2026-09-16T02:50:57,774 Created temporary directory: /tmp/pip-ephem-wheel-cache-7a4normd 2026-09-16T02:50:57,776 Created temporary directory: /tmp/pip-build-tracker-vtf95aut 2026-09-16T02:50:57,777 Initialized build tracking at /tmp/pip-build-tracker-vtf95aut 2026-09-16T02:50:57,777 Created build tracker: /tmp/pip-build-tracker-vtf95aut 2026-09-16T02:50:57,778 Entered build tracker: /tmp/pip-build-tracker-vtf95aut 2026-09-16T02:50:57,778 Created temporary directory: /tmp/pip-wheel-p9_uzyag 2026-09-16T02:50:57,781 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-09-16T02:50:57,784 Created temporary directory: /tmp/pip-ephem-wheel-cache-fwyd76wc 2026-09-16T02:50:57,805 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-09-16T02:50:57,809 2 location(s) to search for versions of isovar: 2026-09-16T02:50:57,809 * https://pypi.org/simple/isovar/ 2026-09-16T02:50:57,809 * https://www.piwheels.org/simple/isovar/ 2026-09-16T02:50:57,810 Fetching project page and analyzing links: https://pypi.org/simple/isovar/ 2026-09-16T02:50:57,810 Getting page https://pypi.org/simple/isovar/ 2026-09-16T02:50:57,812 Found index url https://pypi.org/simple 2026-09-16T02:50:58,044 Fetched page https://pypi.org/simple/isovar/ as application/vnd.pypi.simple.v1+json 2026-09-16T02:50:58,071 Found link https://files.pythonhosted.org/packages/b6/80/350ac9b97f7c872d7f2422a11bdb228a0286661fe2983884724735bff630/isovar-0.0.5.tar.gz (from https://pypi.org/simple/isovar/), 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2026-09-16T02:50:58,172 Found link https://files.pythonhosted.org/packages/dd/46/749029e82c4983a002a3203c69caf9c7a2d78ab8db4d48e151d6f61ee1aa/isovar-1.8.5.tar.gz (from https://pypi.org/simple/isovar/) (requires-python:>=3.9), version: 1.8.5 2026-09-16T02:50:58,172 Skipping link: No binaries permitted for isovar: https://files.pythonhosted.org/packages/46/2d/1b987fe47303ae9c430a0fbb1f52577cb9ef26d27b67651773ad640cfbb6/isovar-1.9.0-py3-none-any.whl (from https://pypi.org/simple/isovar/) (requires-python:>=3.9) 2026-09-16T02:50:58,173 Found link https://files.pythonhosted.org/packages/1d/c9/ba727ec1812f14fc83610f2275b6f9e7b21f85e12e318383b81d51c58e03/isovar-1.9.0.tar.gz (from https://pypi.org/simple/isovar/) (requires-python:>=3.9), version: 1.9.0 2026-09-16T02:50:58,174 Skipping link: No binaries permitted for isovar: https://files.pythonhosted.org/packages/75/f3/760cb6fcd932f011657774d93faffba89551f0f936d182ea13ae03298da5/isovar-1.10.0-py3-none-any.whl (from 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No binaries permitted for isovar: https://files.pythonhosted.org/packages/86/bb/36c0cccccf45117180323b946f8a862443f76afffaebfd9eb026f5232e05/isovar-1.12.0-py3-none-any.whl (from https://pypi.org/simple/isovar/) (requires-python:>=3.9) 2026-09-16T02:50:58,181 Found link https://files.pythonhosted.org/packages/bd/48/f46389c8f441c8e123b01e946d0bd1d449217a35ac01a11bf0a6e8cdfd23/isovar-1.12.0.tar.gz (from https://pypi.org/simple/isovar/) (requires-python:>=3.9), version: 1.12.0 2026-09-16T02:50:58,181 Fetching project page and analyzing links: https://www.piwheels.org/simple/isovar/ 2026-09-16T02:50:58,182 Getting page https://www.piwheels.org/simple/isovar/ 2026-09-16T02:50:58,183 Found index url https://www.piwheels.org/simple 2026-09-16T02:50:58,374 Fetched page https://www.piwheels.org/simple/isovar/ as text/html 2026-09-16T02:50:58,400 Skipping link: No binaries permitted for isovar: 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2026-09-16T02:50:58,444 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.7.0-py3-none-any.whl#sha256=7bc474c6a53e930506940e34737ec9f85116cb86eed696db0ea545b5687c112a (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,444 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.6.1-py3-none-any.whl#sha256=a67ea479f0c73cc43fde0d35c8801f6ed3c81f062476dbaf39b5c410c0ba4b7d (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,445 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.6.0-py3-none-any.whl#sha256=37e7cace0e90e2ad432e97fbb4eea705b840edb66fd89ac70f50baf1f7f5d24b (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,445 Skipping link: No binaries permitted for isovar: 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2026-09-16T02:50:58,447 