2025-10-15T13:28:17,089 Created temporary directory: /tmp/pip-build-tracker-t0rolls0 2025-10-15T13:28:17,089 Initialized build tracking at /tmp/pip-build-tracker-t0rolls0 2025-10-15T13:28:17,090 Created build tracker: /tmp/pip-build-tracker-t0rolls0 2025-10-15T13:28:17,090 Entered build tracker: /tmp/pip-build-tracker-t0rolls0 2025-10-15T13:28:17,090 Created temporary directory: /tmp/pip-wheel-j0pil4ww 2025-10-15T13:28:17,094 Created temporary directory: /tmp/pip-ephem-wheel-cache-l2a1n0l7 2025-10-15T13:28:17,148 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-10-15T13:28:17,150 2 location(s) to search for versions of gff3tool: 2025-10-15T13:28:17,150 * https://pypi.org/simple/gff3tool/ 2025-10-15T13:28:17,150 * https://www.piwheels.org/simple/gff3tool/ 2025-10-15T13:28:17,151 Fetching project page and analyzing links: https://pypi.org/simple/gff3tool/ 2025-10-15T13:28:17,151 Getting page https://pypi.org/simple/gff3tool/ 2025-10-15T13:28:17,152 Found index url https://pypi.org/simple/ 2025-10-15T13:28:17,298 Fetched page https://pypi.org/simple/gff3tool/ as application/vnd.pypi.simple.v1+json 2025-10-15T13:28:17,302 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 2025-10-15T13:28:17,303 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 2025-10-15T13:28:17,303 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 2025-10-15T13:28:17,304 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 2025-10-15T13:28:17,304 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 2025-10-15T13:28:17,305 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 2025-10-15T13:28:17,305 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/) 2025-10-15T13:28:17,306 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 2025-10-15T13:28:17,306 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 2025-10-15T13:28:17,307 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 2025-10-15T13:28:17,307 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 2025-10-15T13:28:17,307 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 2025-10-15T13:28:17,308 Fetching project page and analyzing links: https://www.piwheels.org/simple/gff3tool/ 2025-10-15T13:28:17,309 Getting page https://www.piwheels.org/simple/gff3tool/ 2025-10-15T13:28:17,310 Found index url https://www.piwheels.org/simple/ 2025-10-15T13:28:17,397 Fetched page https://www.piwheels.org/simple/gff3tool/ as text/html 2025-10-15T13:28:17,406 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/) 2025-10-15T13:28:17,406 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/) 2025-10-15T13:28:17,406 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/) 2025-10-15T13:28:17,406 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/) 2025-10-15T13:28:17,406 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/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp37-cp37m-linux_armv7l.whl#sha256=cfe6edebe5cd63bcd5cd38e34377d8c34eb8fdc675d148da65e75d4399db5ff6 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp39-cp39-linux_armv6l.whl#sha256=acb5d3cb45afefe5eab3c74db7b776dda5cf59ce38bb15cbde8edddd6079c343 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.1.0-cp39-cp39-linux_armv7l.whl#sha256=acb5d3cb45afefe5eab3c74db7b776dda5cf59ce38bb15cbde8edddd6079c343 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp311-cp311-linux_armv6l.whl#sha256=95e1e75ca03aacb334f33561f347c21a95265b3d091aad9a31329060ff7c1931 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp311-cp311-linux_armv7l.whl#sha256=95e1e75ca03aacb334f33561f347c21a95265b3d091aad9a31329060ff7c1931 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp35-cp35m-linux_armv6l.whl#sha256=ce80154080e74e3fb30b340e7a76661a4b8f3d78c6104490aa6da9c40fdc91d6 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,407 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp35-cp35m-linux_armv7l.whl#sha256=ce80154080e74e3fb30b340e7a76661a4b8f3d78c6104490aa6da9c40fdc91d6 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,408 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp37-cp37m-linux_armv6l.whl#sha256=79c3e33604c37bc449a60874dbc1520dde9140874fb47948d3a087eeec48f52f (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,408 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp37-cp37m-linux_armv7l.whl#sha256=79c3e33604c37bc449a60874dbc1520dde9140874fb47948d3a087eeec48f52f (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,408 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.3-cp39-cp39-linux_armv6l.whl#sha256=66d9164d8245e216f080754a89df8cda4192f034e99a32532198ccf3c38f6faa (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,408 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/) 2025-10-15T13:28:17,408 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/) 2025-10-15T13:28:17,408 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp35-cp35m-linux_armv7l.whl#sha256=baa47b3147a931daf4958a447f96979e4448707996cc9d60ac45ad3ebb8e9c1f (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,409 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp34-cp34m-linux_armv6l.whl#sha256=fa519097d18d8d8239808e305f0bb0549b3dd93a72ed8d5ea6f45d785e6bef11 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,409 Skipping link: No binaries