2025-09-09T12:52:49,485 Created temporary directory: /tmp/pip-build-tracker-ynoltyzz 2025-09-09T12:52:49,486 Initialized build tracking at /tmp/pip-build-tracker-ynoltyzz 2025-09-09T12:52:49,486 Created build tracker: /tmp/pip-build-tracker-ynoltyzz 2025-09-09T12:52:49,486 Entered build tracker: /tmp/pip-build-tracker-ynoltyzz 2025-09-09T12:52:49,486 Created temporary directory: /tmp/pip-wheel-cv0yrba7 2025-09-09T12:52:49,489 Created temporary directory: /tmp/pip-ephem-wheel-cache-my7tb1_c 2025-09-09T12:52:49,555 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-09T12:52:49,558 2 location(s) to search for versions of gff3tool: 2025-09-09T12:52:49,558 * https://pypi.org/simple/gff3tool/ 2025-09-09T12:52:49,558 * https://www.piwheels.org/simple/gff3tool/ 2025-09-09T12:52:49,558 Fetching project page and analyzing links: https://pypi.org/simple/gff3tool/ 2025-09-09T12:52:49,558 Getting page https://pypi.org/simple/gff3tool/ 2025-09-09T12:52:49,559 Found index url https://pypi.org/simple/ 2025-09-09T12:52:49,630 Fetched page https://pypi.org/simple/gff3tool/ as application/vnd.pypi.simple.v1+json 2025-09-09T12:52:49,632 Found link https://files.pythonhosted.org/packages/71/33/dac2be6f38dd40d4f914814e7afe2cc5391f1bfecc77439612284de537a1/gff3tool-1.1.0.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.1.0 2025-09-09T12:52:49,633 Found link https://files.pythonhosted.org/packages/a1/f1/6630128adac220623c28a5f5ed4e6cfa070589143a0b2151237c20923149/gff3tool-1.3.0.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.3.0 2025-09-09T12:52:49,633 Found link https://files.pythonhosted.org/packages/71/cb/9b9d73fd7171571b9ad063fa3a6aac684aeebc7e958a37e2423c690d5110/gff3tool-1.4.1.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.4.1 2025-09-09T12:52:49,633 Found link https://files.pythonhosted.org/packages/23/bb/0b7952dfc7fb8992e6d7349eb55cbbe51e6c0750d57e33c01de5be39da46/gff3tool-1.4.2.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.4.2 2025-09-09T12:52:49,633 Found link https://files.pythonhosted.org/packages/7c/79/b59b3e47735edfe2ac2a9334c8e2836d63c0899b51f9badc416ae07e8353/gff3tool-1.4.3.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.4.3 2025-09-09T12:52:49,633 Found link https://files.pythonhosted.org/packages/cf/33/8cd85764a601bf3a5e0116f8b457c308294ec9c25139aacade6e21860335/gff3tool-1.4.4.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.4.4 2025-09-09T12:52:49,634 Skipping link: No binaries permitted for gff3tool: https://files.pythonhosted.org/packages/2a/4c/a16d0aae5fa870fc7630eb0536042fd3e0494467efd9f27cea6090cdbbe0/gff3tool-1.4.5-cp27-cp27m-win_amd64.whl (from https://pypi.org/simple/gff3tool/) 2025-09-09T12:52:49,634 Found link https://files.pythonhosted.org/packages/f8/78/330f714b6e771d69079128a44f61830c9ce22969eaa3b176dafb94c48809/gff3tool-1.4.5.tar.gz (from https://pypi.org/simple/gff3tool/), version: 1.4.5 2025-09-09T12:52:49,634 Found link https://files.pythonhosted.org/packages/8a/82/0f528dc498d7fdfbd6b8a968ed1cfee43ffa55461e77830a22f606aea3bb/gff3tool-2.0.0.tar.gz (from https://pypi.org/simple/gff3tool/), version: 2.0.0 2025-09-09T12:52:49,634 Found link https://files.pythonhosted.org/packages/aa/b3/cecb768a048bf2e661f0e77bf3208ed8ef203acbd93107b1f00d7b57da1e/gff3tool-2.0.1.tar.gz (from https://pypi.org/simple/gff3tool/), version: 2.0.1 2025-09-09T12:52:49,634 Found link https://files.pythonhosted.org/packages/21/2e/7e77d34adec82b4d896c8959c7993534810f8bc43cc374e984e5635bbf94/gff3tool-2.0.3.tar.gz (from https://pypi.org/simple/gff3tool/), version: 2.0.3 2025-09-09T12:52:49,635 Found link https://files.pythonhosted.org/packages/7f/12/d177f42f6e3a73dae82fd5cc89e7404de121ab381e5454ca8da11110d88a/gff3tool-2.1.0.tar.gz (from https://pypi.org/simple/gff3tool/), version: 2.1.0 2025-09-09T12:52:49,635 Fetching project page and analyzing links: https://www.piwheels.org/simple/gff3tool/ 2025-09-09T12:52:49,635 Getting page https://www.piwheels.org/simple/gff3tool/ 2025-09-09T12:52:49,636 Found index url https://www.piwheels.org/simple/ 2025-09-09T12:52:49,735 Fetched page https://www.piwheels.org/simple/gff3tool/ as text/html 2025-09-09T12:52:49,745 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp311-cp311-linux_armv6l.whl#sha256=866502237ec1e32fd2caee5c04df61c4464dc7db901009e864c3f53ff3f43d94 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,745 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp311-cp311-linux_armv7l.whl#sha256=866502237ec1e32fd2caee5c04df61c4464dc7db901009e864c3f53ff3f43d94 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,745 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp35-cp35m-linux_armv6l.whl#sha256=5eef1c37d908cd2d30f368726348cf85a26dc4d95abc8131735de5c720d7975b (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,745 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp35-cp35m-linux_armv7l.whl#sha256=5eef1c37d908cd2d30f368726348cf85a26dc4d95abc8131735de5c720d7975b (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,746 