2026-04-11T23:31:46,113 Created temporary directory: /tmp/pip-ephem-wheel-cache-l29a4erb 2026-04-11T23:31:46,115 Created temporary directory: /tmp/pip-build-tracker-m5a87tke 2026-04-11T23:31:46,116 Initialized build tracking at /tmp/pip-build-tracker-m5a87tke 2026-04-11T23:31:46,116 Created build tracker: /tmp/pip-build-tracker-m5a87tke 2026-04-11T23:31:46,116 Entered build tracker: /tmp/pip-build-tracker-m5a87tke 2026-04-11T23:31:46,117 Created temporary directory: /tmp/pip-wheel-7rlcid_u 2026-04-11T23:31:46,120 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 2026-04-11T23:31:46,123 Created temporary directory: /tmp/pip-ephem-wheel-cache-m9tenl_9 2026-04-11T23:31:46,147 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-11T23:31:46,150 2 location(s) to search for versions of topiary: 2026-04-11T23:31:46,150 * https://pypi.org/simple/topiary/ 2026-04-11T23:31:46,150 * https://www.piwheels.org/simple/topiary/ 2026-04-11T23:31:46,151 Fetching project page and analyzing links: https://pypi.org/simple/topiary/ 2026-04-11T23:31:46,152 Getting page https://pypi.org/simple/topiary/ 2026-04-11T23:31:46,153 Found index url https://pypi.org/simple 2026-04-11T23:31:46,387 Fetched page https://pypi.org/simple/topiary/ as application/vnd.pypi.simple.v1+json 2026-04-11T23:31:46,400 Found link https://files.pythonhosted.org/packages/38/f6/60c60d77093e492c9a139a87514fa230296ca94080fec6d479f22bf5cfcd/topiary-0.0.0.tar.gz (from 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version: 4.11.1 2026-04-11T23:31:46,453 Fetching project page and analyzing links: https://www.piwheels.org/simple/topiary/ 2026-04-11T23:31:46,454 Getting page https://www.piwheels.org/simple/topiary/ 2026-04-11T23:31:46,455 Found index url https://www.piwheels.org/simple 2026-04-11T23:31:46,640 Fetched page https://www.piwheels.org/simple/topiary/ as text/html 2026-04-11T23:31:46,654 Skipping link: No binaries permitted for topiary: https://www.piwheels.org/simple/topiary/topiary-4.11.0-py3-none-any.whl#sha256=45b9cea3b2e6bf6c6a6bfeed2f1bffe0d05f3c508df40f1da5688c7ff6de09f4 (from https://www.piwheels.org/simple/topiary/) (requires-python:>=3.9) 2026-04-11T23:31:46,655 Skipping link: No binaries permitted for topiary: https://www.piwheels.org/simple/topiary/topiary-4.10.0-py3-none-any.whl#sha256=54672f433794c0e48afe430b258423c891a347cc4d29c17ae9730b877039c78d (from https://www.piwheels.org/simple/topiary/) (requires-python:>=3.9) 2026-04-11T23:31:46,655 Skipping link: No binaries 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https://archive1.piwheels.org/simple/topiary/topiary-0.0.1-py3-none-any.whl#sha256=6743a02aee34bc7567913bbe5c15a321924d9e1cb2c15f956e4ebb9b321707f4 (from https://www.piwheels.org/simple/topiary/) 2026-04-11T23:31:46,682 Skipping link: No binaries permitted for topiary: https://archive1.piwheels.org/simple/topiary/topiary-0.0.0-py3-none-any.whl#sha256=a4de4e13dc8561c43fd350094d3cbc3267e0faacf5e65b94501ef15affdf51e6 (from https://www.piwheels.org/simple/topiary/) 2026-04-11T23:31:46,682 Skipping link: not a file: https://www.piwheels.org/simple/topiary/ 2026-04-11T23:31:46,683 Skipping link: not a file: https://pypi.org/simple/topiary/ 2026-04-11T23:31:46,709 Given no hashes to check 1 links for project 'topiary': discarding no candidates 2026-04-11T23:31:46,730 Collecting topiary==4.11.1 2026-04-11T23:31:46,733 Created temporary directory: /tmp/pip-unpack-tjwhnzm9 2026-04-11T23:31:46,967 Downloading topiary-4.11.1.tar.gz (116 kB) 2026-04-11T23:31:47,216 Added topiary==4.11.1 from https://files.pythonhosted.org/packages/e6/ab/57a807d73d130b36d1c29a2307ebac57aaa3136448c0f27c6305ab89d8ec/topiary-4.11.1.tar.gz to build tracker '/tmp/pip-build-tracker-m5a87tke' 2026-04-11T23:31:47,221 Created temporary directory: /tmp/pip-build-env-ov87_63f 2026-04-11T23:31:47,226 Installing build dependencies: started 2026-04-11T23:31:47,227 Running command pip subprocess to install build dependencies 2026-04-11T23:31:47,258 Error processing line 1 of /home/piwheels/.local/lib/python3.11/site-packages/outofcuda_hook.pth: 