permitted for gff3tool: https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp34-cp34m-linux_armv7l.whl#sha256=fa519097d18d8d8239808e305f0bb0549b3dd93a72ed8d5ea6f45d785e6bef11 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,409 Skipping link: No binaries permitted for gff3tool: 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https://archive1.piwheels.org/simple/gff3tool/gff3tool-2.0.1-cp39-cp39-linux_armv7l.whl#sha256=a89f1ece9e20b3183b0eba298b269f1c4b0109af60b409f5d3f7bc0be4914bfd (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,409 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/) 2025-10-15T13:28:17,410 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/) 2025-10-15T13:28:17,410 Skipping link: No binaries permitted for gff3tool: 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https://www.piwheels.org/simple/gff3tool/gff3tool-2.0.0-cp313-cp313-linux_armv6l.whl#sha256=36aca49c8ccdad145128cb794485f2cf06dd81b090083dca9db6aab38738ea84 (from https://www.piwheels.org/simple/gff3tool/) 2025-10-15T13:28:17,412 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/) 2025-10-15T13:28:17,412 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/) 2025-10-15T13:28:17,412 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/) 2025-10-15T13:28:17,412 Skipping link: not a file: https://www.piwheels.org/simple/gff3tool/ 2025-10-15T13:28:17,412 Skipping link: not a file: https://pypi.org/simple/gff3tool/ 2025-10-15T13:28:17,438 Given no hashes to check 1 links for project 'gff3tool': discarding no candidates 2025-10-15T13:28:17,439 Collecting gff3tool==2.0.3 2025-10-15T13:28:17,440 Created temporary directory: /tmp/pip-unpack-xaljduw1 2025-10-15T13:28:17,752 Downloading gff3tool-2.0.3.tar.gz (83 kB) 2025-10-15T13:28:17,827 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-t0rolls0' 2025-10-15T13:28:17,829 Running setup.py (path:/tmp/pip-wheel-j0pil4ww/gff3tool_7ea248a912524fbca79f7ee72e2501c4/setup.py) egg_info for package gff3tool 2025-10-15T13:28:17,829 Created temporary directory: /tmp/pip-pip-egg-info-tok37eda 2025-10-15T13:28:17,829 Preparing metadata (setup.py): started 2025-10-15T13:28:17,830 Running command python setup.py egg_info 2025-10-15T13:28:18,507 /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. 2025-10-15T13:28:18,507 !! 2025-10-15T13:28:18,507 ******************************************************************************** 2025-10-15T13:28:18,507 Usage of dash-separated 'dist-dir' will not be supported in future 2025-10-15T13:28:18,507 versions. Please use the underscore name 'dist_dir' instead. 2025-10-15T13:28:18,507 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-10-15T13:28:18,507 or your builds will no longer be supported. 2025-10-15T13:28:18,508 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-10-15T13:28:18,508 ******************************************************************************** 2025-10-15T13:28:18,508 !! 2025-10-15T13:28:18,508 opt = self._enforce_underscore(opt, section) 2025-10-15T13:28:19,002 /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. 2025-10-15T13:28:19,002 !! 2025-10-15T13:28:19,002 ******************************************************************************** 2025-10-15T13:28:19,002 Usage of dash-separated 'dist-dir' will not be supported in future 2025-10-15T13:28:19,003 versions. Please use the underscore name 'dist_dir' instead. 2025-10-15T13:28:19,003 (Affected: gff3tool). 2025-10-15T13:28:19,003 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-10-15T13:28:19,003 or your builds will no longer be supported. 2025-10-15T13:28:19,003 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-10-15T13:28:19,003 ******************************************************************************** 2025-10-15T13:28:19,003 !! 2025-10-15T13:28:19,004 opt = self._enforce_underscore(opt, section) 2025-10-15T13:28:19,004 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-10-15T13:28:19,004 !! 2025-10-15T13:28:19,004 ******************************************************************************** 2025-10-15T13:28:19,004 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-10-15T13:28:19,004 License :: Public Domain 2025-10-15T13:28:19,004 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-10-15T13:28:19,005 ******************************************************************************** 2025-10-15T13:28:19,005 !! 2025-10-15T13:28:19,005 self._finalize_license_expression() 2025-10-15T13:28:19,079 running egg_info 2025-10-15T13:28:19,156 creating /tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info 2025-10-15T13:28:19,156 writing /tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/PKG-INFO 2025-10-15T13:28:19,157 writing dependency_links to /tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/dependency_links.txt 2025-10-15T13:28:19,158 writing entry points to /tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/entry_points.txt 2025-10-15T13:28:19,158 writing top-level names to /tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/top_level.txt 2025-10-15T13:28:19,159 writing manifest file '/tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/SOURCES.txt' 2025-10-15T13:28:19,319 reading manifest file '/tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/SOURCES.txt' 2025-10-15T13:28:19,320 reading manifest template 'MANIFEST.in' 2025-10-15T13:28:19,325 writing manifest file '/tmp/pip-pip-egg-info-tok37eda/gff3tool.egg-info/SOURCES.txt' 2025-10-15T13:28:19,435 Preparing metadata (setup.py): finished with status 'done' 2025-10-15T13:28:19,443 Source in /tmp/pip-wheel-j0pil4ww/gff3tool_7ea248a912524fbca79f7ee72e2501c4 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 2025-10-15T13:28:19,443 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-t0rolls0' 2025-10-15T13:28:19,447 Created temporary directory: /tmp/pip-unpack-hglqvtpd 2025-10-15T13:28:19,447 Created temporary directory: /tmp/pip-unpack-s00ut44b 2025-10-15T13:28:19,447 Building wheels for collected packages: gff3tool 2025-10-15T13:28:19,448 Created temporary directory: /tmp/pip-wheel-fa1khkeu 2025-10-15T13:28:19,449 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 2025-10-15T13:28:19,450 Building wheel for gff3tool (setup.py): started 2025-10-15T13:28:19,450 Destination directory: /tmp/pip-wheel-fa1khkeu 2025-10-15T13:28:19,451 Running command python setup.py bdist_wheel 2025-10-15T13:28:20,114 /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. 2025-10-15T13:28:20,114 !! 2025-10-15T13:28:20,114 ******************************************************************************** 2025-10-15T13:28:20,114 Usage of dash-separated 'dist-dir' will not be supported in future 2025-10-15T13:28:20,114 versions. Please use the underscore name 'dist_dir' instead. 2025-10-15T13:28:20,114 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-10-15T13:28:20,114 or your builds will no longer be supported. 2025-10-15T13:28:20,115 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-10-15T13:28:20,115 ******************************************************************************** 2025-10-15T13:28:20,115 !! 2025-10-15T13:28:20,115 opt = self._enforce_underscore(opt, section) 2025-10-15T13:28:20,568 /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. 2025-10-15T13:28:20,568 !! 2025-10-15T13:28:20,569 ******************************************************************************** 2025-10-15T13:28:20,569 Usage of dash-separated 'dist-dir' will not be supported in future 2025-10-15T13:28:20,569 versions. Please use the underscore name 'dist_dir' instead. 2025-10-15T13:28:20,569 (Affected: gff3tool). 2025-10-15T13:28:20,569 By 2026-Mar-03, you need to update your project and remove deprecated calls 2025-10-15T13:28:20,569 or your builds will no longer be supported. 2025-10-15T13:28:20,569 See https://setuptools.pypa.io/en/latest/userguide/declarative_config.html for details. 2025-10-15T13:28:20,570 ******************************************************************************** 2025-10-15T13:28:20,570 !! 2025-10-15T13:28:20,570 opt = self._enforce_underscore(opt, section) 2025-10-15T13:28:20,570 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-10-15T13:28:20,570 !! 2025-10-15T13:28:20,570 ******************************************************************************** 2025-10-15T13:28:20,570 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-10-15T13:28:20,570 License :: Public Domain 2025-10-15T13:28:20,571 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-10-15T13:28:20,571 ******************************************************************************** 2025-10-15T13:28:20,571 !! 2025-10-15T13:28:20,571 self._finalize_license_expression() 2025-10-15T13:28:20,571 running bdist_wheel 2025-10-15T13:28:20,923 running build 2025-10-15T13:28:39,696 /tmp/pip-wheel-j0pil4ww/gff3tool_7ea248a912524fbca79f7ee72e2501c4/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. 2025-10-15T13:28:39,696 tar.extractall(blast_path) 2025-10-15T13:28:48,549 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-10-15T13:28:48,549 !! 2025-10-15T13:28:48,550 ******************************************************************************** 2025-10-15T13:28:48,550 Please avoid running ``setup.py`` directly. 2025-10-15T13:28:48,550 Instead, use pypa/build, pypa/installer or other 2025-10-15T13:28:48,550 standards-based tools. 2025-10-15T13:28:48,550 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-10-15T13:28:48,550 or your builds will no longer be supported. 2025-10-15T13:28:48,550 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-10-15T13:28:48,550 ******************************************************************************** 2025-10-15T13:28:48,551 !! 2025-10-15T13:28:48,551 self.initialize_options() 2025-10-15T13:28:48,628 installing to build/bdist.linux-armv7l/wheel 2025-10-15T13:28:48,629 running install 2025-10-15T13:28:48,651 running install_lib 2025-10-15T13:28:48,724 running build_py 2025-10-15T13:28:48,871 creating build/lib/gff3tool 2025-10-15T13:28:48,872 copying gff3tool/__init__.py -> build/lib/gff3tool 2025-10-15T13:28:48,874 creating build/lib/gff3tool/lib 2025-10-15T13:28:48,874 copying gff3tool/lib/utils.py -> build/lib/gff3tool/lib 2025-10-15T13:28:48,875 copying gff3tool/lib/replace_OGS.py -> build/lib/gff3tool/lib 2025-10-15T13:28:48,877 copying gff3tool/lib/id_processor.py -> build/lib/gff3tool/lib 2025-10-15T13:28:48,878 copying gff3tool/lib/gff3_ID_generator.py -> build/lib/gff3tool/lib 2025-10-15T13:28:48,879 copying gff3tool/lib/__init__.py -> build/lib/gff3tool/lib 2025-10-15T13:28:48,880 creating build/lib/gff3tool/bin 2025-10-15T13:28:48,881 copying gff3tool/bin/version.