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp37-cp37m-linux_armv6l.whl#sha256=cfe6edebe5cd63bcd5cd38e34377d8c34eb8fdc675d148da65e75d4399db5ff6 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,746 Skipping link: No binaries permitted for gff3tool: 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https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp39-cp39-linux_armv6l.whl#sha256=66d9164d8245e216f080754a89df8cda4192f034e99a32532198ccf3c38f6faa (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,747 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp39-cp39-linux_armv7l.whl#sha256=66d9164d8245e216f080754a89df8cda4192f034e99a32532198ccf3c38f6faa (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,747 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp35-cp35m-linux_armv6l.whl#sha256=baa47b3147a931daf4958a447f96979e4448707996cc9d60ac45ad3ebb8e9c1f (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,748 Skipping link: No binaries permitted for gff3tool: 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https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp37-cp37m-linux_armv7l.whl#sha256=88be7d8c71c322212fdc989a672f6e0f10ed299cb5615d7d34f70058a0d6f928 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,748 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp37-cp37m-linux_armv6l.whl#sha256=88be7d8c71c322212fdc989a672f6e0f10ed299cb5615d7d34f70058a0d6f928 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,748 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp39-cp39-linux_armv6l.whl#sha256=a89f1ece9e20b3183b0eba298b269f1c4b0109af60b409f5d3f7bc0be4914bfd (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,749 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp39-cp39-linux_armv7l.whl#sha256=a89f1ece9e20b3183b0eba298b269f1c4b0109af60b409f5d3f7bc0be4914bfd (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,749 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp311-cp311-linux_armv6l.whl#sha256=a9753f3c49fd1cb2cdd4a192e12efbded3d886fc08011031e9ebaeaf96095389 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,749 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp311-cp311-linux_armv7l.whl#sha256=a9753f3c49fd1cb2cdd4a192e12efbded3d886fc08011031e9ebaeaf96095389 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,749 Skipping link: No binaries permitted for gff3tool: 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https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.0-cp311-cp311-linux_armv7l.whl#sha256=036c36c64ae995bbd9b6234e9f0b2fdaed36e2a4869fa2885c0fa449d01f6bd1 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,750 Skipping link: No binaries permitted for gff3tool: https://www.piwheels.org/simple/gff3tool/gff3tool-2.0.0-cp313-cp313-linux_armv6l.whl#sha256=36aca49c8ccdad145128cb794485f2cf06dd81b090083dca9db6aab38738ea84 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,751 Skipping link: No binaries permitted for gff3tool: https://www.piwheels.org/simple/gff3tool/gff3tool-2.0.0-cp313-cp313-linux_armv7l.whl#sha256=36aca49c8ccdad145128cb794485f2cf06dd81b090083dca9db6aab38738ea84 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,751 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-1.3.0-py3-none-any.whl#sha256=f993f46b60c812a88426ea96ad2c23aa521aee04c8bdad4016e21d03d6186291 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,751 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-1.1.0-py3-none-any.whl#sha256=f5eefabf7e1b27382cef033e939fd956121ebf02ae4e7085b83ade5f98c69d90 (from https://www.piwheels.org/simple/gff3tool/) 2025-09-09T12:52:49,751 Skipping link: not a file: https://www.piwheels.org/simple/gff3tool/ 2025-09-09T12:52:49,751 Skipping link: not a file: https://pypi.org/simple/gff3tool/ 2025-09-09T12:52:49,776 Given no hashes to check 1 links for project 'gff3tool': discarding no candidates 2025-09-09T12:52:49,777 Collecting gff3tool==2.0.3 2025-09-09T12:52:49,778 Created temporary directory: /tmp/pip-unpack-xezyukk9 2025-09-09T12:52:49,918 Downloading gff3tool-2.0.3.tar.gz (83 kB) 2025-09-09T12:52:49,995 Added gff3tool==2.0.3 from https://files.pythonhosted.org/packages/21/2e/7e77d34adec82b4d896c8959c7993534810f8bc43cc374e984e5635bbf94/gff3tool-2.0.3.tar.gz to build tracker '/tmp/pip-build-tracker-ynoltyzz' 2025-09-09T12:52:49,996 Running setup.py (path:/tmp/pip-wheel-cv0yrba7/gff3tool_07a4b0ee96664ebebc9096f049457e6a/setup.py) egg_info for package gff3tool 2025-09-09T12:52:49,996 Created temporary directory: /tmp/pip-pip-egg-info-vio2skr5 2025-09-09T12:52:49,996 Preparing metadata (setup.py): started 2025-09-09T12:52:49,997 Running command python setup.py egg_info 2025-09-09T12:52:50,644 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'dist-dir' in 'sdist' (setup.cfg), please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:50,644 !! 2025-09-09T12:52:50,644 ******************************************************************************** 2025-09-09T12:52:50,644 Usage of dash-separated 'dist-dir' will not be supported in future 2025-09-09T12:52:50,644 versions. Please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:50,644 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-09T12:52:50,644 or your builds will no longer be supported. 