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.2.3-py3-none-any.whl#sha256=f12eae279834045a239b4762d1849c44173b29617a7858de5ead71a13d1f39cc (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,448 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.2.2-py3-none-any.whl#sha256=9b8ea377bb2e317603890ef935ddaca811af4337780d82fc56c33517a277182b (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,448 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.2.1-py3-none-any.whl#sha256=a027a8f2bb06d45c573a79bfec0ed8dce083f9120aec3e91482dc74401039e46 (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,449 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.2.0-py3-none-any.whl#sha256=ab7b0e6349d9a2c4802489d7cc7a867b23e3c2972f66283839629ac8f858cbce (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,449 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.1.5-py3-none-any.whl#sha256=ba9438ba3b8c2a1e59345d0c9fbfb207ded65feaf93b8d4dbf0972c7de89035c (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,450 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.1.3-py3-none-any.whl#sha256=c266801b0b080abcaf155870dfcd593ca904b27565767a27067326c819f0b15c (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,450 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.1.0-py3-none-any.whl#sha256=272454342ccc3da1af19007ad496e6d33165a4482470cef97f1e1bd4a898aee8 (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,451 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.0.6-py3-none-any.whl#sha256=04d869c163e51c11ed2d2bb125bffaf7e0c89cb17d906bcbc52914d1fa888e72 (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,451 Skipping link: No binaries permitted for isovar: https://archive1.piwheels.org/simple/isovar/isovar-0.0.5-py3-none-any.whl#sha256=57d3b95575aae8439f0aaa54ce12c1cb00b1bcb2e4fec582550cb0484903bcbc (from https://www.piwheels.org/simple/isovar/) 2026-09-16T02:50:58,452 Skipping link: not a file: https://www.piwheels.org/simple/isovar/ 2026-09-16T02:50:58,452 Skipping link: not a file: https://pypi.org/simple/isovar/ 2026-09-16T02:50:58,483 Given no hashes to check 1 links for project 'isovar': discarding no candidates 2026-09-16T02:50:58,501 Collecting isovar==1.12.0 2026-09-16T02:50:58,504 Created temporary directory: /tmp/pip-unpack-z3wrm9mq 2026-09-16T02:50:58,885 Downloading isovar-1.12.0.tar.gz (242 kB) 2026-09-16T02:50:59,284 Added isovar==1.12.0 from https://files.pythonhosted.org/packages/bd/48/f46389c8f441c8e123b01e946d0bd1d449217a35ac01a11bf0a6e8cdfd23/isovar-1.12.0.tar.gz to build tracker '/tmp/pip-build-tracker-vtf95aut' 2026-09-16T02:50:59,289 Created temporary directory: /tmp/pip-build-env-_f4g9vtl 2026-09-16T02:50:59,294 Installing build dependencies: started 2026-09-16T02:50:59,295 Running command pip subprocess to install build dependencies 2026-09-16T02:51:00,463 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-09-16T02:51:00,924 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-09-16T02:51:00,948 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-09-16T02:51:02,750 Collecting setuptools>=64 2026-09-16T02:51:02,751 Obtaining dependency information for setuptools>=64 from https://www.piwheels.org/simple/setuptools/setuptools-84.0.0-py3-none-any.whl.metadata 2026-09-16T02:51:02,765 Using cached https://www.piwheels.org/simple/setuptools/setuptools-84.0.0-py3-none-any.whl.metadata (6.6 kB) 2026-09-16T02:51:03,026 Using cached https://www.piwheels.org/simple/setuptools/setuptools-84.0.0-py3-none-any.whl (818 kB) 2026-09-16T02:51:03,114 Using cached https://www.piwheels.org/simple/setuptools/setuptools-84.0.0-py3-none-any.whl (818 kB) 2026-09-16T02:51:05,865 Installing collected packages: setuptools 2026-09-16T02:51:08,147 Successfully installed setuptools-84.0.0 2026-09-16T02:51:08,419 Installing build dependencies: finished with status 'done' 2026-09-16T02:51:08,426 Getting requirements to build wheel: started 2026-09-16T02:51:08,427 Running command Getting requirements to build wheel 2026-09-16T02:51:09,125 /tmp/pip-build-env-_f4g9vtl/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-09-16T02:51:09,125 !! 