2026-04-11T23:31:47,298 Traceback (most recent call last): 2026-04-11T23:31:47,299 File "", line 192, in addpackage 2026-04-11T23:31:47,299 File "", line 1, in 2026-04-11T23:31:47,300 ModuleNotFoundError: No module named 'outofcuda' 2026-04-11T23:31:47,301 Remainder of file ignored 2026-04-11T23:31:48,401 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-04-11T23:31:48,812 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 2026-04-11T23:31:48,834 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-04-11T23:31:50,651 Collecting setuptools>=64 2026-04-11T23:31:50,731 Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB) 2026-04-11T23:31:53,723 Installing collected packages: setuptools 2026-04-11T23:31:56,840 Successfully installed setuptools-82.0.1 2026-04-11T23:31:57,108 Installing build dependencies: finished with status 'done' 2026-04-11T23:31:57,114 Getting requirements to build wheel: started 2026-04-11T23:31:57,115 Running command Getting requirements to build wheel 2026-04-11T23:31:57,790 /tmp/pip-build-env-ov87_63f/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T23:31:57,790 !! 2026-04-11T23:31:57,791 ******************************************************************************** 2026-04-11T23:31:57,792 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T23:31:57,793 License :: OSI Approved :: Apache Software License 2026-04-11T23:31:57,794 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T23:31:57,795 ******************************************************************************** 2026-04-11T23:31:57,796 !! 2026-04-11T23:31:57,797 dist._finalize_license_expression() 2026-04-11T23:31:57,798 /tmp/pip-build-env-ov87_63f/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T23:31:57,798 !! 2026-04-11T23:31:57,799 ******************************************************************************** 2026-04-11T23:31:57,800 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T23:31:57,801 License :: OSI Approved :: Apache Software License 2026-04-11T23:31:57,803 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T23:31:57,803 ******************************************************************************** 2026-04-11T23:31:57,804 !! 2026-04-11T23:31:57,805 self._finalize_license_expression() 2026-04-11T23:31:57,805 running egg_info 2026-04-11T23:31:57,807 writing topiary.egg-info/PKG-INFO 2026-04-11T23:31:57,810 writing dependency_links to topiary.egg-info/dependency_links.txt 2026-04-11T23:31:57,812 writing entry points to topiary.egg-info/entry_points.txt 2026-04-11T23:31:57,814 writing requirements to topiary.egg-info/requires.txt 2026-04-11T23:31:57,815 writing top-level names to topiary.egg-info/top_level.txt 2026-04-11T23:31:57,840 reading manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:57,845 adding license file 'LICENSE' 2026-04-11T23:31:57,851 writing manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:57,948 Getting requirements to build wheel: finished with status 'done' 2026-04-11T23:31:57,951 Created temporary directory: /tmp/pip-modern-metadata-ciiprgei 2026-04-11T23:31:57,954 Preparing metadata (pyproject.toml): started 2026-04-11T23:31:57,955 Running command Preparing metadata (pyproject.toml) 2026-04-11T23:31:58,588 /tmp/pip-build-env-ov87_63f/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T23:31:58,589 !! 2026-04-11T23:31:58,590 ******************************************************************************** 2026-04-11T23:31:58,590 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T23:31:58,591 License :: OSI Approved :: Apache Software License 2026-04-11T23:31:58,592 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T23:31:58,593 ******************************************************************************** 2026-04-11T23:31:58,593 !! 2026-04-11T23:31:58,594 dist._finalize_license_expression() 2026-04-11T23:31:58,595 /tmp/pip-build-env-ov87_63f/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T23:31:58,595 !! 