2025-09-09T12:52:50,645 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-09T12:52:50,645 ******************************************************************************** 2025-09-09T12:52:50,645 !! 2025-09-09T12:52:50,645 opt = self._enforce_underscore(opt, section) 2025-09-09T12:52:51,073 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'dist-dir' in 'sdist' (setup.cfg), please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:51,073 !! 2025-09-09T12:52:51,073 ******************************************************************************** 2025-09-09T12:52:51,073 Usage of dash-separated 'dist-dir' will not be supported in future 2025-09-09T12:52:51,073 versions. Please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:51,073 (Affected: gff3tool). 2025-09-09T12:52:51,074 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-09T12:52:51,074 or your builds will no longer be supported. 2025-09-09T12:52:51,074 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-09T12:52:51,074 ******************************************************************************** 2025-09-09T12:52:51,074 !! 2025-09-09T12:52:51,074 opt = self._enforce_underscore(opt, section) 2025-09-09T12:52:51,074 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-09T12:52:51,074 !! 2025-09-09T12:52:51,075 ******************************************************************************** 2025-09-09T12:52:51,075 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-09T12:52:51,075 License :: Public Domain 2025-09-09T12:52:51,075 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-09T12:52:51,075 ******************************************************************************** 2025-09-09T12:52:51,075 !! 2025-09-09T12:52:51,075 self._finalize_license_expression() 2025-09-09T12:52:51,149 running egg_info 2025-09-09T12:52:51,224 creating /tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info 2025-09-09T12:52:51,224 writing /tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/PKG-INFO 2025-09-09T12:52:51,226 writing dependency_links to /tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/dependency_links.txt 2025-09-09T12:52:51,226 writing entry points to /tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/entry_points.txt 2025-09-09T12:52:51,227 writing top-level names to /tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/top_level.txt 2025-09-09T12:52:51,227 writing manifest file '/tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/SOURCES.txt' 2025-09-09T12:52:51,384 reading manifest file '/tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/SOURCES.txt' 2025-09-09T12:52:51,385 reading manifest template 'MANIFEST.in' 2025-09-09T12:52:51,390 writing manifest file '/tmp/pip-pip-egg-info-vio2skr5/gff3tool.egg-info/SOURCES.txt' 2025-09-09T12:52:51,503 Preparing metadata (setup.py): finished with status 'done' 2025-09-09T12:52:51,508 Source in /tmp/pip-wheel-cv0yrba7/gff3tool_07a4b0ee96664ebebc9096f049457e6a has version 2.0.3, which satisfies requirement gff3tool==2.0.3 from https://files.pythonhosted.org/packages/21/2e/7e77d34adec82b4d896c8959c7993534810f8bc43cc374e984e5635bbf94/gff3tool-2.0.3.tar.gz 2025-09-09T12:52:51,509 Removed gff3tool==2.0.3 from https://files.pythonhosted.org/packages/21/2e/7e77d34adec82b4d896c8959c7993534810f8bc43cc374e984e5635bbf94/gff3tool-2.0.3.tar.gz from build tracker '/tmp/pip-build-tracker-ynoltyzz' 2025-09-09T12:52:51,512 Created temporary directory: /tmp/pip-unpack-1luh_1av 2025-09-09T12:52:51,513 Created temporary directory: /tmp/pip-unpack-6wa1tjlj 2025-09-09T12:52:51,513 Building wheels for collected packages: gff3tool 2025-09-09T12:52:51,514 Created temporary directory: /tmp/pip-wheel-jwxoi00a 2025-09-09T12:52:51,515 DEPRECATION: Building 'gff3tool' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'gff3tool'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-09T12:52:51,516 Building wheel for gff3tool (setup.py): started 2025-09-09T12:52:51,517 Destination directory: /tmp/pip-wheel-jwxoi00a 2025-09-09T12:52:51,517 Running command python setup.py bdist_wheel 2025-09-09T12:52:52,176 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'dist-dir' in 'sdist' (setup.cfg), please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:52,176 !! 2025-09-09T12:52:52,176 ******************************************************************************** 2025-09-09T12:52:52,176 Usage of dash-separated 'dist-dir' will not be supported in future 2025-09-09T12:52:52,177 versions. Please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:52,177 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-09T12:52:52,177 or your builds will no longer be supported. 2025-09-09T12:52:52,177 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-09T12:52:52,177 ******************************************************************************** 2025-09-09T12:52:52,177 !! 