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,882 copying gff3tool/bin/gff3_to_fasta.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,883 copying gff3tool/bin/gff3_sort.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,884 copying gff3tool/bin/gff3_merge.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,885 copying gff3tool/bin/gff3_fix.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,886 copying gff3tool/bin/gff3_QC.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,887 copying gff3tool/bin/__init__.py -> build/lib/gff3tool/bin 2025-10-15T13:28:48,888 creating build/lib/gff3tool/lib/single_feature 2025-10-15T13:28:48,889 copying gff3tool/lib/single_feature/single_feature.py -> build/lib/gff3tool/lib/single_feature 2025-10-15T13:28:48,889 copying gff3tool/lib/single_feature/__init__.py -> build/lib/gff3tool/lib/single_feature 2025-10-15T13:28:48,891 creating build/lib/gff3tool/lib/intra_model 2025-10-15T13:28:48,891 copying gff3tool/lib/intra_model/intra_model.py -> build/lib/gff3tool/lib/intra_model 2025-10-15T13:28:48,892 copying gff3tool/lib/intra_model/__init__.py -> build/lib/gff3tool/lib/intra_model 2025-10-15T13:28:48,893 creating build/lib/gff3tool/lib/inter_model 2025-10-15T13:28:48,894 copying gff3tool/lib/inter_model/inter_model.py -> build/lib/gff3tool/lib/inter_model 2025-10-15T13:28:48,895 copying gff3tool/lib/inter_model/__init__.py -> build/lib/gff3tool/lib/inter_model 2025-10-15T13:28:48,896 creating build/lib/gff3tool/lib/gff3_merge 2025-10-15T13:28:48,896 copying gff3tool/lib/gff3_merge/revision.py -> build/lib/gff3tool/lib/gff3_merge 2025-10-15T13:28:48,897 copying gff3tool/lib/gff3_merge/merge.py -> build/lib/gff3tool/lib/gff3_merge 2025-10-15T13:28:48,898 copying gff3tool/lib/gff3_merge/auto_replace_tag.py -> build/lib/gff3tool/lib/gff3_merge 2025-10-15T13:28:48,899 copying gff3tool/lib/gff3_merge/__init__.py -> build/lib/gff3tool/lib/gff3_merge 2025-10-15T13:28:48,900 creating build/lib/gff3tool/lib/gff3_fix 2025-10-15T13:28:48,901 copying gff3tool/lib/gff3_fix/fix.py -> build/lib/gff3tool/lib/gff3_fix 2025-10-15T13:28:48,902 copying gff3tool/lib/gff3_fix/__init__.py -> build/lib/gff3tool/lib/gff3_fix 2025-10-15T13:28:48,903 creating build/lib/gff3tool/lib/gff3 2025-10-15T13:28:48,903 copying gff3tool/lib/gff3/gff3.py -> build/lib/gff3tool/lib/gff3 2025-10-15T13:28:48,904 copying gff3tool/lib/gff3/__init__.py -> build/lib/gff3tool/lib/gff3 2025-10-15T13:28:48,905 creating build/lib/gff3tool/lib/function4gff 2025-10-15T13:28:48,906 copying gff3tool/lib/function4gff/function4gff.py -> build/lib/gff3tool/lib/function4gff 2025-10-15T13:28:48,907 copying gff3tool/lib/function4gff/__init__.py -> build/lib/gff3tool/lib/function4gff 2025-10-15T13:28:48,908 creating build/lib/gff3tool/lib/ERROR 2025-10-15T13:28:48,908 copying gff3tool/lib/ERROR/__init__.py -> build/lib/gff3tool/lib/ERROR 2025-10-15T13:28:48,909 copying gff3tool/lib/ERROR/ERROR.py -> build/lib/gff3tool/lib/ERROR 2025-10-15T13:28:48,909 running egg_info 2025-10-15T13:28:48,984 writing gff3tool.egg-info/PKG-INFO 2025-10-15T13:28:48,986 writing dependency_links to gff3tool.egg-info/dependency_links.txt 2025-10-15T13:28:48,987 writing entry points to gff3tool.egg-info/entry_points.txt 2025-10-15T13:28:48,988 writing top-level names to gff3tool.egg-info/top_level.txt 2025-10-15T13:28:49,071 reading manifest file 'gff3tool.egg-info/SOURCES.txt' 2025-10-15T13:28:49,075 reading manifest template 'MANIFEST.in' 2025-10-15T13:28:49,083 writing manifest file 'gff3tool.egg-info/SOURCES.txt' 2025-10-15T13:28:49,085 /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. 2025-10-15T13:28:49,085 !! 2025-10-15T13:28:49,086 ******************************************************************************** 2025-10-15T13:28:49,086 ############################ 2025-10-15T13:28:49,086 # Package would be ignored # 2025-10-15T13:28:49,086 ############################ 2025-10-15T13:28:49,086 Python recognizes 'gff3tool.lib.auto_assignment' as an importable package[^1], 2025-10-15T13:28:49,086 but it is absent from setuptools' `packages` configuration. 2025-10-15T13:28:49,086 This leads to an ambiguous overall configuration. If you want to distribute this 2025-10-15T13:28:49,086 package, please make sure that 'gff3tool.lib.auto_assignment' is explicitly added 2025-10-15T13:28:49,086 to the `packages` configuration field. 2025-10-15T13:28:49,086 Alternatively, you can also rely on setuptools' discovery methods 2025-10-15T13:28:49,087 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-10-15T13:28:49,087 instead of `find_packages(...)`/`find:`). 2025-10-15T13:28:49,087 You can read more about "package discovery" on setuptools documentation page: 2025-10-15T13:28:49,087 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-10-15T13:28:49,087 If you don't want 'gff3tool.lib.auto_assignment' to be distributed and are 2025-10-15T13:28:49,087 already explicitly excluding 'gff3tool.lib.auto_assignment' via 2025-10-15T13:28:49,087 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-10-15T13:28:49,087 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-10-15T13:28:49,087 combination with a more fine grained `package-data` configuration. 