2024-01-22T10:20:20,124 Created temporary directory: /tmp/pip-build-tracker-yo86qiv3 2024-01-22T10:20:20,125 Initialized build tracking at /tmp/pip-build-tracker-yo86qiv3 2024-01-22T10:20:20,125 Created build tracker: /tmp/pip-build-tracker-yo86qiv3 2024-01-22T10:20:20,126 Entered build tracker: /tmp/pip-build-tracker-yo86qiv3 2024-01-22T10:20:20,127 Created temporary directory: /tmp/pip-wheel-kqxdypgt 2024-01-22T10:20:20,130 Created temporary directory: /tmp/pip-ephem-wheel-cache-a1zizk85 2024-01-22T10:20:20,152 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-01-22T10:20:20,155 2 location(s) to search for versions of phylo-treetime: 2024-01-22T10:20:20,155 * https://pypi.org/simple/phylo-treetime/ 2024-01-22T10:20:20,155 * https://www.piwheels.org/simple/phylo-treetime/ 2024-01-22T10:20:20,156 Fetching project page and analyzing links: https://pypi.org/simple/phylo-treetime/ 2024-01-22T10:20:20,157 Getting page https://pypi.org/simple/phylo-treetime/ 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version: 0.9.5 2024-01-22T10:20:20,442 Skipping link: No binaries permitted for phylo-treetime: https://files.pythonhosted.org/packages/da/35/f58144c9bca87dbcd371221c5698edfcc031ca6064dbb883a0ddc112af14/phylo_treetime-0.9.5-py3-none-any.whl (from https://pypi.org/simple/phylo-treetime/) 2024-01-22T10:20:20,443 Found link https://files.pythonhosted.org/packages/d1/8b/db9a33464169598797ef1027f1c13be489da62bd4d9040902af47644e300/phylo-treetime-0.9.6.tar.gz (from https://pypi.org/simple/phylo-treetime/), version: 0.9.6 2024-01-22T10:20:20,443 Skipping link: No binaries permitted for phylo-treetime: https://files.pythonhosted.org/packages/ef/2e/627d2c73bb3f05da8bba4216e3ee9560491d8aa26927524ebed0fc83edf5/phylo_treetime-0.9.6-py3-none-any.whl (from https://pypi.org/simple/phylo-treetime/) 2024-01-22T10:20:20,444 Found link https://files.pythonhosted.org/packages/24/b2/3162271feb620b86a2a77b7d670ffa26e30c483f936a949de44e2fb6baea/phylo-treetime-0.10.0.tar.gz (from 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https://files.pythonhosted.org/packages/04/ae/64aaa01d4ae869be30187e91d9183268cbae1e905f4eb94f4e20ef473954/phylo-treetime-0.11.0.tar.gz (from https://pypi.org/simple/phylo-treetime/), version: 0.11.0 2024-01-22T10:20:20,447 Skipping link: No binaries permitted for phylo-treetime: https://files.pythonhosted.org/packages/ea/a9/8f936884e82de6b09cb81f46609d0350c5ded2f445e1edda9356f5b79a7a/phylo_treetime-0.11.0-py3-none-any.whl (from https://pypi.org/simple/phylo-treetime/) 2024-01-22T10:20:20,448 Found link https://files.pythonhosted.org/packages/07/15/b63748b289786ccca35fcfdc9f74c9cb6944d4608b51ec43e3f2dd683a75/phylo-treetime-0.11.1.tar.gz (from https://pypi.org/simple/phylo-treetime/), version: 0.11.1 2024-01-22T10:20:20,449 Skipping link: No binaries permitted for phylo-treetime: https://files.pythonhosted.org/packages/c8/0f/6f95c9c4040192027d61752bdafead776bc41ffc79e7ea4d680d64fef341/phylo_treetime-0.11.1-py3-none-any.whl (from https://pypi.org/simple/phylo-treetime/) 2024-01-22T10:20:20,449 Found link https://files.pythonhosted.org/packages/98/da/0625de3eb3bb4166d389154d122fee3f3cf405a3f57ed0a46be596d8fd2e/phylo-treetime-0.11.2.tar.gz (from https://pypi.org/simple/phylo-treetime/), version: 0.11.2 2024-01-22T10:20:20,450 Skipping link: No binaries permitted for phylo-treetime: https://files.pythonhosted.org/packages/d9/36/e86c7df63fd2441c1c32693ca6e82af093c7e64b56436231877c036d3d23/phylo_treetime-0.11.2-py3-none-any.whl (from https://pypi.org/simple/phylo-treetime/) 2024-01-22T10:20:20,451 Fetching project page and analyzing links: https://www.piwheels.org/simple/phylo-treetime/ 2024-01-22T10:20:20,451 Getting page https://www.piwheels.org/simple/phylo-treetime/ 2024-01-22T10:20:20,453 Found index url https://www.piwheels.org/simple/ 2024-01-22T10:20:20,633 Fetched page https://www.piwheels.org/simple/phylo-treetime/ as text/html 2024-01-22T10:20:20,643 Skipping link: No binaries permitted for phylo-treetime: 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https://www.piwheels.org/simple/phylo-treetime/phylo_treetime-0.5.5-py3-none-any.whl#sha256=ea329a8c756c2d5e3257afb344a1a29f102fb9ecd59f20c47ede9011e535321d (from https://www.piwheels.org/simple/phylo-treetime/) 2024-01-22T10:20:20,662 Skipping link: No binaries permitted for phylo-treetime: https://www.piwheels.org/simple/phylo-treetime/phylo_treetime-0.5.3-py3-none-any.whl#sha256=fcbbe2ab1f8ae7f99daabb821ef258efc28b05541a3b1834b782f29df58881ca (from https://www.piwheels.org/simple/phylo-treetime/) 2024-01-22T10:20:20,663 Skipping link: No binaries permitted for phylo-treetime: https://www.piwheels.org/simple/phylo-treetime/phylo_treetime-0.5.2-py3-none-any.whl#sha256=634abaac758ef7a6f92240d497413c951ce3505194b66e73a2b06937c1ca1f60 (from https://www.piwheels.org/simple/phylo-treetime/) 2024-01-22T10:20:20,663 Skipping link: No binaries permitted for phylo-treetime: https://www.piwheels.org/simple/phylo-treetime/phylo_treetime-0.5.1-py3-none-any.whl#sha256=eacca6a521c946a68332b875cb608b2e4fa2a70b8be111b71334686a8db2a90b (from https://www.piwheels.org/simple/phylo-treetime/) 2024-01-22T10:20:20,664 Skipping link: No binaries permitted for phylo-treetime: https://www.piwheels.org/simple/phylo-treetime/phylo_treetime-0.4.1-py3-none-any.whl#sha256=b4a1daab1443c79ad304e1d7e547366c0bbcdfb782cc60b3ebbb062338b9a4ca (from https://www.piwheels.org/simple/phylo-treetime/) 2024-01-22T10:20:20,665 Skipping link: not a file: https://www.piwheels.org/simple/phylo-treetime/ 2024-01-22T10:20:20,665 Skipping link: not a file: https://pypi.org/simple/phylo-treetime/ 2024-01-22T10:20:20,690 Given no hashes to check 1 links for project 'phylo-treetime': discarding no candidates 2024-01-22T10:20:20,710 Collecting phylo-treetime==0.11.2 2024-01-22T10:20:20,712 Created temporary directory: /tmp/pip-unpack-mb3dteki 2024-01-22T10:20:20,933 Downloading phylo-treetime-0.11.2.tar.gz (1.3 MB) 2024-01-22T10:20:21,395 Added phylo-treetime==0.11.2 from https://files.pythonhosted.org/packages/98/da/0625de3eb3bb4166d389154d122fee3f3cf405a3f57ed0a46be596d8fd2e/phylo-treetime-0.11.2.tar.gz to build tracker '/tmp/pip-build-tracker-yo86qiv3' 2024-01-22T10:20:21,397 Running setup.py (path:/tmp/pip-wheel-kqxdypgt/phylo-treetime_63a0bb0816e24df089895ca378727f48/setup.py) egg_info for package phylo-treetime 2024-01-22T10:20:21,398 Created temporary directory: /tmp/pip-pip-egg-info-er76rsqp 2024-01-22T10:20:21,398 Preparing metadata (setup.py): started 2024-01-22T10:20:21,400 Running command python setup.py egg_info 2024-01-22T10:20:22,254 running egg_info 2024-01-22T10:20:22,255 creating /tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info 2024-01-22T10:20:22,281 writing /tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/PKG-INFO 2024-01-22T10:20:22,285 writing dependency_links to /tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/dependency_links.txt 2024-01-22T10:20:22,287 writing entry points to /tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/entry_points.txt 2024-01-22T10:20:22,289 writing requirements to /tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/requires.txt 2024-01-22T10:20:22,290 writing top-level names to /tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/top_level.txt 2024-01-22T10:20:22,291 writing manifest file '/tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/SOURCES.txt' 2024-01-22T10:20:22,374 reading manifest file '/tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/SOURCES.txt' 2024-01-22T10:20:22,376 adding license file 'LICENSE' 2024-01-22T10:20:22,378 writing manifest file '/tmp/pip-pip-egg-info-er76rsqp/phylo_treetime.egg-info/SOURCES.txt' 2024-01-22T10:20:22,478 Preparing metadata (setup.py): finished with status 'done' 2024-01-22T10:20:22,483 Source in /tmp/pip-wheel-kqxdypgt/phylo-treetime_63a0bb0816e24df089895ca378727f48 has version 0.11.2, which satisfies requirement phylo-treetime==0.11.2 from https://files.pythonhosted.org/packages/98/da/0625de3eb3bb4166d389154d122fee3f3cf405a3f57ed0a46be596d8fd2e/phylo-treetime-0.11.2.tar.gz 2024-01-22T10:20:22,484 Removed phylo-treetime==0.11.2 from https://files.pythonhosted.org/packages/98/da/0625de3eb3bb4166d389154d122fee3f3cf405a3f57ed0a46be596d8fd2e/phylo-treetime-0.11.2.tar.gz from build tracker '/tmp/pip-build-tracker-yo86qiv3' 2024-01-22T10:20:22,489 Created temporary directory: /tmp/pip-unpack-wt093tdn 2024-01-22T10:20:22,490 Created temporary directory: /tmp/pip-unpack-rkt8bqj9 2024-01-22T10:20:22,503 Building wheels for collected packages: phylo-treetime 2024-01-22T10:20:22,508 Created temporary directory: /tmp/pip-wheel-3851om1n 2024-01-22T10:20:22,508 Building wheel for phylo-treetime (setup.py): started 2024-01-22T10:20:22,510 Destination directory: /tmp/pip-wheel-3851om1n 2024-01-22T10:20:22,510 Running command python setup.py bdist_wheel 2024-01-22T10:20:23,309 running bdist_wheel 2024-01-22T10:20:23,441 running build 2024-01-22T10:20:23,441 running build_py 2024-01-22T10:20:23,470 creating build 2024-01-22T10:20:23,470 creating build/lib 2024-01-22T10:20:23,471 creating build/lib/treetime 2024-01-22T10:20:23,472 copying treetime/clock_filter_methods.py -> build/lib/treetime 2024-01-22T10:20:23,475 copying treetime/seqgen.py -> build/lib/treetime 2024-01-22T10:20:23,476 copying treetime/__init__.py -> build/lib/treetime 2024-01-22T10:20:23,478 copying treetime/wrappers.py -> build/lib/treetime 2024-01-22T10:20:23,481 copying treetime/gtr.py -> build/lib/treetime 2024-01-22T10:20:23,483 copying treetime/clock_tree.py -> build/lib/treetime 2024-01-22T10:20:23,486 copying treetime/config.py -> build/lib/treetime 2024-01-22T10:20:23,488 copying treetime/utils.py -> build/lib/treetime 2024-01-22T10:20:23,490 copying treetime/treeanc.py -> build/lib/treetime 2024-01-22T10:20:23,493 copying treetime/merger_models.py -> build/lib/treetime 2024-01-22T10:20:23,495 copying treetime/treetime.py -> build/lib/treetime 2024-01-22T10:20:23,498 copying treetime/CLI_io.py -> build/lib/treetime 2024-01-22T10:20:23,500 copying treetime/gtr_site_specific.py -> build/lib/treetime 2024-01-22T10:20:23,503 copying treetime/arg.py -> build/lib/treetime 2024-01-22T10:20:23,504 copying treetime/__main__.py -> build/lib/treetime 2024-01-22T10:20:23,506 copying treetime/branch_len_interpolator.py -> build/lib/treetime 2024-01-22T10:20:23,508 copying treetime/aa_models.py -> build/lib/treetime 2024-01-22T10:20:23,510 copying treetime/seq_utils.py -> build/lib/treetime 2024-01-22T10:20:23,513 copying treetime/sequence_data.py -> build/lib/treetime 2024-01-22T10:20:23,515 copying treetime/vcf_utils.py -> build/lib/treetime 2024-01-22T10:20:23,517 copying treetime/distribution.py -> build/lib/treetime 2024-01-22T10:20:23,520 copying treetime/nuc_models.py -> build/lib/treetime 2024-01-22T10:20:23,521 copying treetime/treeregression.py -> build/lib/treetime 2024-01-22T10:20:23,524 copying treetime/argument_parser.py -> build/lib/treetime 2024-01-22T10:20:23,526 copying treetime/node_interpolator.py -> build/lib/treetime 2024-01-22T10:20:23,556 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-01-22T10:20:23,556 !! 