2025-09-09T12:52:52,177 opt = self._enforce_underscore(opt, section) 2025-09-09T12:52:52,602 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'dist-dir' in 'sdist' (setup.cfg), please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:52,602 !! 2025-09-09T12:52:52,603 ******************************************************************************** 2025-09-09T12:52:52,603 Usage of dash-separated 'dist-dir' will not be supported in future 2025-09-09T12:52:52,603 versions. Please use the underscore name 'dist_dir' instead. 2025-09-09T12:52:52,603 (Affected: gff3tool). 2025-09-09T12:52:52,603 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-09T12:52:52,603 or your builds will no longer be supported. 2025-09-09T12:52:52,603 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-09T12:52:52,603 ******************************************************************************** 2025-09-09T12:52:52,604 !! 2025-09-09T12:52:52,604 opt = self._enforce_underscore(opt, section) 2025-09-09T12:52:52,604 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-09T12:52:52,604 !! 2025-09-09T12:52:52,604 ******************************************************************************** 2025-09-09T12:52:52,604 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-09T12:52:52,605 License :: Public Domain 2025-09-09T12:52:52,605 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-09T12:52:52,605 ******************************************************************************** 2025-09-09T12:52:52,605 !! 2025-09-09T12:52:52,605 self._finalize_license_expression() 2025-09-09T12:52:52,605 running bdist_wheel 2025-09-09T12:52:52,899 running build 2025-09-09T12:53:07,921 /tmp/pip-wheel-cv0yrba7/gff3tool_07a4b0ee96664ebebc9096f049457e6a/setup.py:62: DeprecationWarning: Python 3.14 will, by default, filter extracted tar archives and reject files or modify their metadata. Use the filter argument to control this behavior. 2025-09-09T12:53:07,921 tar.extractall(blast_path) 2025-09-09T12:53:16,692 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-09-09T12:53:16,693 !! 2025-09-09T12:53:16,693 ******************************************************************************** 2025-09-09T12:53:16,693 Please avoid running ``setup.py`` directly. 2025-09-09T12:53:16,693 Instead, use pypa/build, pypa/installer or other 2025-09-09T12:53:16,693 standards-based tools. 2025-09-09T12:53:16,693 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-09T12:53:16,693 or your builds will no longer be supported. 2025-09-09T12:53:16,694 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-09-09T12:53:16,694 ******************************************************************************** 2025-09-09T12:53:16,694 !! 2025-09-09T12:53:16,694 self.initialize_options() 2025-09-09T12:53:16,766 installing to build/bdist.linux-armv7l/wheel 2025-09-09T12:53:16,766 running install 2025-09-09T12:53:16,788 running install_lib 2025-09-09T12:53:16,861 running build_py 2025-09-09T12:53:16,937 creating build/lib/gff3tool 2025-09-09T12:53:16,938 copying gff3tool/__init__.py -> build/lib/gff3tool 2025-09-09T12:53:16,939 creating build/lib/gff3tool/lib 2025-09-09T12:53:16,939 copying gff3tool/lib/utils.py -> build/lib/gff3tool/lib 2025-09-09T12:53:16,940 copying gff3tool/lib/replace_OGS.py -> build/lib/gff3tool/lib 2025-09-09T12:53:16,941 copying gff3tool/lib/id_processor.py -> build/lib/gff3tool/lib 2025-09-09T12:53:16,942 copying gff3tool/lib/gff3_ID_generator.py -> build/lib/gff3tool/lib 2025-09-09T12:53:16,943 copying gff3tool/lib/__init__.py -> build/lib/gff3tool/lib 2025-09-09T12:53:16,944 creating build/lib/gff3tool/bin 2025-09-09T12:53:16,944 copying gff3tool/bin/version.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,945 copying gff3tool/bin/gff3_to_fasta.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,946 copying gff3tool/bin/gff3_sort.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,946 copying gff3tool/bin/gff3_merge.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,947 copying gff3tool/bin/gff3_fix.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,948 copying gff3tool/bin/gff3_QC.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,949 copying gff3tool/bin/__init__.py -> build/lib/gff3tool/bin 2025-09-09T12:53:16,950 creating build/lib/gff3tool/lib/single_feature 2025-09-09T12:53:16,950 copying gff3tool/lib/single_feature/single_feature.py -> build/lib/gff3tool/lib/single_feature 2025-09-09T12:53:16,951 copying gff3tool/lib/single_feature/__init__.py -> build/lib/gff3tool/lib/single_feature 2025-09-09T12:53:16,952 creating build/lib/gff3tool/lib/intra_model 2025-09-09T12:53:16,952 copying gff3tool/lib/intra_model/intra_model.py -> build/lib/gff3tool/lib/intra_model 2025-09-09T12:53:16,953 copying gff3tool/lib/intra_model/__init__.py -> build/lib/gff3tool/lib/intra_model 2025-09-09T12:53:16,954 creating build/lib/gff3tool/lib/inter_model 2025-09-09T12:53:16,955 copying gff3tool/lib/inter_model/inter_model.py -> build/lib/gff3tool/lib/inter_model 2025-09-09T12:53:16,955 copying gff3tool/lib/inter_model/__init__.py -> build/lib/gff3tool/lib/inter_model 2025-09-09T12:53:16,956 creating build/lib/gff3tool/lib/gff3_merge 2025-09-09T12:53:16,957 copying gff3tool/lib/gff3_merge/revision.py -> build/lib/gff3tool/lib/gff3_merge 2025-09-09T12:53:16,957 copying gff3tool/lib/gff3_merge/merge.py -> build/lib/gff3tool/lib/gff3_merge 2025-09-09T12:53:16,958 copying gff3tool/lib/gff3_merge/auto_replace_tag.py -> build/lib/gff3tool/lib/gff3_merge 2025-09-09T12:53:16,959 copying gff3tool/lib/gff3_merge/__init__.py -> build/lib/gff3tool/lib/gff3_merge 2025-09-09T12:53:16,960 creating build/lib/gff3tool/lib/gff3_fix 2025-09-09T12:53:16,960 copying gff3tool/lib/gff3_fix/fix.py -> build/lib/gff3tool/lib/gff3_fix 2025-09-09T12:53:16,961 copying gff3tool/lib/gff3_fix/__init__.py -> build/lib/gff3tool/lib/gff3_fix 2025-09-09T12:53:16,962 creating build/lib/gff3tool/lib/gff3 2025-09-09T12:53:16,963 copying gff3tool/lib/gff3/gff3.py -> build/lib/gff3tool/lib/gff3 2025-09-09T12:53:16,964 copying gff3tool/lib/gff3/__init__.py -> build/lib/gff3tool/lib/gff3 2025-09-09T12:53:16,965 creating build/lib/gff3tool/lib/function4gff 2025-09-09T12:53:16,965 copying gff3tool/lib/function4gff/function4gff.py -> build/lib/gff3tool/lib/function4gff 2025-09-09T12:53:16,966 copying gff3tool/lib/function4gff/__init__.py -> build/lib/gff3tool/lib/function4gff 2025-09-09T12:53:16,967 creating build/lib/gff3tool/lib/ERROR 2025-09-09T12:53:16,967 copying gff3tool/lib/ERROR/__init__.py -> build/lib/gff3tool/lib/ERROR 2025-09-09T12:53:16,968 copying gff3tool/lib/ERROR/ERROR.py -> build/lib/gff3tool/lib/ERROR 2025-09-09T12:53:16,969 running egg_info 2025-09-09T12:53:17,041 writing gff3tool.egg-info/PKG-INFO 2025-09-09T12:53:17,043 writing dependency_links to gff3tool.egg-info/dependency_links.txt 2025-09-09T12:53:17,044 writing entry points to gff3tool.egg-info/entry_points.txt 2025-09-09T12:53:17,045 writing top-level names to gff3tool.egg-info/top_level.txt 2025-09-09T12:53:17,124 reading manifest file 'gff3tool.egg-info/SOURCES.txt' 2025-09-09T12:53:17,127 reading manifest template 'MANIFEST.in' 2025-09-09T12:53:17,134 writing manifest file 'gff3tool.egg-info/SOURCES.txt' 2025-09-09T12:53:17,136 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'gff3tool.lib.auto_assignment' is absent from the `packages` configuration. 2025-09-09T12:53:17,136 !! 2025-09-09T12:53:17,136 ******************************************************************************** 2025-09-09T12:53:17,136 ############################ 2025-09-09T12:53:17,137 # Package would be ignored # 2025-09-09T12:53:17,137 ############################ 2025-09-09T12:53:17,137 Python recognizes 'gff3tool.lib.auto_assignment' as an importable package[^1], 2025-09-09T12:53:17,137 but it is absent from setuptools' `packages` configuration. 2025-09-09T12:53:17,137 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-09T12:53:17,137 package, please make sure that 'gff3tool.lib.auto_assignment' is explicitly added 2025-09-09T12:53:17,137 to the `packages` configuration field. 2025-09-09T12:53:17,137 Alternatively, you can also rely on setuptools' discovery methods 2025-09-09T12:53:17,137 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-09T12:53:17,138 instead of `find_packages(...)`/`find:`). 2025-09-09T12:53:17,138 You can read more about "package discovery" on setuptools documentation page: 2025-09-09T12:53:17,138 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-09T12:53:17,138 If you don't want 'gff3tool.lib.auto_assignment' to be distributed and are 2025-09-09T12:53:17,138 already explicitly excluding 'gff3tool.lib.auto_assignment' via 2025-09-09T12:53:17,138 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-09T12:53:17,138 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-09T12:53:17,138 combination with a more fine grained `package-data` configuration. 2025-09-09T12:53:17,139 You can read more about "package data files" on setuptools documentation page: 2025-09-09T12:53:17,139 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-09T12:53:17,139 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-09T12:53:17,139 even if it does not contain any `.py` files. 2025-09-09T12:53:17,139 On the other hand, currently there is no concept of package data 2025-09-09T12:53:17,139 directory, all directories are treated like packages. 2025-09-09T12:53:17,139 ******************************************************************************** 2025-09-09T12:53:17,139 !! 2025-09-09T12:53:17,140 check.warn(importable) 2025-09-09T12:53:17,140 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'gff3tool.lib.check_gene_parent' is absent from the `packages` configuration. 2025-09-09T12:53:17,140 !! 2025-09-09T12:53:17,141 ******************************************************************************** 2025-09-09T12:53:17,141 ############################ 2025-09-09T12:53:17,141 # Package would be ignored # 2025-09-09T12:53:17,141 ############################ 2025-09-09T12:53:17,141 Python recognizes 'gff3tool.lib.check_gene_parent' as an importable package[^1], 2025-09-09T12:53:17,141 but it is absent from setuptools' `packages` configuration. 