2025-10-15T13:28:49,088 You can read more about "package data files" on setuptools documentation page: 2025-10-15T13:28:49,088 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-10-15T13:28:49,088 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-10-15T13:28:49,088 even if it does not contain any `.py` files. 2025-10-15T13:28:49,088 On the other hand, currently there is no concept of package data 2025-10-15T13:28:49,088 directory, all directories are treated like packages. 2025-10-15T13:28:49,088 ******************************************************************************** 2025-10-15T13:28:49,089 !! 2025-10-15T13:28:49,089 check.warn(importable) 2025-10-15T13:28:49,089 /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. 2025-10-15T13:28:49,089 !! 2025-10-15T13:28:49,090 ******************************************************************************** 2025-10-15T13:28:49,090 ############################ 2025-10-15T13:28:49,090 # Package would be ignored # 2025-10-15T13:28:49,090 ############################ 2025-10-15T13:28:49,090 Python recognizes 'gff3tool.lib.check_gene_parent' as an importable package[^1], 2025-10-15T13:28:49,090 but it is absent from setuptools' `packages` configuration. 2025-10-15T13:28:49,090 This leads to an ambiguous overall configuration. If you want to distribute this 2025-10-15T13:28:49,090 package, please make sure that 'gff3tool.lib.check_gene_parent' is explicitly added 2025-10-15T13:28:49,090 to the `packages` configuration field. 2025-10-15T13:28:49,091 Alternatively, you can also rely on setuptools' discovery methods 2025-10-15T13:28:49,091 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-10-15T13:28:49,091 instead of `find_packages(...)`/`find:`). 2025-10-15T13:28:49,091 You can read more about "package discovery" on setuptools documentation page: 2025-10-15T13:28:49,091 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-10-15T13:28:49,091 If you don't want 'gff3tool.lib.check_gene_parent' to be distributed and are 2025-10-15T13:28:49,091 already explicitly excluding 'gff3tool.lib.check_gene_parent' via 2025-10-15T13:28:49,091 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-10-15T13:28:49,092 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-10-15T13:28:49,092 combination with a more fine grained `package-data` configuration. 2025-10-15T13:28:49,092 You can read more about "package data files" on setuptools documentation page: 2025-10-15T13:28:49,092 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-10-15T13:28:49,092 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-10-15T13:28:49,092 even if it does not contain any `.py` files. 2025-10-15T13:28:49,092 On the other hand, currently there is no concept of package data 2025-10-15T13:28:49,092 directory, all directories are treated like packages. 2025-10-15T13:28:49,093 ******************************************************************************** 2025-10-15T13:28:49,093 !! 2025-10-15T13:28:49,093 check.warn(importable) 2025-10-15T13:28:49,098 copying gff3tool/lib.md -> build/lib/gff3tool 2025-10-15T13:28:49,099 creating build/lib/gff3tool/lib/auto_assignment 2025-10-15T13:28:49,099 copying gff3tool/lib/auto_assignment/create_annotation_summaries_nov21-7.pl -> build/lib/gff3tool/lib/auto_assignment 2025-10-15T13:28:49,100 copying gff3tool/lib/auto_assignment/find_match.pl -> build/lib/gff3tool/lib/auto_assignment 2025-10-15T13:28:49,100 copying gff3tool/lib/auto_assignment/gen_spreadsheet.pl -> build/lib/gff3tool/lib/auto_assignment 2025-10-15T13:28:49,101 creating build/lib/gff3tool/lib/check_gene_parent 2025-10-15T13:28:49,101 copying gff3tool/lib/check_gene_parent/find_wrongly_split_gene_parent.pl -> build/lib/gff3tool/lib/check_gene_parent 2025-10-15T13:28:49,102 creating build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,102 copying gff3tool/lib/ncbi-blast+/bin/blast_formatter -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,216 copying gff3tool/lib/ncbi-blast+/bin/blastdb_aliastool -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,287 copying gff3tool/lib/ncbi-blast+/bin/blastdbcheck -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,368 copying gff3tool/lib/ncbi-blast+/bin/blastdbcmd -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,469 copying gff3tool/lib/ncbi-blast+/bin/blastn -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,583 copying gff3tool/lib/ncbi-blast+/bin/blastp -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,697 copying gff3tool/lib/ncbi-blast+/bin/blastx -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,810 copying gff3tool/lib/ncbi-blast+/bin/convert2blastmask -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,885 copying gff3tool/lib/ncbi-blast+/bin/deltablast -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:49,999 copying gff3tool/lib/ncbi-blast+/bin/dustmasker -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,074 copying gff3tool/lib/ncbi-blast+/bin/legacy_blast.pl -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,075 copying gff3tool/lib/ncbi-blast+/bin/makeblastdb -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,156 copying gff3tool/lib/ncbi-blast+/bin/makembindex -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,233 copying gff3tool/lib/ncbi-blast+/bin/makeprofiledb -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,310 copying gff3tool/lib/ncbi-blast+/bin/psiblast -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,425 copying gff3tool/lib/ncbi-blast+/bin/rpsblast -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,541 copying gff3tool/lib/ncbi-blast+/bin/rpstblastn -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,655 copying gff3tool/lib/ncbi-blast+/bin/segmasker -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,733 copying gff3tool/lib/ncbi-blast+/bin/tblastn -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,849 copying gff3tool/lib/ncbi-blast+/bin/tblastx -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,963 copying gff3tool/lib/ncbi-blast+/bin/update_blastdb.pl -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:50,964 copying gff3tool/lib/ncbi-blast+/bin/windowmasker -> build/lib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:51,056 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib 2025-10-15T13:28:51,056 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool 2025-10-15T13:28:51,057 copying build/lib/gff3tool/lib.md -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool 2025-10-15T13:28:51,057 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,058 copying build/lib/gff3tool/bin/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,058 copying build/lib/gff3tool/bin/gff3_QC.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,058 copying build/lib/gff3tool/bin/gff3_fix.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,059 copying build/lib/gff3tool/bin/gff3_merge.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,059 copying build/lib/gff3tool/bin/gff3_sort.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,060 copying build/lib/gff3tool/bin/gff3_to_fasta.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,060 copying build/lib/gff3tool/bin/version.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/bin 2025-10-15T13:28:51,061 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-10-15T13:28:51,061 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+ 2025-10-15T13:28:51,061 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:51,062 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 2025-10-15T13:28:51,152 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 2025-10-15T13:28:51,152 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 2025-10-15T13:28:51,267 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 2025-10-15T13:28:51,384 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 2025-10-15T13:28:51,461 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 2025-10-15T13:28:51,577 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 2025-10-15T13:28:51,693 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 2025-10-15T13:28:51,809 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 2025-10-15T13:28:51,887 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 2025-10-15T13:28:51,965 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 2025-10-15T13:28:52,047 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 2025-10-15T13:28:52,047 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 2025-10-15T13:28:52,123 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 2025-10-15T13:28:52,239 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 2025-10-15T13:28:52,314 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 2025-10-15T13:28:52,422 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 2025-10-15T13:28:52,529 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 2025-10-15T13:28:52,635 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 2025-10-15T13:28:52,731 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 2025-10-15T13:28:52,807 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 2025-10-15T13:28:52,874 copying build/lib/gff3tool/lib/ncbi-blast+/bin/blast_formatter -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin 2025-10-15T13:28:52,982 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/check_gene_parent 2025-10-15T13:28:52,982 copying build/lib/gff3tool/lib/check_gene_parent/find_wrongly_split_gene_parent.pl -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/check_gene_parent 2025-10-15T13:28:52,983 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment 2025-10-15T13:28:52,983 copying build/lib/gff3tool/lib/auto_assignment/gen_spreadsheet.pl -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment 2025-10-15T13:28:52,984 copying build/lib/gff3tool/lib/auto_assignment/find_match.pl -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment 2025-10-15T13:28:52,984 copying build/lib/gff3tool/lib/auto_assignment/create_annotation_summaries_nov21-7.pl -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment 2025-10-15T13:28:52,985 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ERROR 2025-10-15T13:28:52,985 copying build/lib/gff3tool/lib/ERROR/ERROR.