2026-09-16T02:51:09,126 ******************************************************************************** 2026-09-16T02:51:09,127 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-09-16T02:51:09,128 License :: OSI Approved :: Apache Software License 2026-09-16T02:51:09,129 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-09-16T02:51:09,129 ******************************************************************************** 2026-09-16T02:51:09,131 !! 2026-09-16T02:51:09,131 dist._finalize_license_expression() 2026-09-16T02:51:09,132 /tmp/pip-build-env-_f4g9vtl/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-09-16T02:51:09,132 !! 2026-09-16T02:51:09,133 ******************************************************************************** 2026-09-16T02:51:09,134 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-09-16T02:51:09,135 License :: OSI Approved :: Apache Software License 2026-09-16T02:51:09,135 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-09-16T02:51:09,136 ******************************************************************************** 2026-09-16T02:51:09,137 !! 2026-09-16T02:51:09,137 self._finalize_license_expression() 2026-09-16T02:51:09,138 running egg_info 2026-09-16T02:51:09,143 writing isovar.egg-info/PKG-INFO 2026-09-16T02:51:09,147 writing dependency_links to isovar.egg-info/dependency_links.txt 2026-09-16T02:51:09,149 writing entry points to isovar.egg-info/entry_points.txt 2026-09-16T02:51:09,151 writing requirements to isovar.egg-info/requires.txt 2026-09-16T02:51:09,152 writing top-level names to isovar.egg-info/top_level.txt 2026-09-16T02:51:09,178 reading manifest file 'isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:09,187 reading manifest template 'MANIFEST.in' 2026-09-16T02:51:09,189 adding license file 'LICENSE' 2026-09-16T02:51:09,197 writing manifest file 'isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:09,297 Getting requirements to build wheel: finished with status 'done' 2026-09-16T02:51:09,300 Created temporary directory: /tmp/pip-modern-metadata-cveebzf2 2026-09-16T02:51:09,303 Preparing metadata (pyproject.toml): started 2026-09-16T02:51:09,304 Running command Preparing metadata (pyproject.toml) 2026-09-16T02:51:09,961 /tmp/pip-build-env-_f4g9vtl/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-09-16T02:51:09,961 !! 2026-09-16T02:51:09,962 ******************************************************************************** 2026-09-16T02:51:09,963 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-09-16T02:51:09,964 License :: OSI Approved :: Apache Software License 2026-09-16T02:51:09,965 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-09-16T02:51:09,966 ******************************************************************************** 2026-09-16T02:51:09,967 !! 2026-09-16T02:51:09,967 dist._finalize_license_expression() 2026-09-16T02:51:09,968 /tmp/pip-build-env-_f4g9vtl/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-09-16T02:51:09,968 !! 2026-09-16T02:51:09,969 ******************************************************************************** 2026-09-16T02:51:09,970 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-09-16T02:51:09,971 License :: OSI Approved :: Apache Software License 2026-09-16T02:51:09,972 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-09-16T02:51:09,973 ******************************************************************************** 2026-09-16T02:51:09,974 !! 2026-09-16T02:51:09,974 self._finalize_license_expression() 2026-09-16T02:51:09,975 running dist_info 2026-09-16T02:51:09,984 creating /tmp/pip-modern-metadata-cveebzf2/isovar.egg-info 2026-09-16T02:51:09,985 writing /tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/PKG-INFO 2026-09-16T02:51:09,989 writing dependency_links to /tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/dependency_links.txt 2026-09-16T02:51:09,991 writing entry points to /tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/entry_points.txt 2026-09-16T02:51:09,993 writing requirements to /tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/requires.txt 2026-09-16T02:51:09,994 writing top-level names to /tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/top_level.txt 2026-09-16T02:51:09,996 writing manifest file '/tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:10,019 reading manifest file '/tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:10,021 reading manifest template 'MANIFEST.in' 2026-09-16T02:51:10,022 adding license file 'LICENSE' 2026-09-16T02:51:10,028 writing manifest file '/tmp/pip-modern-metadata-cveebzf2/isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:10,030 creating '/tmp/pip-modern-metadata-cveebzf2/isovar-1.12.0.dist-info' 2026-09-16T02:51:10,158 Preparing metadata (pyproject.toml): finished with status 'done' 2026-09-16T02:51:10,163 Source in /tmp/pip-wheel-p9_uzyag/isovar_3fe6bbe0251e40389692f5e7d144ae90 has version 1.12.0, which satisfies requirement isovar==1.12.0 from https://files.pythonhosted.org/packages/bd/48/f46389c8f441c8e123b01e946d0bd1d449217a35ac01a11bf0a6e8cdfd23/isovar-1.12.0.tar.gz 2026-09-16T02:51:10,164 Removed isovar==1.12.0 from https://files.pythonhosted.org/packages/bd/48/f46389c8f441c8e123b01e946d0bd1d449217a35ac01a11bf0a6e8cdfd23/isovar-1.12.0.tar.gz from build tracker '/tmp/pip-build-tracker-vtf95aut' 2026-09-16T02:51:10,171 Created temporary directory: /tmp/pip-unpack-9_vyty8d 2026-09-16T02:51:10,172 Building wheels for collected packages: isovar 2026-09-16T02:51:10,176 Created temporary directory: /tmp/pip-wheel-_vywt4eb 2026-09-16T02:51:10,177 Destination directory: /tmp/pip-wheel-_vywt4eb 2026-09-16T02:51:10,179 Building wheel for isovar (pyproject.toml): started 2026-09-16T02:51:10,180 Running command Building wheel for isovar (pyproject.toml) 2026-09-16T02:51:10,816 /tmp/pip-build-env-_f4g9vtl/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-09-16T02:51:10,817 !! 2026-09-16T02:51:10,818 ******************************************************************************** 2026-09-16T02:51:10,818 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-09-16T02:51:10,819 License :: OSI Approved :: Apache Software License 2026-09-16T02:51:10,820 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-09-16T02:51:10,821 ******************************************************************************** 2026-09-16T02:51:10,822 !! 2026-09-16T02:51:10,822 dist._finalize_license_expression() 2026-09-16T02:51:10,827 /tmp/pip-build-env-_f4g9vtl/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-09-16T02:51:10,827 !! 2026-09-16T02:51:10,828 ******************************************************************************** 2026-09-16T02:51:10,829 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-09-16T02:51:10,830 License :: OSI Approved :: Apache Software License 2026-09-16T02:51:10,831 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-09-16T02:51:10,831 ******************************************************************************** 2026-09-16T02:51:10,832 !! 2026-09-16T02:51:10,833 self._finalize_license_expression() 2026-09-16T02:51:10,834 running bdist_wheel 2026-09-16T02:51:10,850 running build 2026-09-16T02:51:10,850 running build_py 2026-09-16T02:51:10,858 creating build/lib/isovar 2026-09-16T02:51:10,861 copying isovar/main.py -> build/lib/isovar 2026-09-16T02:51:10,863 copying isovar/transcript_compatibility.py -> build/lib/isovar 2026-09-16T02:51:10,866 copying isovar/dataframe_builder.py -> build/lib/isovar 2026-09-16T02:51:10,868 copying isovar/filtering.py -> build/lib/isovar 2026-09-16T02:51:10,871 copying isovar/isovar_result.py -> build/lib/isovar 2026-09-16T02:51:10,874 copying isovar/variant_orf.py -> build/lib/isovar 2026-09-16T02:51:10,877 copying isovar/reference_context.py -> build/lib/isovar 2026-09-16T02:51:10,879 copying isovar/read_collector.py -> build/lib/isovar 2026-09-16T02:51:10,882 copying isovar/alignment_score.py -> build/lib/isovar 2026-09-16T02:51:10,884 copying isovar/translation.py -> build/lib/isovar 2026-09-16T02:51:10,887 copying isovar/protein_sequence.py -> build/lib/isovar 2026-09-16T02:51:10,890 copying isovar/translation_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,892 copying isovar/reference_context_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,894 copying isovar/dataframe_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,897 copying isovar/common.py -> build/lib/isovar 2026-09-16T02:51:10,899 copying isovar/default_parameters.py -> build/lib/isovar 2026-09-16T02:51:10,901 copying isovar/variant_sequence_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,904 