2025-09-09T12:53:17,141 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-09T12:53:17,141 package, please make sure that 'gff3tool.lib.check_gene_parent' is explicitly added 2025-09-09T12:53:17,141 to the `packages` configuration field. 2025-09-09T12:53:17,142 Alternatively, you can also rely on setuptools' discovery methods 2025-09-09T12:53:17,142 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-09T12:53:17,142 instead of `find_packages(...)`/`find:`). 2025-09-09T12:53:17,142 You can read more about "package discovery" on setuptools documentation page: 2025-09-09T12:53:17,142 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-09T12:53:17,142 If you don't want 'gff3tool.lib.check_gene_parent' to be distributed and are 2025-09-09T12:53:17,142 already explicitly excluding 'gff3tool.lib.check_gene_parent' via 2025-09-09T12:53:17,143 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-09T12:53:17,143 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-09T12:53:17,143 combination with a more fine grained `package-data` configuration. 2025-09-09T12:53:17,143 You can read more about "package data files" on setuptools documentation page: 2025-09-09T12:53:17,143 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-09T12:53:17,143 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-09T12:53:17,143 even if it does not contain any `.py` files. 2025-09-09T12:53:17,143 On the other hand, currently there is no concept of package data 2025-09-09T12:53:17,144 directory, all directories are treated like packages. 2025-09-09T12:53:17,144 ******************************************************************************** 2025-09-09T12:53:17,144 !! 2025-09-09T12:53:17,144 check.warn(importable) 2025-09-09T12:53:17,151 copying gff3tool/lib.md -> build/lib/gff3tool 2025-09-09T12:53:17,151 creating build/lib/gff3tool/lib/auto_assignment 2025-09-09T12:53:17,151 copying gff3tool/lib/auto_assignment/create_annotation_summaries_nov21-7.pl -> build/lib/gff3tool/lib/auto_assignment 2025-09-09T12:53:17,151 copying gff3tool/lib/auto_assignment/find_match.pl -> build/lib/gff3tool/lib/auto_assignment 2025-09-09T12:53:17,151 copying gff3tool/lib/auto_assignment/gen_spreadsheet.pl -> build/lib/gff3tool/lib/auto_assignment 2025-09-09T12:53:17,151 creating build/lib/gff3tool/lib/check_gene_parent 2025-09-09T12:53:17,151 copying gff3tool/lib/check_gene_parent/find_wrongly_split_gene_parent.pl -> build/lib/gff3tool/lib/check_gene_parent 2025-09-09T12:53:17,151 creating build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,152 copying gff3tool/lib/ncbi-blast+/bin/blast_formatter -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,271 copying gff3tool/lib/ncbi-blast+/bin/blastdb_aliastool -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,344 copying gff3tool/lib/ncbi-blast+/bin/blastdbcheck -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,427 copying gff3tool/lib/ncbi-blast+/bin/blastdbcmd -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,531 copying gff3tool/lib/ncbi-blast+/bin/blastn -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,647 copying gff3tool/lib/ncbi-blast+/bin/blastp -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,764 copying gff3tool/lib/ncbi-blast+/bin/blastx -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,881 copying gff3tool/lib/ncbi-blast+/bin/convert2blastmask -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:17,957 copying gff3tool/lib/ncbi-blast+/bin/deltablast -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,075 copying gff3tool/lib/ncbi-blast+/bin/dustmasker -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,152 copying gff3tool/lib/ncbi-blast+/bin/legacy_blast.pl -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,153 copying gff3tool/lib/ncbi-blast+/bin/makeblastdb -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,236 copying gff3tool/lib/ncbi-blast+/bin/makembindex -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,316 copying gff3tool/lib/ncbi-blast+/bin/makeprofiledb -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,396 copying gff3tool/lib/ncbi-blast+/bin/psiblast -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,514 copying gff3tool/lib/ncbi-blast+/bin/rpsblast -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,632 copying gff3tool/lib/ncbi-blast+/bin/rpstblastn -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,751 copying gff3tool/lib/ncbi-blast+/bin/segmasker -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,830 copying gff3tool/lib/ncbi-blast+/bin/tblastn -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:18,949 copying gff3tool/lib/ncbi-blast+/bin/tblastx -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,067 copying gff3tool/lib/ncbi-blast+/bin/update_blastdb.pl -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,068 copying gff3tool/lib/ncbi-blast+/bin/windowmasker -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,159 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib 2025-09-09T12:53:19,159 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool 2025-09-09T12:53:19,160 copying build/lib/gff3tool/lib.md -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool 2025-09-09T12:53:19,160 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,161 copying build/lib/gff3tool/bin/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,161 copying build/lib/gff3tool/bin/gff3_QC.