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ERROR 2025-10-15T13:28:52,985 copying build/lib/gff3tool/lib/ERROR/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/ERROR 2025-10-15T13:28:52,986 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/function4gff 2025-10-15T13:28:52,986 copying build/lib/gff3tool/lib/function4gff/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/function4gff 2025-10-15T13:28:52,987 copying build/lib/gff3tool/lib/function4gff/function4gff.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/function4gff 2025-10-15T13:28:52,987 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3 2025-10-15T13:28:52,987 copying build/lib/gff3tool/lib/gff3/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3 2025-10-15T13:28:52,988 copying build/lib/gff3tool/lib/gff3/gff3.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3 2025-10-15T13:28:52,989 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_fix 2025-10-15T13:28:52,989 copying build/lib/gff3tool/lib/gff3_fix/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_fix 2025-10-15T13:28:52,989 copying build/lib/gff3tool/lib/gff3_fix/fix.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_fix 2025-10-15T13:28:52,990 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge 2025-10-15T13:28:52,990 copying build/lib/gff3tool/lib/gff3_merge/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge 2025-10-15T13:28:52,991 copying build/lib/gff3tool/lib/gff3_merge/auto_replace_tag.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge 2025-10-15T13:28:52,991 copying build/lib/gff3tool/lib/gff3_merge/merge.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge 2025-10-15T13:28:52,991 copying build/lib/gff3tool/lib/gff3_merge/revision.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge 2025-10-15T13:28:52,992 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/inter_model 2025-10-15T13:28:52,992 copying build/lib/gff3tool/lib/inter_model/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/inter_model 2025-10-15T13:28:52,993 copying build/lib/gff3tool/lib/inter_model/inter_model.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/inter_model 2025-10-15T13:28:52,993 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/intra_model 2025-10-15T13:28:52,994 copying build/lib/gff3tool/lib/intra_model/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/intra_model 2025-10-15T13:28:52,994 copying build/lib/gff3tool/lib/intra_model/intra_model.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/intra_model 2025-10-15T13:28:52,995 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/single_feature 2025-10-15T13:28:52,995 copying build/lib/gff3tool/lib/single_feature/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/single_feature 2025-10-15T13:28:52,995 copying build/lib/gff3tool/lib/single_feature/single_feature.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib/single_feature 2025-10-15T13:28:52,996 copying build/lib/gff3tool/lib/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-10-15T13:28:52,996 copying build/lib/gff3tool/lib/gff3_ID_generator.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-10-15T13:28:52,996 copying build/lib/gff3tool/lib/id_processor.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-10-15T13:28:52,997 copying build/lib/gff3tool/lib/replace_OGS.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-10-15T13:28:52,997 copying build/lib/gff3tool/lib/utils.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool/lib 2025-10-15T13:28:52,998 copying build/lib/gff3tool/__init__.py -> build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool 2025-10-15T13:28:52,998 running install_egg_info 2025-10-15T13:28:53,076 Copying gff3tool.egg-info to build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.data/purelib/gff3tool-2.0.3-py3.13.egg-info 2025-10-15T13:28:53,077 running install_scripts 2025-10-15T13:28:53,129 creating build/bdist.linux-armv7l/wheel/gff3tool-2.0.3.dist-info/WHEEL 2025-10-15T13:28:53,130 creating '/tmp/pip-wheel-fa1khkeu/gff3tool-2.0.3-cp313-cp313-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-10-15T13:28:53,131 adding 'gff3tool-2.0.3.data/purelib/gff3tool/__init__.py' 2025-10-15T13:28:53,132 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib.md' 2025-10-15T13:28:53,133 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/__init__.py' 2025-10-15T13:28:53,134 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/gff3_QC.py' 2025-10-15T13:28:53,135 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/gff3_fix.py' 2025-10-15T13:28:53,136 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/gff3_merge.py' 2025-10-15T13:28:53,138 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/gff3_sort.py' 2025-10-15T13:28:53,141 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/gff3_to_fasta.py' 2025-10-15T13:28:53,142 adding 'gff3tool-2.0.3.data/purelib/gff3tool/bin/version.py' 2025-10-15T13:28:53,142 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/__init__.py' 2025-10-15T13:28:53,144 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_ID_generator.py' 2025-10-15T13:28:53,146 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/id_processor.py' 2025-10-15T13:28:53,150 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/replace_OGS.py' 2025-10-15T13:28:53,150 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/utils.py' 