2026-04-11T03:13:05,467 Created temporary directory: /tmp/pip-ephem-wheel-cache-dn_hsqc3 2026-04-11T03:13:05,469 Created temporary directory: /tmp/pip-build-tracker-fnwdc7rs 2026-04-11T03:13:05,469 Initialized build tracking at /tmp/pip-build-tracker-fnwdc7rs 2026-04-11T03:13:05,470 Created build tracker: /tmp/pip-build-tracker-fnwdc7rs 2026-04-11T03:13:05,471 Entered build tracker: /tmp/pip-build-tracker-fnwdc7rs 2026-04-11T03:13:05,472 Created temporary directory: /tmp/pip-wheel-u15y_um2 2026-04-11T03:13:05,474 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 2026-04-11T03:13:05,477 Created temporary directory: /tmp/pip-ephem-wheel-cache-smi3wzb9 2026-04-11T03:13:05,500 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-11T03:13:05,503 2 location(s) to search for versions of topiary: 2026-04-11T03:13:05,503 * https://pypi.org/simple/topiary/ 2026-04-11T03:13:05,503 * https://www.piwheels.org/simple/topiary/ 2026-04-11T03:13:05,504 Fetching project page and analyzing links: https://pypi.org/simple/topiary/ 2026-04-11T03:13:05,505 Getting page https://pypi.org/simple/topiary/ 2026-04-11T03:13:05,506 Found index url https://pypi.org/simple 2026-04-11T03:13:05,737 Fetched page https://pypi.org/simple/topiary/ as application/vnd.pypi.simple.v1+json 2026-04-11T03:13:05,749 Found link https://files.pythonhosted.org/packages/38/f6/60c60d77093e492c9a139a87514fa230296ca94080fec6d479f22bf5cfcd/topiary-0.0.0.tar.gz (from 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https://files.pythonhosted.org/packages/0b/80/9fb9836c535019b504d5b4da9f8761e020d37ef419c8be58516ef60de08a/topiary-4.9.0-py3-none-any.whl (from https://pypi.org/simple/topiary/) (requires-python:>=3.9) 2026-04-11T03:13:05,791 Found link https://files.pythonhosted.org/packages/e2/61/5738cfb1b80d9d5b4ea4c9bece8ebf9b86271e78e10b46accaa29f7d0eb8/topiary-4.9.0.tar.gz (from https://pypi.org/simple/topiary/) (requires-python:>=3.9), version: 4.9.0 2026-04-11T03:13:05,792 Fetching project page and analyzing links: https://www.piwheels.org/simple/topiary/ 2026-04-11T03:13:05,793 Getting page https://www.piwheels.org/simple/topiary/ 2026-04-11T03:13:05,794 Found index url https://www.piwheels.org/simple 2026-04-11T03:13:05,973 Fetched page https://www.piwheels.org/simple/topiary/ as text/html 2026-04-11T03:13:05,986 Skipping link: No binaries permitted for topiary: 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https://archive1.piwheels.org/simple/topiary/topiary-0.0.0-py3-none-any.whl#sha256=a4de4e13dc8561c43fd350094d3cbc3267e0faacf5e65b94501ef15affdf51e6 (from https://www.piwheels.org/simple/topiary/) 2026-04-11T03:13:06,010 Skipping link: not a file: https://www.piwheels.org/simple/topiary/ 2026-04-11T03:13:06,010 Skipping link: not a file: https://pypi.org/simple/topiary/ 2026-04-11T03:13:06,036 Given no hashes to check 1 links for project 'topiary': discarding no candidates 2026-04-11T03:13:06,055 Collecting topiary==4.9.0 2026-04-11T03:13:06,058 Created temporary directory: /tmp/pip-unpack-2ct800g_ 2026-04-11T03:13:06,286 Downloading topiary-4.9.0.tar.gz (102 kB) 2026-04-11T03:13:06,503 Added topiary==4.9.0 from https://files.pythonhosted.org/packages/e2/61/5738cfb1b80d9d5b4ea4c9bece8ebf9b86271e78e10b46accaa29f7d0eb8/topiary-4.9.0.tar.gz to build tracker '/tmp/pip-build-tracker-fnwdc7rs' 2026-04-11T03:13:06,507 Created temporary directory: /tmp/pip-build-env-zcpdgrmg 2026-04-11T03:13:06,512 Installing build dependencies: started 2026-04-11T03:13:06,513 Running command pip subprocess to install build dependencies 2026-04-11T03:13:06,544 Error processing line 1 of /home/piwheels/.local/lib/python3.11/site-packages/outofcuda_hook.pth: 2026-04-11T03:13:06,583 Traceback (most recent call last): 2026-04-11T03:13:06,584 File "", line 192, in addpackage 2026-04-11T03:13:06,584 File "", line 1, in 2026-04-11T03:13:06,585 ModuleNotFoundError: No module named 'outofcuda' 2026-04-11T03:13:06,586 