2026-04-11T23:31:58,596 ******************************************************************************** 2026-04-11T23:31:58,597 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T23:31:58,598 License :: OSI Approved :: Apache Software License 2026-04-11T23:31:58,599 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T23:31:58,599 ******************************************************************************** 2026-04-11T23:31:58,600 !! 2026-04-11T23:31:58,601 self._finalize_license_expression() 2026-04-11T23:31:58,603 running dist_info 2026-04-11T23:31:58,614 creating /tmp/pip-modern-metadata-ciiprgei/topiary.egg-info 2026-04-11T23:31:58,615 writing /tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/PKG-INFO 2026-04-11T23:31:58,619 writing dependency_links to /tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/dependency_links.txt 2026-04-11T23:31:58,620 writing entry points to /tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/entry_points.txt 2026-04-11T23:31:58,622 writing requirements to /tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/requires.txt 2026-04-11T23:31:58,623 writing top-level names to /tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/top_level.txt 2026-04-11T23:31:58,624 writing manifest file '/tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:58,647 reading manifest file '/tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:58,649 adding license file 'LICENSE' 2026-04-11T23:31:58,654 writing manifest file '/tmp/pip-modern-metadata-ciiprgei/topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:58,655 creating '/tmp/pip-modern-metadata-ciiprgei/topiary-4.11.1.dist-info' 2026-04-11T23:31:58,781 Preparing metadata (pyproject.toml): finished with status 'done' 2026-04-11T23:31:58,787 Source in /tmp/pip-wheel-7rlcid_u/topiary_3cdfd8ae85d7459a8a9944dd8f1b1727 has version 4.11.1, which satisfies requirement topiary==4.11.1 from https://files.pythonhosted.org/packages/e6/ab/57a807d73d130b36d1c29a2307ebac57aaa3136448c0f27c6305ab89d8ec/topiary-4.11.1.tar.gz 2026-04-11T23:31:58,788 Removed topiary==4.11.1 from https://files.pythonhosted.org/packages/e6/ab/57a807d73d130b36d1c29a2307ebac57aaa3136448c0f27c6305ab89d8ec/topiary-4.11.1.tar.gz from build tracker '/tmp/pip-build-tracker-m5a87tke' 2026-04-11T23:31:58,795 Created temporary directory: /tmp/pip-unpack-9kcyaqrz 2026-04-11T23:31:58,796 Building wheels for collected packages: topiary 2026-04-11T23:31:58,801 Created temporary directory: /tmp/pip-wheel-xbjpdlw4 2026-04-11T23:31:58,801 Destination directory: /tmp/pip-wheel-xbjpdlw4 2026-04-11T23:31:58,804 Building wheel for topiary (pyproject.toml): started 2026-04-11T23:31:58,805 Running command Building wheel for topiary (pyproject.toml) 2026-04-11T23:31:59,421 /tmp/pip-build-env-ov87_63f/overlay/local/lib/python3.11/dist-packages/setuptools/config/_apply_pyprojecttoml.py:61: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T23:31:59,421 !! 2026-04-11T23:31:59,423 ******************************************************************************** 2026-04-11T23:31:59,423 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T23:31:59,424 License :: OSI Approved :: Apache Software License 2026-04-11T23:31:59,425 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T23:31:59,426 ******************************************************************************** 2026-04-11T23:31:59,427 !! 2026-04-11T23:31:59,427 dist._finalize_license_expression() 2026-04-11T23:31:59,428 /tmp/pip-build-env-ov87_63f/overlay/local/lib/python3.11/dist-packages/setuptools/dist.py:765: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2026-04-11T23:31:59,428 !! 2026-04-11T23:31:59,429 ******************************************************************************** 2026-04-11T23:31:59,430 Please consider removing the following classifiers in favor of a SPDX license expression: 2026-04-11T23:31:59,431 License :: OSI Approved :: Apache Software License 2026-04-11T23:31:59,432 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2026-04-11T23:31:59,432 ******************************************************************************** 2026-04-11T23:31:59,433 !! 