copying isovar/isovar_result_provider.py -> build/lib/isovar 2026-09-16T02:51:10,906 copying isovar/protein_sequence_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,908 copying isovar/allele_read_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,910 copying isovar/variant_sequence_creator.py -> build/lib/isovar 2026-09-16T02:51:10,913 copying isovar/variant_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,915 copying isovar/value_object.py -> build/lib/isovar 2026-09-16T02:51:10,918 copying isovar/assembly.py -> build/lib/isovar 2026-09-16T02:51:10,921 copying isovar/transcript_edit_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,923 copying isovar/allele_read.py -> build/lib/isovar 2026-09-16T02:51:10,926 copying isovar/__init__.py -> build/lib/isovar 2026-09-16T02:51:10,928 copying isovar/variant_sequence.py -> build/lib/isovar 2026-09-16T02:51:10,930 copying isovar/read_phasing.py -> build/lib/isovar 2026-09-16T02:51:10,933 copying isovar/dna.py -> build/lib/isovar 2026-09-16T02:51:10,935 copying isovar/protein_sequence_creator.py -> build/lib/isovar 2026-09-16T02:51:10,938 copying isovar/string_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,940 copying isovar/reference_coding_sequence_key.py -> build/lib/isovar 2026-09-16T02:51:10,943 copying isovar/reference_sequence_key.py -> build/lib/isovar 2026-09-16T02:51:10,945 copying isovar/mutant_transcript_source.py -> build/lib/isovar 2026-09-16T02:51:10,948 copying isovar/visualization.py -> build/lib/isovar 2026-09-16T02:51:10,950 copying isovar/read_evidence.py -> build/lib/isovar 2026-09-16T02:51:10,953 copying isovar/genetic_code.py -> build/lib/isovar 2026-09-16T02:51:10,955 copying isovar/phase_group.py -> build/lib/isovar 2026-09-16T02:51:10,957 copying isovar/effect_prediction.py -> build/lib/isovar 2026-09-16T02:51:10,960 copying isovar/transcript_assembly_edit.py -> build/lib/isovar 2026-09-16T02:51:10,962 copying isovar/translation_key.py -> build/lib/isovar 2026-09-16T02:51:10,964 copying isovar/phasing.py -> build/lib/isovar 2026-09-16T02:51:10,966 copying isovar/locus_read.py -> build/lib/isovar 2026-09-16T02:51:10,968 copying isovar/variant_orf_helpers.py -> build/lib/isovar 2026-09-16T02:51:10,970 copying isovar/logging.py -> build/lib/isovar 2026-09-16T02:51:10,973 creating build/lib/isovar/cli 2026-09-16T02:51:10,974 copying isovar/cli/filter_args.py -> build/lib/isovar/cli 2026-09-16T02:51:10,976 copying isovar/cli/reference_context_args.py -> build/lib/isovar/cli 2026-09-16T02:51:10,978 copying isovar/cli/isovar_translations.py -> build/lib/isovar/cli 2026-09-16T02:51:10,980 copying isovar/cli/isovar_variant_reads.py -> build/lib/isovar/cli 2026-09-16T02:51:10,982 copying isovar/cli/variant_sequences_args.py -> build/lib/isovar/cli 2026-09-16T02:51:10,984 copying isovar/cli/isovar_main.py -> build/lib/isovar/cli 2026-09-16T02:51:10,986 copying isovar/cli/isovar_allele_counts.py -> build/lib/isovar/cli 2026-09-16T02:51:10,988 copying isovar/cli/main_args.py -> build/lib/isovar/cli 2026-09-16T02:51:10,990 copying isovar/cli/protein_sequence_args.py -> build/lib/isovar/cli 2026-09-16T02:51:10,992 copying isovar/cli/isovar_plot.py -> build/lib/isovar/cli 2026-09-16T02:51:10,993 copying isovar/cli/__init__.py -> build/lib/isovar/cli 2026-09-16T02:51:10,995 copying isovar/cli/isovar_reference_contexts.py -> build/lib/isovar/cli 2026-09-16T02:51:10,997 copying isovar/cli/translation_args.py -> build/lib/isovar/cli 2026-09-16T02:51:10,999 copying isovar/cli/isovar_allele_reads.py -> build/lib/isovar/cli 2026-09-16T02:51:11,001 copying isovar/cli/isovar_protein_sequences.py -> build/lib/isovar/cli 2026-09-16T02:51:11,003 copying isovar/cli/rna_args.py -> build/lib/isovar/cli 2026-09-16T02:51:11,005 copying isovar/cli/output_args.py -> build/lib/isovar/cli 2026-09-16T02:51:11,007 copying isovar/cli/isovar_variant_sequences.py -> build/lib/isovar/cli 2026-09-16T02:51:11,009 running egg_info 2026-09-16T02:51:11,023 writing isovar.egg-info/PKG-INFO 2026-09-16T02:51:11,028 writing dependency_links to isovar.egg-info/dependency_links.txt 2026-09-16T02:51:11,030 writing entry points to isovar.egg-info/entry_points.txt 2026-09-16T02:51:11,033 writing