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,161 copying build/lib/gff3tool/bin/gff3_fix.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,162 copying build/lib/gff3tool/bin/gff3_merge.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,162 copying build/lib/gff3tool/bin/gff3_sort.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,163 copying build/lib/gff3tool/bin/gff3_to_fasta.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,163 copying build/lib/gff3tool/bin/version.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-09-09T12:53:19,164 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-09-09T12:53:19,164 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+ 2025-09-09T12:53:19,165 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,165 copying build/lib/gff3tool/lib/ncbi-blast+/bin/windowmasker -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,246 copying build/lib/gff3tool/lib/ncbi-blast+/bin/update_blastdb.pl -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,247 copying build/lib/gff3tool/lib/ncbi-blast+/bin/tblastx -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,358 copying build/lib/gff3tool/lib/ncbi-blast+/bin/tblastn -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,469 copying build/lib/gff3tool/lib/ncbi-blast+/bin/segmasker -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,543 copying build/lib/gff3tool/lib/ncbi-blast+/bin/rpstblastn -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,655 copying build/lib/gff3tool/lib/ncbi-blast+/bin/rpsblast -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,765 copying build/lib/gff3tool/lib/ncbi-blast+/bin/psiblast -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,877 copying build/lib/gff3tool/lib/ncbi-blast+/bin/makeprofiledb -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:19,952 copying build/lib/gff3tool/lib/ncbi-blast+/bin/makembindex -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,027 copying build/lib/gff3tool/lib/ncbi-blast+/bin/makeblastdb -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,105 copying build/lib/gff3tool/lib/ncbi-blast+/bin/legacy_blast.pl -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,105 copying build/lib/gff3tool/lib/ncbi-blast+/bin/dustmasker -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,179 copying build/lib/gff3tool/lib/ncbi-blast+/bin/deltablast -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,290 copying build/lib/gff3tool/lib/ncbi-blast+/bin/convert2blastmask -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,362 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blastx -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,471 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blastp -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,582 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blastn -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,692 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blastdbcmd -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,791 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blastdbcheck -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,870 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blastdb_aliastool -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-09-09T12:53:20,937 error: could not write to 'build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastdb_aliastool': No space left on device 2025-09-09T12:53:21,058 ERROR: python setup.py bdist_wheel exited with 1 2025-09-09T12:53:21,070 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-09T12:53:21,070 exec(compile('"'"''"'"''"'"' 2025-09-09T12:53:21,070 # This is -- a caller that pip uses to run setup.py 2025-09-09T12:53:21,070 # 2025-09-09T12:53:21,070 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-09T12:53:21,070 # import from `distutils.core` to work with newer packaging standards. 2025-09-09T12:53:21,070 # - It provides a clear error message when setuptools is not installed. 