Remainder of file ignored 2026-04-11T03:13:07,637 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-04-11T03:13:08,058 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 2026-04-11T03:13:08,081 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-11T03:13:09,847 Collecting setuptools>=64 2026-04-11T03:13:09,929 Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB) 2026-04-11T03:13:12,896 Installing collected packages: setuptools 2026-04-11T03:13:16,068 Successfully installed setuptools-82.0.1 2026-04-11T03:13:16,335 Installing build dependencies: finished with status 'done' 2026-04-11T03:13:16,342 Getting requirements to build wheel: started 2026-04-11T03:13:16,343 Running command Getting requirements to build wheel 2026-04-11T03:13:17,034 /tmp/pip-build-env-zcpdgrmg/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T03:13:17,034 !! 2026-04-11T03:13:17,036 ******************************************************************************** 2026-04-11T03:13:17,036 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T03:13:17,038 License :: OSI Approved :: Apache Software License 2026-04-11T03:13:17,039 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T03:13:17,039 ******************************************************************************** 2026-04-11T03:13:17,041 !! 2026-04-11T03:13:17,041 dist._finalize_license_expression() 2026-04-11T03:13:17,042 /tmp/pip-build-env-zcpdgrmg/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T03:13:17,043 !! 2026-04-11T03:13:17,044 ******************************************************************************** 2026-04-11T03:13:17,045 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T03:13:17,046 License :: OSI Approved :: Apache Software License 2026-04-11T03:13:17,047 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T03:13:17,047 ******************************************************************************** 2026-04-11T03:13:17,048 !! 2026-04-11T03:13:17,049 self._finalize_license_expression() 2026-04-11T03:13:17,049 running egg_info 2026-04-11T03:13:17,052 writing topiary.egg-info/PKG-INFO 2026-04-11T03:13:17,056 writing dependency_links to topiary.egg-info/dependency_links.txt 2026-04-11T03:13:17,058 writing entry points to topiary.egg-info/entry_points.txt 2026-04-11T03:13:17,060 writing requirements to topiary.egg-info/requires.txt 2026-04-11T03:13:17,061 writing top-level names to topiary.egg-info/top_level.txt 2026-04-11T03:13:17,086 reading manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:17,091 adding license file 'LICENSE' 2026-04-11T03:13:17,096 writing manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:17,193 Getting requirements to build wheel: finished with status 'done' 2026-04-11T03:13:17,197 Created temporary directory: /tmp/pip-modern-metadata-gsz_uanm 2026-04-11T03:13:17,200 Preparing metadata (pyproject.toml): started 2026-04-11T03:13:17,201 Running command Preparing metadata (pyproject.toml) 2026-04-11T03:13:17,847 /tmp/pip-build-env-zcpdgrmg/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T03:13:17,847 !! 2026-04-11T03:13:17,849 ******************************************************************************** 2026-04-11T03:13:17,849 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T03:13:17,850 License :: OSI Approved :: Apache Software License 2026-04-11T03:13:17,852 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T03:13:17,852 ******************************************************************************** 2026-04-11T03:13:17,854 !! 2026-04-11T03:13:17,855 dist._finalize_license_expression() 2026-04-11T03:13:17,855 /tmp/pip-build-env-zcpdgrmg/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T03:13:17,856 !! 