requirements to isovar.egg-info/requires.txt 2026-09-16T02:51:11,034 writing top-level names to isovar.egg-info/top_level.txt 2026-09-16T02:51:11,054 reading manifest file 'isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:11,068 reading manifest template 'MANIFEST.in' 2026-09-16T02:51:11,069 adding license file 'LICENSE' 2026-09-16T02:51:11,081 writing manifest file 'isovar.egg-info/SOURCES.txt' 2026-09-16T02:51:11,088 copying isovar/logging.conf -> build/lib/isovar 2026-09-16T02:51:11,107 installing to build/bdist.linux-armv7l/wheel 2026-09-16T02:51:11,108 running install 2026-09-16T02:51:11,130 running install_lib 2026-09-16T02:51:11,136 creating build/bdist.linux-armv7l/wheel 2026-09-16T02:51:11,139 creating build/bdist.linux-armv7l/wheel/isovar 2026-09-16T02:51:11,140 copying build/lib/isovar/main.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,142 copying build/lib/isovar/transcript_compatibility.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,145 copying build/lib/isovar/dataframe_builder.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,147 copying build/lib/isovar/filtering.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,149 copying build/lib/isovar/isovar_result.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,152 copying build/lib/isovar/variant_orf.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,154 copying build/lib/isovar/reference_context.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,156 copying build/lib/isovar/read_collector.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,159 copying build/lib/isovar/alignment_score.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,162 copying build/lib/isovar/translation.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,164 copying build/lib/isovar/protein_sequence.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,166 copying build/lib/isovar/translation_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,168 copying build/lib/isovar/reference_context_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,170 copying build/lib/isovar/dataframe_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,173 copying build/lib/isovar/common.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,175 copying build/lib/isovar/default_parameters.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,177 copying build/lib/isovar/variant_sequence_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,180 copying build/lib/isovar/isovar_result_provider.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,182 copying build/lib/isovar/protein_sequence_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,184 copying build/lib/isovar/allele_read_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,186 copying build/lib/isovar/variant_sequence_creator.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,189 copying build/lib/isovar/variant_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,191 copying build/lib/isovar/value_object.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,193 copying build/lib/isovar/assembly.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,195 copying build/lib/isovar/transcript_edit_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,197 copying build/lib/isovar/allele_read.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,200 copying build/lib/isovar/__init__.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,202 copying build/lib/isovar/variant_sequence.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,205 creating build/bdist.linux-armv7l/wheel/isovar/cli 2026-09-16T02:51:11,206 copying build/lib/isovar/cli/filter_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,208 copying build/lib/isovar/cli/reference_context_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,210 copying build/lib/isovar/cli/isovar_translations.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,211 copying build/lib/isovar/cli/isovar_variant_reads.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,214 copying build/lib/isovar/cli/variant_sequences_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,216 copying build/lib/isovar/cli/isovar_main.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,218 copying build/lib/isovar/cli/isovar_allele_counts.