2026-04-11T23:31:59,434 self._finalize_license_expression() 2026-04-11T23:31:59,434 running bdist_wheel 2026-04-11T23:31:59,447 running build 2026-04-11T23:31:59,448 running build_py 2026-04-11T23:31:59,455 creating build/lib/tests 2026-04-11T23:31:59,457 copying tests/test_variant_expression_filters.py -> build/lib/tests 2026-04-11T23:31:59,459 copying tests/data.py -> build/lib/tests 2026-04-11T23:31:59,461 copying tests/test_epitopes_from_commandline_args.py -> build/lib/tests 2026-04-11T23:31:59,463 copying tests/test_ranking.py -> build/lib/tests 2026-04-11T23:31:59,467 copying tests/__init__.py -> build/lib/tests 2026-04-11T23:31:59,468 copying tests/test_sequence_helpers.py -> build/lib/tests 2026-04-11T23:31:59,470 copying tests/test_validation_and_edge_cases.py -> build/lib/tests 2026-04-11T23:31:59,473 copying tests/test_direct_input_regressions.py -> build/lib/tests 2026-04-11T23:31:59,475 copying tests/test_dsl_extensions.py -> build/lib/tests 2026-04-11T23:31:59,478 copying tests/test_wide.py -> build/lib/tests 2026-04-11T23:31:59,480 copying tests/test_load_cufflinks_fpkm.py -> build/lib/tests 2026-04-11T23:31:59,483 copying tests/test_integration.py -> build/lib/tests 2026-04-11T23:31:59,484 copying tests/test_peptide_mutation_interval.py -> build/lib/tests 2026-04-11T23:31:59,486 copying tests/test_sources.py -> build/lib/tests 2026-04-11T23:31:59,488 copying tests/test_cli_coverage.py -> build/lib/tests 2026-04-11T23:31:59,491 copying tests/test_args_outputs.py -> build/lib/tests 2026-04-11T23:31:59,493 copying tests/test_contains_mutant_residues.py -> build/lib/tests 2026-04-11T23:31:59,495 copying tests/test_io.py -> build/lib/tests 2026-04-11T23:31:59,497 copying tests/test_load_stringtie_gtf_fpkm.py -> build/lib/tests 2026-04-11T23:31:59,499 copying tests/test_cli_protein_changes.py -> build/lib/tests 2026-04-11T23:31:59,501 copying tests/test_mutant_epitope_predictions_class2.py -> build/lib/tests 2026-04-11T23:31:59,503 copying tests/test_edge_case_fixtures.py -> build/lib/tests 2026-04-11T23:31:59,506 copying tests/test_dsl_polish.py -> build/lib/tests 2026-04-11T23:31:59,508 copying tests/test_end_to_end.py -> build/lib/tests 2026-04-11T23:31:59,510 copying tests/test_sources_optional.py -> build/lib/tests 2026-04-11T23:31:59,512 copying tests/test_rna_helpers.py -> build/lib/tests 2026-04-11T23:31:59,514 copying tests/test_mutant_epitope_predictions_class1.py -> build/lib/tests 2026-04-11T23:31:59,516 copying tests/test_dataframe.py -> build/lib/tests 2026-04-11T23:31:59,518 copying tests/test_padding.py -> build/lib/tests 2026-04-11T23:31:59,520 copying tests/test_coverage_gaps.py -> build/lib/tests 2026-04-11T23:31:59,523 copying tests/test_cli_ranking.py -> build/lib/tests 2026-04-11T23:31:59,525 copying tests/test_inputs.py -> build/lib/tests 2026-04-11T23:31:59,528 copying tests/test_predictor_internals.py -> build/lib/tests 2026-04-11T23:31:59,530 copying tests/common.py -> build/lib/tests 2026-04-11T23:31:59,532 copying tests/test_expression_integration.py -> build/lib/tests 2026-04-11T23:31:59,534 copying tests/test_effect_expression_filters.py -> build/lib/tests 2026-04-11T23:31:59,536 copying tests/test_expression_loader.py -> build/lib/tests 2026-04-11T23:31:59,539 creating build/lib/topiary 2026-04-11T23:31:59,540 copying topiary/inputs.py -> build/lib/topiary 2026-04-11T23:31:59,543 copying topiary/wide.py -> build/lib/topiary 2026-04-11T23:31:59,545 copying topiary/__init__.py -> build/lib/topiary 2026-04-11T23:31:59,547 copying topiary/filters.py -> build/lib/topiary 2026-04-11T23:31:59,549 copying topiary/sources.py -> build/lib/topiary 2026-04-11T23:31:59,551 copying topiary/ranking.py -> build/lib/topiary 2026-04-11T23:31:59,554 copying topiary/io.py -> build/lib/topiary 2026-04-11T23:31:59,557 copying topiary/predictor.py -> build/lib/topiary 2026-04-11T23:31:59,559 copying topiary/properties.py -> build/lib/topiary 2026-04-11T23:31:59,562 copying