2026-04-11T03:13:17,858 ******************************************************************************** 2026-04-11T03:13:17,858 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T03:13:17,860 License :: OSI Approved :: Apache Software License 2026-04-11T03:13:17,861 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T03:13:17,862 ******************************************************************************** 2026-04-11T03:13:17,863 !! 2026-04-11T03:13:17,864 self._finalize_license_expression() 2026-04-11T03:13:17,864 running dist_info 2026-04-11T03:13:17,872 creating /tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info 2026-04-11T03:13:17,873 writing /tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/PKG-INFO 2026-04-11T03:13:17,878 writing dependency_links to /tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/dependency_links.txt 2026-04-11T03:13:17,880 writing entry points to /tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/entry_points.txt 2026-04-11T03:13:17,882 writing requirements to /tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/requires.txt 2026-04-11T03:13:17,883 writing top-level names to /tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/top_level.txt 2026-04-11T03:13:17,885 writing manifest file '/tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:17,908 reading manifest file '/tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:17,910 adding license file 'LICENSE' 2026-04-11T03:13:17,915 writing manifest file '/tmp/pip-modern-metadata-gsz_uanm/topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:17,916 creating '/tmp/pip-modern-metadata-gsz_uanm/topiary-4.9.0.dist-info' 2026-04-11T03:13:18,048 Preparing metadata (pyproject.toml): finished with status 'done' 2026-04-11T03:13:18,054 Source in /tmp/pip-wheel-u15y_um2/topiary_902fcef7339c4032aaf762647783be89 has version 4.9.0, which satisfies requirement topiary==4.9.0 from https://files.pythonhosted.org/packages/e2/61/5738cfb1b80d9d5b4ea4c9bece8ebf9b86271e78e10b46accaa29f7d0eb8/topiary-4.9.0.tar.gz 2026-04-11T03:13:18,055 Removed topiary==4.9.0 from https://files.pythonhosted.org/packages/e2/61/5738cfb1b80d9d5b4ea4c9bece8ebf9b86271e78e10b46accaa29f7d0eb8/topiary-4.9.0.tar.gz from build tracker '/tmp/pip-build-tracker-fnwdc7rs' 2026-04-11T03:13:18,062 Created temporary directory: /tmp/pip-unpack-4f4c8d8o 2026-04-11T03:13:18,063 Building wheels for collected packages: topiary 2026-04-11T03:13:18,068 Created temporary directory: /tmp/pip-wheel-5fr17qpg 2026-04-11T03:13:18,069 Destination directory: /tmp/pip-wheel-5fr17qpg 2026-04-11T03:13:18,071 Building wheel for topiary (pyproject.toml): started 2026-04-11T03:13:18,073 Running command Building wheel for topiary (pyproject.toml) 2026-04-11T03:13:18,697 /tmp/pip-build-env-zcpdgrmg/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T03:13:18,697 !! 2026-04-11T03:13:18,698 ******************************************************************************** 2026-04-11T03:13:18,699 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T03:13:18,700 License :: OSI Approved :: Apache Software License 2026-04-11T03:13:18,701 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T03:13:18,702 ******************************************************************************** 2026-04-11T03:13:18,703 !! 2026-04-11T03:13:18,704 dist._finalize_license_expression() 2026-04-11T03:13:18,705 /tmp/pip-build-env-zcpdgrmg/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T03:13:18,705 !! 2026-04-11T03:13:18,707 ******************************************************************************** 2026-04-11T03:13:18,707 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T03:13:18,709 License :: OSI Approved :: Apache Software License 2026-04-11T03:13:18,710 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T03:13:18,710 ******************************************************************************** 2026-04-11T03:13:18,712 !! 