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,220 copying build/lib/isovar/cli/main_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,222 copying build/lib/isovar/cli/protein_sequence_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,224 copying build/lib/isovar/cli/isovar_plot.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,226 copying build/lib/isovar/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,228 copying build/lib/isovar/cli/isovar_reference_contexts.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,229 copying build/lib/isovar/cli/translation_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,232 copying build/lib/isovar/cli/isovar_allele_reads.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,234 copying build/lib/isovar/cli/isovar_protein_sequences.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,235 copying build/lib/isovar/cli/rna_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,238 copying build/lib/isovar/cli/output_args.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,239 copying build/lib/isovar/cli/isovar_variant_sequences.py -> build/bdist.linux-armv7l/wheel/./isovar/cli 2026-09-16T02:51:11,241 copying build/lib/isovar/read_phasing.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,244 copying build/lib/isovar/dna.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,246 copying build/lib/isovar/protein_sequence_creator.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,249 copying build/lib/isovar/string_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,251 copying build/lib/isovar/reference_coding_sequence_key.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,253 copying build/lib/isovar/reference_sequence_key.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,255 copying build/lib/isovar/mutant_transcript_source.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,257 copying build/lib/isovar/visualization.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,259 copying build/lib/isovar/read_evidence.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,261 copying build/lib/isovar/genetic_code.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,264 copying build/lib/isovar/phase_group.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,265 copying build/lib/isovar/effect_prediction.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,268 copying build/lib/isovar/logging.conf -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,269 copying build/lib/isovar/transcript_assembly_edit.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,271 copying build/lib/isovar/translation_key.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,273 copying build/lib/isovar/phasing.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,275 copying build/lib/isovar/locus_read.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,278 copying build/lib/isovar/variant_orf_helpers.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,280 copying build/lib/isovar/logging.py -> build/bdist.linux-armv7l/wheel/./isovar 2026-09-16T02:51:11,281 running install_egg_info 2026-09-16T02:51:11,286 Copying isovar.egg-info to build/bdist.linux-armv7l/wheel/./isovar-1.12.0-py3.11.egg-info 2026-09-16T02:51:11,299 running install_scripts 2026-09-16T02:51:11,312 creating build/bdist.linux-armv7l/wheel/isovar-1.12.0.dist-info/WHEEL 2026-09-16T02:51:11,315 creating '/tmp/pip-wheel-_vywt4eb/.tmp-q0yam5ur/isovar-1.12.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-09-16T02:51:11,318 adding 'isovar/__init__.py' 2026-09-16T02:51:11,320 adding 'isovar/alignment_score.py' 2026-09-16T02:51:11,322 adding 'isovar/allele_read.py' 2026-09-16T02:51:11,323 adding 'isovar/allele_read_helpers.py' 2026-09-16T02:51:11,326 adding 'isovar/assembly.py' 2026-09-16T02:51:11,327 adding 'isovar/common.py' 2026-09-16T02:51:11,329 adding 'isovar/dataframe_builder.py' 2026-09-16T02:51:11,331 adding 'isovar/dataframe_helpers.py' 2026-09-16T02:51:11,333 adding 'isovar/default_parameters.py' 2026-09-16T02:51:11,334 adding 'isovar/dna.py' 2026-09-16T02:51:11,336 adding 'isovar/effect_prediction.py' 2026-09-16T02:51:11,338 adding 'isovar/filtering.py' 2026-09-16T02:51:11,339 adding 'isovar/genetic_code.py' 