topiary/sequence_helpers.py -> build/lib/topiary 2026-04-11T23:31:59,565 creating build/lib/topiary/cli 2026-04-11T23:31:59,566 copying topiary/cli/__init__.py -> build/lib/topiary/cli 2026-04-11T23:31:59,568 copying topiary/cli/protein_changes.py -> build/lib/topiary/cli 2026-04-11T23:31:59,570 copying topiary/cli/errors.py -> build/lib/topiary/cli 2026-04-11T23:31:59,571 copying topiary/cli/script.py -> build/lib/topiary/cli 2026-04-11T23:31:59,573 copying topiary/cli/filtering.py -> build/lib/topiary/cli 2026-04-11T23:31:59,575 copying topiary/cli/sequence.py -> build/lib/topiary/cli 2026-04-11T23:31:59,577 copying topiary/cli/rna.py -> build/lib/topiary/cli 2026-04-11T23:31:59,579 copying topiary/cli/outputs.py -> build/lib/topiary/cli 2026-04-11T23:31:59,581 copying topiary/cli/args.py -> build/lib/topiary/cli 2026-04-11T23:31:59,584 creating build/lib/topiary/rna 2026-04-11T23:31:59,585 copying topiary/rna/cufflinks.py -> build/lib/topiary/rna 2026-04-11T23:31:59,587 copying topiary/rna/__init__.py -> build/lib/topiary/rna 2026-04-11T23:31:59,589 copying topiary/rna/gtf.py -> build/lib/topiary/rna 2026-04-11T23:31:59,591 copying topiary/rna/expression_loader.py -> build/lib/topiary/rna 2026-04-11T23:31:59,593 copying topiary/rna/common.py -> build/lib/topiary/rna 2026-04-11T23:31:59,595 running egg_info 2026-04-11T23:31:59,604 writing topiary.egg-info/PKG-INFO 2026-04-11T23:31:59,608 writing dependency_links to topiary.egg-info/dependency_links.txt 2026-04-11T23:31:59,609 writing entry points to topiary.egg-info/entry_points.txt 2026-04-11T23:31:59,611 writing requirements to topiary.egg-info/requires.txt 2026-04-11T23:31:59,612 writing top-level names to topiary.egg-info/top_level.txt 2026-04-11T23:31:59,626 reading manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:59,631 adding license file 'LICENSE' 2026-04-11T23:31:59,637 writing manifest file 'topiary.egg-info/SOURCES.txt' 2026-04-11T23:31:59,652 installing to build/bdist.linux-armv7l/wheel 2026-04-11T23:31:59,653 running install 2026-04-11T23:31:59,675 running install_lib 2026-04-11T23:31:59,681 creating build/bdist.linux-armv7l/wheel 2026-04-11T23:31:59,684 creating build/bdist.linux-armv7l/wheel/tests 2026-04-11T23:31:59,685 copying build/lib/tests/test_variant_expression_filters.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,687 copying build/lib/tests/data.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,689 copying build/lib/tests/test_epitopes_from_commandline_args.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,691 copying build/lib/tests/test_ranking.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,695 copying build/lib/tests/__init__.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,696 copying build/lib/tests/test_sequence_helpers.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,698 copying build/lib/tests/test_validation_and_edge_cases.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,701 copying build/lib/tests/test_direct_input_regressions.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,703 copying build/lib/tests/test_dsl_extensions.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,705 copying build/lib/tests/test_wide.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,708 copying build/lib/tests/test_load_cufflinks_fpkm.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,710 copying build/lib/tests/test_integration.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,712 copying build/lib/tests/test_peptide_mutation_interval.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,714 copying build/lib/tests/test_sources.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,716 copying build/lib/tests/test_cli_coverage.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,718 copying build/lib/tests/test_args_outputs.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,720 copying build/lib/tests/test_contains_mutant_residues.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,722 copying build/lib/tests/test_io.