2026-04-11T03:13:18,712 self._finalize_license_expression() 2026-04-11T03:13:18,713 running bdist_wheel 2026-04-11T03:13:18,723 running build 2026-04-11T03:13:18,724 running build_py 2026-04-11T03:13:18,730 creating build/lib/tests 2026-04-11T03:13:18,732 copying tests/test_variant_expression_filters.py -> build/lib/tests 2026-04-11T03:13:18,735 copying tests/data.py -> build/lib/tests 2026-04-11T03:13:18,737 copying tests/test_epitopes_from_commandline_args.py -> build/lib/tests 2026-04-11T03:13:18,739 copying tests/test_ranking.py -> build/lib/tests 2026-04-11T03:13:18,743 copying tests/__init__.py -> build/lib/tests 2026-04-11T03:13:18,745 copying tests/test_validation_and_edge_cases.py -> build/lib/tests 2026-04-11T03:13:18,748 copying tests/test_direct_input_regressions.py -> build/lib/tests 2026-04-11T03:13:18,750 copying tests/test_dsl_extensions.py -> build/lib/tests 2026-04-11T03:13:18,753 copying tests/test_load_cufflinks_fpkm.py -> build/lib/tests 2026-04-11T03:13:18,755 copying tests/test_integration.py -> build/lib/tests 2026-04-11T03:13:18,757 copying tests/test_peptide_mutation_interval.py -> build/lib/tests 2026-04-11T03:13:18,759 copying tests/test_sources.py -> build/lib/tests 2026-04-11T03:13:18,761 copying tests/test_args_outputs.py -> build/lib/tests 2026-04-11T03:13:18,763 copying tests/test_contains_mutant_residues.py -> build/lib/tests 2026-04-11T03:13:18,764 copying tests/test_load_stringtie_gtf_fpkm.py -> build/lib/tests 2026-04-11T03:13:18,766 copying tests/test_cli_protein_changes.py -> build/lib/tests 2026-04-11T03:13:18,768 copying tests/test_mutant_epitope_predictions_class2.py -> build/lib/tests 2026-04-11T03:13:18,770 copying tests/test_dsl_polish.py -> build/lib/tests 2026-04-11T03:13:18,772 copying tests/test_end_to_end.py -> build/lib/tests 2026-04-11T03:13:18,775 copying tests/test_sources_optional.py -> build/lib/tests 2026-04-11T03:13:18,776 copying tests/test_rna_helpers.py -> build/lib/tests 2026-04-11T03:13:18,778 copying tests/test_mutant_epitope_predictions_class1.py -> build/lib/tests 2026-04-11T03:13:18,780 copying tests/test_dataframe.py -> build/lib/tests 2026-04-11T03:13:18,782 copying tests/test_padding.py -> build/lib/tests 2026-04-11T03:13:18,784 copying tests/test_coverage_gaps.py -> build/lib/tests 2026-04-11T03:13:18,786 copying tests/test_cli_ranking.py -> build/lib/tests 2026-04-11T03:13:18,789 copying tests/test_inputs.py -> build/lib/tests 2026-04-11T03:13:18,791 copying tests/common.py -> build/lib/tests 2026-04-11T03:13:18,793 copying tests/test_expression_integration.py -> build/lib/tests 2026-04-11T03:13:18,795 copying tests/test_effect_expression_filters.py -> build/lib/tests 2026-04-11T03:13:18,797 copying tests/test_expression_loader.py -> build/lib/tests 2026-04-11T03:13:18,800 creating build/lib/topiary 2026-04-11T03:13:18,801 copying topiary/inputs.py -> build/lib/topiary 2026-04-11T03:13:18,804 copying topiary/__init__.py -> build/lib/topiary 2026-04-11T03:13:18,805 copying topiary/filters.py -> build/lib/topiary 2026-04-11T03:13:18,808 copying topiary/sources.py -> build/lib/topiary 2026-04-11T03:13:18,810 copying topiary/ranking.py -> build/lib/topiary 2026-04-11T03:13:18,814 copying topiary/predictor.py -> build/lib/topiary 2026-04-11T03:13:18,816 copying topiary/properties.py -> build/lib/topiary 2026-04-11T03:13:18,819 copying topiary/sequence_helpers.py -> build/lib/topiary 2026-04-11T03:13:18,822 creating build/lib/topiary/cli 2026-04-11T03:13:18,823 copying topiary/cli/__init__.py -> build/lib/topiary/cli 2026-04-11T03:13:18,825 copying topiary/cli/protein_changes.py -> build/lib/topiary/cli 2026-04-11T03:13:18,827 copying topiary/cli/errors.py -> build/lib/topiary/cli 2026-04-11T03:13:18,829 copying topiary/cli/script.py -> build/lib/topiary/cli 2026-04-11T03:13:18,831 copying topiary/cli/filtering.py -> build/lib/topiary/cli 2026-04-11T03:13:18,833 copying topiary/cli/sequence.py -> build/lib/topiary/cli 2026-04-11T03:13:18,834 copying topiary/cli/rna.py -> build/lib/topiary/cli 2026-04-11T03:13:18,837 copying topiary/cli/outputs.py -> build/lib/topiary/cli 2026-04-11T03:13:18,839 copying topiary/cli/args.py -> build/lib/topiary/cli 2026-04-11T03:13:18,842 creating build/lib/topiary/rna 2026-04-11T03:13:18,843 copying topiary/rna/cufflinks.py -> build/lib/topiary/rna 2026-04-11T03:13:18,845 copying topiary/rna/__init__.py -> build/lib/topiary/rna 2026-04-11T03:13:18,847 copying topiary/rna/gtf.py -> build/lib/topiary/rna 2026-04-11T03:13:18,849 copying topiary/rna/expression_loader.py -> build/lib/topiary/rna 2026-04-11T03:13:18,852 copying topiary/rna/common.py -> build/lib/topiary/rna 2026-04-11T03:13:18,853 running egg_info 2026-04-11T03:13:18,863 writing topiary.egg-info/PKG-INFO 2026-04-11T03:13:18,866 writing dependency_links to topiary.egg-info/dependency_links.txt 2026-04-11T03:13:18,868 writing entry points to topiary.egg-info/entry_points.txt 2026-04-11T03:13:18,869 writing requirements to topiary.egg-info/requires.txt 2026-04-11T03:13:18,870 writing top-level names to topiary.egg-info/top_level.txt 2026-04-11T03:13:18,884 reading manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:18,889 adding license file 'LICENSE' 2026-04-11T03:13:18,894 writing manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T03:13:18,909 installing to build/bdist.linux-armv7l/wheel 2026-04-11T03:13:18,910 running install 2026-04-11T03:13:18,933 running install_lib 2026-04-11T03:13:18,939 creating build/bdist.linux-armv7l/wheel 2026-04-11T03:13:18,942 creating build/bdist.linux-armv7l/wheel/tests 2026-04-11T03:13:18,943 copying build/lib/tests/test_variant_expression_filters.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,945 copying build/lib/tests/data.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,947 copying build/lib/tests/test_epitopes_from_commandline_args.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,949 copying build/lib/tests/test_ranking.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,953 copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,954 copying build/lib/tests/test_validation_and_edge_cases.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,957 copying build/lib/tests/test_direct_input_regressions.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,959 copying build/lib/tests/test_dsl_extensions.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,962 copying build/lib/tests/test_load_cufflinks_fpkm.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,964 copying build/lib/tests/test_integration.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,966 copying build/lib/tests/test_peptide_mutation_interval.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,968 copying build/lib/tests/test_sources.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,970 copying build/lib/tests/test_args_outputs.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,972 copying build/lib/tests/test_contains_mutant_residues.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,973 copying build/lib/tests/test_load_stringtie_gtf_fpkm.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,975 copying build/lib/tests/test_cli_protein_changes.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,977 copying build/lib/tests/test_mutant_epitope_predictions_class2.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,979 copying build/lib/tests/test_dsl_polish.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,982 copying build/lib/tests/test_end_to_end.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,984 copying build/lib/tests/test_sources_optional.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,986 copying build/lib/tests/test_rna_helpers.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,988 copying build/lib/tests/test_mutant_epitope_predictions_class1.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,990 copying build/lib/tests/test_dataframe.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,992 copying build/lib/tests/test_padding.