2025-10-15T13:28:53,151 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ERROR/ERROR.py' 2025-10-15T13:28:53,152 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ERROR/__init__.py' 2025-10-15T13:28:53,154 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment/create_annotation_summaries_nov21-7.pl' 2025-10-15T13:28:53,155 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment/find_match.pl' 2025-10-15T13:28:53,156 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/auto_assignment/gen_spreadsheet.pl' 2025-10-15T13:28:53,157 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/check_gene_parent/find_wrongly_split_gene_parent.pl' 2025-10-15T13:28:53,157 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/function4gff/__init__.py' 2025-10-15T13:28:53,158 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/function4gff/function4gff.py' 2025-10-15T13:28:53,159 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3/__init__.py' 2025-10-15T13:28:53,167 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3/gff3.py' 2025-10-15T13:28:53,168 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_fix/__init__.py' 2025-10-15T13:28:53,171 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_fix/fix.py' 2025-10-15T13:28:53,172 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge/__init__.py' 2025-10-15T13:28:53,173 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge/auto_replace_tag.py' 2025-10-15T13:28:53,174 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge/merge.py' 2025-10-15T13:28:53,176 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/gff3_merge/revision.py' 2025-10-15T13:28:53,177 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/inter_model/__init__.py' 2025-10-15T13:28:53,178 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/inter_model/inter_model.py' 2025-10-15T13:28:53,178 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/intra_model/__init__.py' 2025-10-15T13:28:53,180 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/intra_model/intra_model.py' 2025-10-15T13:28:58,004 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blast_formatter' 2025-10-15T13:29:01,215 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastdb_aliastool' 2025-10-15T13:29:04,748 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastdbcheck' 2025-10-15T13:29:09,176 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastdbcmd' 2025-10-15T13:29:14,186 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastn' 2025-10-15T13:29:19,210 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastp' 2025-10-15T13:29:24,238 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/blastx' 2025-10-15T13:29:27,607 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/convert2blastmask' 2025-10-15T13:29:32,610 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/deltablast' 2025-10-15T13:29:36,009 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/dustmasker' 2025-10-15T13:29:36,144 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/legacy_blast.pl' 2025-10-15T13:29:39,601 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/makeblastdb' 2025-10-15T13:29:43,026 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/makembindex' 2025-10-15T13:29:46,369 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/makeprofiledb' 2025-10-15T13:29:51,354 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/psiblast' 2025-10-15T13:29:56,403 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/rpsblast' 2025-10-15T13:30:01,451 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/rpstblastn' 2025-10-15T13:30:04,898 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/segmasker' 2025-10-15T13:30:09,877 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/tblastn' 2025-10-15T13:30:14,916 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/tblastx' 2025-10-15T13:30:15,116 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/update_blastdb.pl' 2025-10-15T13:30:18,890 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/ncbi-blast+/bin/windowmasker' 2025-10-15T13:30:19,046 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/single_feature/__init__.py' 2025-10-15T13:30:19,047 adding 'gff3tool-2.0.3.data/purelib/gff3tool/lib/single_feature/single_feature.py' 2025-10-15T13:30:19,049 adding 'gff3tool-2.0.3.dist-info/METADATA' 2025-10-15T13:30:19,049 adding 'gff3tool-2.0.3.dist-info/WHEEL' 2025-10-15T13:30:19,050 adding 'gff3tool-2.0.3.dist-info/entry_points.txt' 2025-10-15T13:30:19,050 adding 'gff3tool-2.0.3.dist-info/top_level.txt' 2025-10-15T13:30:19,052 adding 'gff3tool-2.0.3.dist-info/RECORD' 2025-10-15T13:30:19,052 removing build/bdist.linux-armv7l/wheel 2025-10-15T13:30:19,345 Building wheel for gff3tool (setup.py): finished with status 'done' 2025-10-15T13:30:21,022 Created wheel for gff3tool: filename=gff3tool-2.0.3-cp313-cp313-linux_armv7l.whl size=177059981 sha256=03c08d66d1f98279928ecc7638ce330448af8b9dbad848a8bdea016b154c98f7 2025-10-15T13:30:21,023 Stored in directory: /tmp/pip-ephem-wheel-cache-l2a1n0l7/wheels/8d/d9/cd/3dd65b27e647335fd63afabdddae8c36c4094f1ea058ccbcbe 2025-10-15T13:30:21,033 Successfully built gff3tool 2025-10-15T13:30:21,325 Removed build tracker: '/tmp/pip-build-tracker-t0rolls0'