2024-01-22T10:20:23,557 ******************************************************************************** 2024-01-22T10:20:23,558 Please avoid running ``setup.py`` directly. 2024-01-22T10:20:23,558 Instead, use pypa/build, pypa/installer or other 2024-01-22T10:20:23,559 standards-based tools. 2024-01-22T10:20:23,560 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-01-22T10:20:23,561 ******************************************************************************** 2024-01-22T10:20:23,562 !! 2024-01-22T10:20:23,562 self.initialize_options() 2024-01-22T10:20:23,582 installing to build/bdist.linux-armv7l/wheel 2024-01-22T10:20:23,583 running install 2024-01-22T10:20:23,607 running install_lib 2024-01-22T10:20:23,632 creating build/bdist.linux-armv7l 2024-01-22T10:20:23,633 creating build/bdist.linux-armv7l/wheel 2024-01-22T10:20:23,634 creating build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,635 copying build/lib/treetime/clock_filter_methods.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,638 copying build/lib/treetime/seqgen.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,640 copying build/lib/treetime/__init__.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,641 copying build/lib/treetime/wrappers.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,644 copying build/lib/treetime/gtr.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,647 copying build/lib/treetime/clock_tree.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,650 copying build/lib/treetime/config.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,652 copying build/lib/treetime/utils.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,654 copying build/lib/treetime/treeanc.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,658 copying build/lib/treetime/merger_models.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,660 copying build/lib/treetime/treetime.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,663 copying build/lib/treetime/CLI_io.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,666 copying build/lib/treetime/gtr_site_specific.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,668 copying build/lib/treetime/arg.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,670 copying build/lib/treetime/__main__.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,672 copying build/lib/treetime/branch_len_interpolator.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,674 copying build/lib/treetime/aa_models.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,676 copying build/lib/treetime/seq_utils.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,679 copying build/lib/treetime/sequence_data.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,681 copying build/lib/treetime/vcf_utils.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,684 copying build/lib/treetime/distribution.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,686 copying build/lib/treetime/nuc_models.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,688 copying build/lib/treetime/treeregression.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,691 copying build/lib/treetime/argument_parser.