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,725 copying build/lib/tests/test_load_stringtie_gtf_fpkm.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,727 copying build/lib/tests/test_cli_protein_changes.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,729 copying build/lib/tests/test_mutant_epitope_predictions_class2.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,730 copying build/lib/tests/test_edge_case_fixtures.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,733 copying build/lib/tests/test_dsl_polish.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,735 copying build/lib/tests/test_end_to_end.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,738 copying build/lib/tests/test_sources_optional.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,740 copying build/lib/tests/test_rna_helpers.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,741 copying build/lib/tests/test_mutant_epitope_predictions_class1.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,743 copying build/lib/tests/test_dataframe.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,745 copying build/lib/tests/test_padding.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,747 copying build/lib/tests/test_coverage_gaps.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,749 copying build/lib/tests/test_cli_ranking.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,752 copying build/lib/tests/test_inputs.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,754 copying build/lib/tests/test_predictor_internals.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,756 copying build/lib/tests/common.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,758 copying build/lib/tests/test_expression_integration.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,760 copying build/lib/tests/test_effect_expression_filters.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,762 copying build/lib/tests/test_expression_loader.py -> build/bdist.linux-armv7l/wheel/./tests 2026-04-11T23:31:59,766 creating build/bdist.linux-armv7l/wheel/topiary 2026-04-11T23:31:59,767 copying build/lib/topiary/inputs.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,769 copying build/lib/topiary/wide.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,772 copying build/lib/topiary/__init__.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,774 copying build/lib/topiary/filters.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,776 copying build/lib/topiary/sources.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,779 creating build/bdist.linux-armv7l/wheel/topiary/cli 2026-04-11T23:31:59,780 copying build/lib/topiary/cli/__init__.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,782 copying build/lib/topiary/cli/protein_changes.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,784 copying build/lib/topiary/cli/errors.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,786 copying build/lib/topiary/cli/script.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,788 copying build/lib/topiary/cli/filtering.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,790 copying build/lib/topiary/cli/sequence.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,792 copying build/lib/topiary/cli/rna.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,794 copying build/lib/topiary/cli/outputs.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,796 copying build/lib/topiary/cli/args.py -> build/bdist.linux-armv7l/wheel/./topiary/cli 2026-04-11T23:31:59,798 copying build/lib/topiary/ranking.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,802 copying build/lib/topiary/io.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,804 copying build/lib/topiary/predictor.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,807 creating build/bdist.linux-armv7l/wheel/topiary/rna 2026-04-11T23:31:59,808 copying build/lib/topiary/rna/cufflinks.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T23:31:59,811 copying build/lib/topiary/rna/__init__.