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,994 copying build/lib/tests/test_coverage_gaps.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,997 copying build/lib/tests/test_cli_ranking.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:18,999 copying build/lib/tests/test_inputs.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:19,002 copying build/lib/tests/common.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:19,004 copying build/lib/tests/test_expression_integration.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:19,006 copying build/lib/tests/test_effect_expression_filters.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:19,008 copying build/lib/tests/test_expression_loader.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T03:13:19,011 creating build/bdist.linux-armv7l/wheel/topiary 2026-04-11T03:13:19,012 copying build/lib/topiary/inputs.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,015 copying build/lib/topiary/__init__.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,017 copying build/lib/topiary/filters.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,019 copying build/lib/topiary/sources.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,022 creating build/bdist.linux-armv7l/wheel/topiary/cli 2026-04-11T03:13:19,023 copying build/lib/topiary/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,025 copying build/lib/topiary/cli/protein_changes.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,027 copying build/lib/topiary/cli/errors.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,029 copying build/lib/topiary/cli/script.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,031 copying build/lib/topiary/cli/filtering.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,033 copying build/lib/topiary/cli/sequence.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,035 copying build/lib/topiary/cli/rna.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,037 copying build/lib/topiary/cli/outputs.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,039 copying build/lib/topiary/cli/args.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T03:13:19,042 copying build/lib/topiary/ranking.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,045 copying build/lib/topiary/predictor.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,048 creating build/bdist.linux-armv7l/wheel/topiary/rna 2026-04-11T03:13:19,049 copying build/lib/topiary/rna/cufflinks.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T03:13:19,053 copying build/lib/topiary/rna/__init__.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T03:13:19,054 copying build/lib/topiary/rna/gtf.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T03:13:19,057 copying build/lib/topiary/rna/expression_loader.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T03:13:19,059 copying build/lib/topiary/rna/common.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T03:13:19,061 copying build/lib/topiary/properties.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,063 copying build/lib/topiary/sequence_helpers.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T03:13:19,065 running install_egg_info 2026-04-11T03:13:19,070 Copying topiary.egg-info to build/bdist.linux-armv7l/wheel/./topiary-4.9.0-py3.11.egg-info 2026-04-11T03:13:19,083 running install_scripts 2026-04-11T03:13:19,096 creating build/bdist.linux-armv7l/wheel/topiary-4.9.0.dist-info/WHEEL 2026-04-11T03:13:19,099 creating '/tmp/pip-wheel-5fr17qpg/.tmp-ztyxt58g/topiary-4.9.