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,693 copying build/lib/treetime/node_interpolator.py -> build/bdist.linux-armv7l/wheel/treetime 2024-01-22T10:20:23,695 running install_egg_info 2024-01-22T10:20:23,727 running egg_info 2024-01-22T10:20:23,752 writing phylo_treetime.egg-info/PKG-INFO 2024-01-22T10:20:23,756 writing dependency_links to phylo_treetime.egg-info/dependency_links.txt 2024-01-22T10:20:23,758 writing entry points to phylo_treetime.egg-info/entry_points.txt 2024-01-22T10:20:23,760 writing requirements to phylo_treetime.egg-info/requires.txt 2024-01-22T10:20:23,761 writing top-level names to phylo_treetime.egg-info/top_level.txt 2024-01-22T10:20:23,790 reading manifest file 'phylo_treetime.egg-info/SOURCES.txt' 2024-01-22T10:20:23,794 adding license file 'LICENSE' 2024-01-22T10:20:23,798 writing manifest file 'phylo_treetime.egg-info/SOURCES.txt' 2024-01-22T10:20:23,799 Copying phylo_treetime.egg-info to build/bdist.linux-armv7l/wheel/phylo_treetime-0.11.2-py3.11.egg-info 2024-01-22T10:20:23,811 running install_scripts 2024-01-22T10:20:23,828 creating build/bdist.linux-armv7l/wheel/phylo_treetime-0.11.2.dist-info/WHEEL 2024-01-22T10:20:23,831 creating '/tmp/pip-wheel-3851om1n/phylo_treetime-0.11.2-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-01-22T10:20:23,835 adding 'treetime/CLI_io.py' 2024-01-22T10:20:23,837 adding 'treetime/__init__.py' 2024-01-22T10:20:23,838 adding 'treetime/__main__.py' 2024-01-22T10:20:23,840 adding 'treetime/aa_models.py' 2024-01-22T10:20:23,841 adding 'treetime/arg.py' 2024-01-22T10:20:23,844 adding 'treetime/argument_parser.py' 2024-01-22T10:20:23,846 adding 'treetime/branch_len_interpolator.py' 2024-01-22T10:20:23,849 adding 'treetime/clock_filter_methods.py' 2024-01-22T10:20:23,858 adding 'treetime/clock_tree.py' 2024-01-22T10:20:23,860 adding 'treetime/config.py' 2024-01-22T10:20:23,863 adding 'treetime/distribution.py' 2024-01-22T10:20:23,870 adding 'treetime/gtr.py' 2024-01-22T10:20:23,874 adding 'treetime/gtr_site_specific.py' 2024-01-22T10:20:23,877 adding 'treetime/merger_models.py' 2024-01-22T10:20:23,881 adding 'treetime/node_interpolator.py' 2024-01-22T10:20:23,883 adding 'treetime/nuc_models.py' 2024-01-22T10:20:23,886 adding 'treetime/seq_utils.py' 2024-01-22T10:20:23,888 adding 'treetime/seqgen.py' 2024-01-22T10:20:23,892 adding 'treetime/sequence_data.py' 2024-01-22T10:20:23,905 adding 'treetime/treeanc.py' 2024-01-22T10:20:23,910 adding 'treetime/treeregression.py' 2024-01-22T10:20:23,920 adding 'treetime/treetime.py' 2024-01-22T10:20:23,924 adding 'treetime/utils.py' 2024-01-22T10:20:23,930 adding 'treetime/vcf_utils.py' 2024-01-22T10:20:23,937 adding 'treetime/wrappers.py' 2024-01-22T10:20:23,939 adding 'phylo_treetime-0.11.2.dist-info/LICENSE' 2024-01-22T10:20:23,942 adding 'phylo_treetime-0.11.2.dist-info/METADATA' 2024-01-22T10:20:23,944 adding 'phylo_treetime-0.11.2.dist-info/WHEEL' 2024-01-22T10:20:23,945 adding 'phylo_treetime-0.11.2.dist-info/entry_points.txt' 2024-01-22T10:20:23,946 adding 'phylo_treetime-0.11.2.dist-info/top_level.txt' 2024-01-22T10:20:23,947 adding 'phylo_treetime-0.11.2.dist-info/RECORD' 2024-01-22T10:20:23,951 removing build/bdist.linux-armv7l/wheel 2024-01-22T10:20:24,060 Building wheel for phylo-treetime (setup.py): finished with status 'done' 2024-01-22T10:20:24,064 Created wheel for phylo-treetime: filename=phylo_treetime-0.11.2-py3-none-any.whl size=148290 sha256=688a98656db0fb8c66372ddc259fe8f5a356fbdd69f01b7924228ca3b9ac39db 2024-01-22T10:20:24,065 Stored in directory: /tmp/pip-ephem-wheel-cache-a1zizk85/wheels/d6/34/8d/fa676e13e7f70e1a29f2e0bed55b7f2f9466165c7808651b97 2024-01-22T10:20:24,077 Successfully built phylo-treetime 2024-01-22T10:20:24,084 Removed build tracker: '/tmp/pip-build-tracker-yo86qiv3'