:08,188 adding 'abutils/utils/decorators.py' 2025-04-01T03:42:08,190 adding 'abutils/utils/germlines.py' 2025-04-01T03:42:08,192 adding 'abutils/utils/jobs.py' 2025-04-01T03:42:08,194 adding 'abutils/utils/log.py' 2025-04-01T03:42:08,197 adding 'abutils/utils/mongodb.py' 2025-04-01T03:42:08,199 adding 'abutils/utils/path.py' 2025-04-01T03:42:08,203 adding 'abutils/utils/phylogeny.py' 2025-04-01T03:42:08,205 adding 'abutils/utils/progbar.py' 2025-04-01T03:42:08,207 adding 'abutils/utils/s3.py' 2025-04-01T03:42:08,209 adding 'abutils/utils/seqio.py' 2025-04-01T03:42:08,211 adding 'abutils/utils/ssh_tunnel.py' 2025-04-01T03:42:08,213 adding 'abutils/utils/utilities.py' 2025-04-01T03:42:08,215 adding 'abutils/utils/matrices/blosum62' 2025-04-01T03:42:08,217 adding 'abutils/utils/matrices/match1mismatch0' 2025-04-01T03:42:08,219 adding 'abutils/utils/matrices/match3mismatch2' 2025-04-01T03:42:08,221 adding 'abutils-0.5.2.dist-info/LICENSE' 2025-04-01T03:42:08,223 adding 'abutils-0.5.2.dist-info/METADATA' 2025-04-01T03:42:08,224 adding 'abutils-0.5.2.dist-info/WHEEL' 2025-04-01T03:42:08,225 adding 'abutils-0.5.2.dist-info/top_level.txt' 2025-04-01T03:42:08,228 adding 'abutils-0.5.2.dist-info/RECORD' 2025-04-01T03:42:08,366 removing build/bdist.linux-armv7l/wheel 2025-04-01T03:42:08,604 Building wheel for abutils (setup.py): finished with status 'done' 2025-04-01T03:42:10,407 Created wheel for abutils: filename=abutils-0.5.2-py3-none-any.whl size=86653637 sha256=622fe469abaae88b9b4ecf4ca27f989333e51ad1382b99256b0c5ded40e968a5 2025-04-01T03:42:10,408 Stored in directory: /tmp/pip-ephem-wheel-cache-hp1albo7/wheels/3c/04/d4/81f5052942d6b01b9a398aeeb7c5417bdf7a324c7cbf3950a1 2025-04-01T03:42:10,450 Successfully built abutils 2025-04-01T03:42:12,524 Removed build tracker: '/tmp/pip-build-tracker-9w8u3rg9'