2026-09-16T02:51:11,343 adding 'isovar/isovar_result.py' 2026-09-16T02:51:11,345 adding 'isovar/isovar_result_provider.py' 2026-09-16T02:51:11,346 adding 'isovar/locus_read.py' 2026-09-16T02:51:11,347 adding 'isovar/logging.conf' 2026-09-16T02:51:11,349 adding 'isovar/logging.py' 2026-09-16T02:51:11,350 adding 'isovar/main.py' 2026-09-16T02:51:11,352 adding 'isovar/mutant_transcript_source.py' 2026-09-16T02:51:11,353 adding 'isovar/phase_group.py' 2026-09-16T02:51:11,355 adding 'isovar/phasing.py' 2026-09-16T02:51:11,357 adding 'isovar/protein_sequence.py' 2026-09-16T02:51:11,360 adding 'isovar/protein_sequence_creator.py' 2026-09-16T02:51:11,362 adding 'isovar/protein_sequence_helpers.py' 2026-09-16T02:51:11,368 adding 'isovar/read_collector.py' 2026-09-16T02:51:11,370 adding 'isovar/read_evidence.py' 2026-09-16T02:51:11,371 adding 'isovar/read_phasing.py' 2026-09-16T02:51:11,373 adding 'isovar/reference_coding_sequence_key.py' 2026-09-16T02:51:11,375 adding 'isovar/reference_context.py' 2026-09-16T02:51:11,376 adding 'isovar/reference_context_helpers.py' 2026-09-16T02:51:11,378 adding 'isovar/reference_sequence_key.py' 2026-09-16T02:51:11,379 adding 'isovar/string_helpers.py' 2026-09-16T02:51:11,380 adding 'isovar/transcript_assembly_edit.py' 2026-09-16T02:51:11,382 adding 'isovar/transcript_compatibility.py' 2026-09-16T02:51:11,383 adding 'isovar/transcript_edit_helpers.py' 2026-09-16T02:51:11,385 adding 'isovar/translation.py' 2026-09-16T02:51:11,386 adding 'isovar/translation_helpers.py' 2026-09-16T02:51:11,387 adding 'isovar/translation_key.py' 2026-09-16T02:51:11,389 adding 'isovar/value_object.py' 2026-09-16T02:51:11,390 adding 'isovar/variant_helpers.py' 2026-09-16T02:51:11,392 adding 'isovar/variant_orf.py' 2026-09-16T02:51:11,394 adding 'isovar/variant_orf_helpers.py' 2026-09-16T02:51:11,396 adding 'isovar/variant_sequence.py' 2026-09-16T02:51:11,398 adding 'isovar/variant_sequence_creator.py' 2026-09-16T02:51:11,400 adding 'isovar/variant_sequence_helpers.py' 2026-09-16T02:51:11,404 adding 'isovar/visualization.py' 2026-09-16T02:51:11,406 adding 'isovar/cli/__init__.py' 2026-09-16T02:51:11,407 adding 'isovar/cli/filter_args.py' 2026-09-16T02:51:11,409 adding 'isovar/cli/isovar_allele_counts.py' 2026-09-16T02:51:11,410 adding 'isovar/cli/isovar_allele_reads.py' 2026-09-16T02:51:11,411 adding 'isovar/cli/isovar_main.py' 2026-09-16T02:51:11,413 adding 'isovar/cli/isovar_plot.py' 2026-09-16T02:51:11,414 adding 'isovar/cli/isovar_protein_sequences.py' 2026-09-16T02:51:11,415 adding 'isovar/cli/isovar_reference_contexts.py' 2026-09-16T02:51:11,416 adding 'isovar/cli/isovar_translations.py' 2026-09-16T02:51:11,418 adding 'isovar/cli/isovar_variant_reads.py' 2026-09-16T02:51:11,419 adding 'isovar/cli/isovar_variant_sequences.py' 2026-09-16T02:51:11,420 adding 'isovar/cli/main_args.py' 2026-09-16T02:51:11,422 adding 'isovar/cli/output_args.py' 2026-09-16T02:51:11,423 adding 'isovar/cli/protein_sequence_args.py' 2026-09-16T02:51:11,424 adding 'isovar/cli/reference_context_args.py' 2026-09-16T02:51:11,426 adding 'isovar/cli/rna_args.py' 2026-09-16T02:51:11,428 adding 'isovar/cli/translation_args.py' 2026-09-16T02:51:11,429 adding 'isovar/cli/variant_sequences_args.py' 2026-09-16T02:51:11,433 adding 'isovar-1.12.0.dist-info/licenses/LICENSE' 2026-09-16T02:51:11,435 adding 'isovar-1.12.0.dist-info/METADATA' 2026-09-16T02:51:11,437 adding 'isovar-1.12.0.dist-info/WHEEL' 2026-09-16T02:51:11,437 adding 'isovar-1.12.0.dist-info/entry_points.txt' 2026-09-16T02:51:11,438 adding 'isovar-1.12.0.dist-info/top_level.txt' 2026-09-16T02:51:11,440 adding 'isovar-1.12.0.dist-info/RECORD' 2026-09-16T02:51:11,443 removing build/bdist.linux-armv7l/wheel 2026-09-16T02:51:11,559 Building wheel for isovar (pyproject.toml): finished with status 'done' 2026-09-16T02:51:11,566 Created wheel for isovar: filename=isovar-1.12.0-py3-none-any.whl size=149754 sha256=530f0a48f70ca2f3c57d54bd294404ba7ba1a61629cc119ac998402998bfe1ad 2026-09-16T02:51:11,568 Stored in directory: /tmp/pip-ephem-wheel-cache-fwyd76wc/wheels/df/46/c6/132ddd4625b415bf964b21cc04a1b3d31d0a8a8011c54ef556 2026-09-16T02:51:11,583 Successfully built isovar 2026-09-16T02:51:11,590 Removed build tracker: '/tmp/pip-build-tracker-vtf95aut'