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-04-11T03:13:19,102 adding 'tests/__init__.py' 2026-04-11T03:13:19,103 adding 'tests/common.py' 2026-04-11T03:13:19,105 adding 'tests/data.py' 2026-04-11T03:13:19,106 adding 'tests/test_args_outputs.py' 2026-04-11T03:13:19,107 adding 'tests/test_cli_protein_changes.py' 2026-04-11T03:13:19,109 adding 'tests/test_cli_ranking.py' 2026-04-11T03:13:19,111 adding 'tests/test_contains_mutant_residues.py' 2026-04-11T03:13:19,112 adding 'tests/test_coverage_gaps.py' 2026-04-11T03:13:19,114 adding 'tests/test_dataframe.py' 2026-04-11T03:13:19,115 adding 'tests/test_direct_input_regressions.py' 2026-04-11T03:13:19,118 adding 'tests/test_dsl_extensions.py' 2026-04-11T03:13:19,119 adding 'tests/test_dsl_polish.py' 2026-04-11T03:13:19,121 adding 'tests/test_effect_expression_filters.py' 2026-04-11T03:13:19,122 adding 'tests/test_end_to_end.py' 2026-04-11T03:13:19,124 adding 'tests/test_epitopes_from_commandline_args.py' 2026-04-11T03:13:19,125 adding 'tests/test_expression_integration.py' 2026-04-11T03:13:19,127 adding 'tests/test_expression_loader.py' 2026-04-11T03:13:19,128 adding 'tests/test_inputs.py' 2026-04-11T03:13:19,129 adding 'tests/test_integration.py' 2026-04-11T03:13:19,130 adding 'tests/test_load_cufflinks_fpkm.py' 2026-04-11T03:13:19,132 adding 'tests/test_load_stringtie_gtf_fpkm.py' 2026-04-11T03:13:19,133 adding 'tests/test_mutant_epitope_predictions_class1.py' 2026-04-11T03:13:19,134 adding 'tests/test_mutant_epitope_predictions_class2.py' 2026-04-11T03:13:19,135 adding 'tests/test_padding.py' 2026-04-11T03:13:19,137 adding 'tests/test_peptide_mutation_interval.py' 2026-04-11T03:13:19,143 adding 'tests/test_ranking.py' 2026-04-11T03:13:19,145 adding 'tests/test_rna_helpers.py' 2026-04-11T03:13:19,146 adding 'tests/test_sources.py' 2026-04-11T03:13:19,147 adding 'tests/test_sources_optional.py' 2026-04-11T03:13:19,149 adding 'tests/test_validation_and_edge_cases.py' 2026-04-11T03:13:19,151 adding 'tests/test_variant_expression_filters.py' 2026-04-11T03:13:19,153 adding 'topiary/__init__.py' 2026-04-11T03:13:19,154 adding 'topiary/filters.py' 2026-04-11T03:13:19,156 adding 'topiary/inputs.py' 2026-04-11T03:13:19,159 adding 'topiary/predictor.py' 2026-04-11T03:13:19,161 adding 'topiary/properties.py' 2026-04-11T03:13:19,169 adding 'topiary/ranking.py' 2026-04-11T03:13:19,171 adding 'topiary/sequence_helpers.py' 2026-04-11T03:13:19,173 adding 'topiary/sources.py' 2026-04-11T03:13:19,175 adding 'topiary/cli/__init__.py' 2026-04-11T03:13:19,178 adding 'topiary/cli/args.py' 2026-04-11T03:13:19,179 adding 'topiary/cli/errors.py' 2026-04-11T03:13:19,181 adding 'topiary/cli/filtering.py' 2026-04-11T03:13:19,182 adding 'topiary/cli/outputs.py' 2026-04-11T03:13:19,183 adding 'topiary/cli/protein_changes.py' 2026-04-11T03:13:19,185 adding 'topiary/cli/rna.py' 2026-04-11T03:13:19,186 adding 'topiary/cli/script.py' 2026-04-11T03:13:19,188 adding 'topiary/cli/sequence.py' 2026-04-11T03:13:19,189 adding 'topiary/rna/__init__.py' 2026-04-11T03:13:19,190 adding 'topiary/rna/common.py' 2026-04-11T03:13:19,192 adding 'topiary/rna/cufflinks.py' 2026-04-11T03:13:19,194 adding 'topiary/rna/expression_loader.py' 2026-04-11T03:13:19,196 adding 'topiary/rna/gtf.py' 2026-04-11T03:13:19,199 adding 'topiary-4.9.0.dist-info/licenses/LICENSE' 2026-04-11T03:13:19,202 adding 'topiary-4.9.0.dist-info/METADATA' 2026-04-11T03:13:19,203 adding 'topiary-4.9.0.dist-info/WHEEL' 2026-04-11T03:13:19,204 adding 'topiary-4.9.0.dist-info/entry_points.txt' 2026-04-11T03:13:19,205 adding 'topiary-4.9.0.dist-info/top_level.txt' 2026-04-11T03:13:19,207 adding 'topiary-4.9.0.dist-info/RECORD' 2026-04-11T03:13:19,210 removing build/bdist.linux-armv7l/wheel 2026-04-11T03:13:19,325 Building wheel for topiary (pyproject.toml): finished with status 'done' 2026-04-11T03:13:19,334 Created wheel for topiary: filename=topiary-4.9.0-py3-none-any.whl size=116971 sha256=3dcc9ac1353074134826b757eecdaffe092bdcde48313ac98ea9c9bcbac9fa68 2026-04-11T03:13:19,336 Stored in directory: /tmp/pip-ephem-wheel-cache-smi3wzb9/wheels/b8/2e/a3/fe210d75b00c9746427bd5953d18d8800f51e1368690a86574 2026-04-11T03:13:19,351 Successfully built topiary 2026-04-11T03:13:19,360 Removed build tracker: '/tmp/pip-build-tracker-fnwdc7rs'