2025-09-09T12:53:21,070 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-09T12:53:21,070 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-09T12:53:21,070 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-09T12:53:21,070 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-09T12:53:21,070 import os, sys, tokenize, traceback 2025-09-09T12:53:21,070 2025-09-09T12:53:21,070 try: 2025-09-09T12:53:21,070 import setuptools 2025-09-09T12:53:21,070 except ImportError: 2025-09-09T12:53:21,070 print( 2025-09-09T12:53:21,070 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-09T12:53:21,070 "the build environment with exception:", 2025-09-09T12:53:21,070 file=sys.stderr, 2025-09-09T12:53:21,070 ) 2025-09-09T12:53:21,070 traceback.print_exc() 2025-09-09T12:53:21,070 sys.exit(1) 2025-09-09T12:53:21,070 2025-09-09T12:53:21,070 __file__ = %r 2025-09-09T12:53:21,070 sys.argv[0] = __file__ 2025-09-09T12:53:21,070 2025-09-09T12:53:21,070 if os.path.exists(__file__): 2025-09-09T12:53:21,070 filename = __file__ 2025-09-09T12:53:21,070 with tokenize.open(__file__) as f: 2025-09-09T12:53:21,070 setup_py_code = f.read() 2025-09-09T12:53:21,070 else: 2025-09-09T12:53:21,070 filename = "" 2025-09-09T12:53:21,070 setup_py_code = "from setuptools import setup; setup()" 2025-09-09T12:53:21,070 2025-09-09T12:53:21,070 exec(compile(setup_py_code, filename, "exec")) 2025-09-09T12:53:21,070 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-cv0yrba7/gff3tool_07a4b0ee96664ebebc9096f049457e6a/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-jwxoi00a[/] 2025-09-09T12:53:21,071 [bold magenta]cwd[/]: /tmp/pip-wheel-cv0yrba7/gff3tool_07a4b0ee96664ebebc9096f049457e6a/ 2025-09-09T12:53:21,071 Building wheel for gff3tool (setup.py): finished with status 'error' 2025-09-09T12:53:21,072 ERROR: Failed building wheel for gff3tool 2025-09-09T12:53:21,090 Running setup.py clean for gff3tool 2025-09-09T12:53:21,093 Running command python setup.py clean 2025-09-09T12:53:21,890 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'dist-dir' in 'sdist' (setup.cfg), please use the underscore name 'dist_dir' instead. 2025-09-09T12:53:21,893 !! 2025-09-09T12:53:21,898 ******************************************************************************** 2025-09-09T12:53:21,901 Usage of dash-separated 'dist-dir' will not be supported in future 2025-09-09T12:53:21,904 versions. Please use the underscore name 'dist_dir' instead. 2025-09-09T12:53:21,910 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-09T12:53:21,912 or your builds will no longer be supported. 2025-09-09T12:53:21,917 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-09T12:53:21,919 ******************************************************************************** 2025-09-09T12:53:21,923 !! 2025-09-09T12:53:21,926 opt = self._enforce_underscore(opt, section) 2025-09-09T12:53:22,350 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:599: SetuptoolsDeprecationWarning: Invalid dash-separated key 'dist-dir' in 'sdist' (setup.cfg), please use the underscore name 'dist_dir' instead. 2025-09-09T12:53:22,352 !! 2025-09-09T12:53:22,356 ******************************************************************************** 2025-09-09T12:53:22,359 Usage of dash-separated 'dist-dir' will not be supported in future 2025-09-09T12:53:22,361 versions. Please use the underscore name 'dist_dir' instead. 2025-09-09T12:53:22,363 (Affected: gff3tool). 2025-09-09T12:53:22,368 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-09-09T12:53:22,370 or your builds will no longer be supported. 2025-09-09T12:53:22,374 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-09-09T12:53:22,377 ******************************************************************************** 2025-09-09T12:53:22,381 !! 2025-09-09T12:53:22,383 opt = self._enforce_underscore(opt, section) 2025-09-09T12:53:22,385 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-09T12:53:22,387 !! 2025-09-09T12:53:22,392 ******************************************************************************** 2025-09-09T12:53:22,394 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-09T12:53:22,398 License :: Public Domain 2025-09-09T12:53:22,402 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-09T12:53:22,405 ******************************************************************************** 2025-09-09T12:53:22,409 !! 2025-09-09T12:53:22,411 self._finalize_license_expression() 2025-09-09T12:53:22,434 running clean 2025-09-09T12:53:22,509 removing 'build/lib' (and everything under it) 2025-09-09T12:53:22,683 removing 'build/bdist.linux-armv7l' (and everything under it) 2025-09-09T12:53:22,849 'build/scripts-3.13' does not exist -- can't clean it 2025-09-09T12:53:22,849 removing 'build' 2025-09-09T12:53:22,962 Failed to build gff3tool 2025-09-09T12:53:22,963 ERROR: Failed to build one or more wheels 2025-09-09T12:53:22,964 Exception information: 2025-09-09T12:53:22,964 Traceback (most recent call last): 2025-09-09T12:53:22,964 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-09T12:53:22,964 status = _inner_run() 2025-09-09T12:53:22,964 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-09T12:53:22,964 return self.run(options, args) 2025-09-09T12:53:22,964 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-09T12:53:22,964 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-09T12:53:22,964 return func(self, options, args) 2025-09-09T12:53:22,964 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-09T12:53:22,964 raise CommandError("Failed to build one or more wheels") 2025-09-09T12:53:22,964 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-09T12:53:22,966 Removed build tracker: '/tmp/pip-build-tracker-ynoltyzz'