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T23:31:59,813 copying build/lib/topiary/rna/gtf.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T23:31:59,815 copying build/lib/topiary/rna/expression_loader.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T23:31:59,817 copying build/lib/topiary/rna/common.py -> build/bdist.linux-armv7l/wheel/./topiary/rna 2026-04-11T23:31:59,819 copying build/lib/topiary/properties.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,822 copying build/lib/topiary/sequence_helpers.py -> build/bdist.linux-armv7l/wheel/./topiary 2026-04-11T23:31:59,824 running install_egg_info 2026-04-11T23:31:59,829 Copying topiary.egg-info to build/bdist.linux-armv7l/wheel/./topiary-4.11.1-py3.11.egg-info 2026-04-11T23:31:59,841 running install_scripts 2026-04-11T23:31:59,854 creating build/bdist.linux-armv7l/wheel/topiary-4.11.1.dist-info/WHEEL 2026-04-11T23:31:59,857 creating '/tmp/pip-wheel-xbjpdlw4/.tmp-w43dxr1e/topiary-4.11.1-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-04-11T23:31:59,860 adding 'tests/__init__.py' 2026-04-11T23:31:59,861 adding 'tests/common.py' 2026-04-11T23:31:59,863 adding 'tests/data.py' 2026-04-11T23:31:59,864 adding 'tests/test_args_outputs.py' 2026-04-11T23:31:59,866 adding 'tests/test_cli_coverage.py' 2026-04-11T23:31:59,867 adding 'tests/test_cli_protein_changes.py' 2026-04-11T23:31:59,869 adding 'tests/test_cli_ranking.py' 2026-04-11T23:31:59,871 adding 'tests/test_contains_mutant_residues.py' 2026-04-11T23:31:59,873 adding 'tests/test_coverage_gaps.py' 2026-04-11T23:31:59,874 adding 'tests/test_dataframe.py' 2026-04-11T23:31:59,875 adding 'tests/test_direct_input_regressions.py' 2026-04-11T23:31:59,878 adding 'tests/test_dsl_extensions.py' 2026-04-11T23:31:59,880 adding 'tests/test_dsl_polish.py' 2026-04-11T23:31:59,881 adding 'tests/test_edge_case_fixtures.py' 2026-04-11T23:31:59,883 adding 'tests/test_effect_expression_filters.py' 2026-04-11T23:31:59,884 adding 'tests/test_end_to_end.py' 2026-04-11T23:31:59,886 adding 'tests/test_epitopes_from_commandline_args.py' 2026-04-11T23:31:59,887 adding 'tests/test_expression_integration.py' 2026-04-11T23:31:59,889 adding 'tests/test_expression_loader.py' 2026-04-11T23:31:59,890 adding 'tests/test_inputs.py' 2026-04-11T23:31:59,891 adding 'tests/test_integration.py' 2026-04-11T23:31:59,893 adding 'tests/test_io.py' 2026-04-11T23:31:59,895 adding 'tests/test_load_cufflinks_fpkm.py' 2026-04-11T23:31:59,896 adding 'tests/test_load_stringtie_gtf_fpkm.py' 2026-04-11T23:31:59,897 adding 'tests/test_mutant_epitope_predictions_class1.py' 2026-04-11T23:31:59,898 adding 'tests/test_mutant_epitope_predictions_class2.py' 2026-04-11T23:31:59,900 adding 'tests/test_padding.py' 2026-04-11T23:31:59,901 adding 'tests/test_peptide_mutation_interval.py' 2026-04-11T23:31:59,902 adding 'tests/test_predictor_internals.py' 2026-04-11T23:31:59,909 adding 'tests/test_ranking.py' 2026-04-11T23:31:59,911 adding 'tests/test_rna_helpers.py' 2026-04-11T23:31:59,912 adding 'tests/test_sequence_helpers.py' 2026-04-11T23:31:59,913 adding 'tests/test_sources.py' 2026-04-11T23:31:59,914 adding 'tests/test_sources_optional.py' 2026-04-11T23:31:59,916 adding 'tests/test_validation_and_edge_cases.py' 2026-04-11T23:31:59,918 adding 'tests/test_variant_expression_filters.py' 2026-04-11T23:31:59,920 adding 'tests/test_wide.py' 2026-04-11T23:31:59,922 adding 'topiary/__init__.py' 2026-04-11T23:31:59,923 adding 'topiary/filters.py' 2026-04-11T23:31:59,925 adding 'topiary/inputs.py' 2026-04-11T23:31:59,926 adding 'topiary/io.py' 2026-04-11T23:31:59,929 adding 'topiary/predictor.py' 2026-04-11T23:31:59,931 adding 'topiary/properties.py' 2026-04-11T23:31:59,939 adding 'topiary/ranking.py' 2026-04-11T23:31:59,941 adding 'topiary/sequence_helpers.py' 2026-04-11T23:31:59,943 adding 'topiary/sources.py' 2026-04-11T23:31:59,945 adding 'topiary/wide.py' 2026-04-11T23:31:59,947 adding 'topiary/cli/__init__.py' 2026-04-11T23:31:59,949 adding 'topiary/cli/args.py' 2026-04-11T23:31:59,951 adding 'topiary/cli/errors.py' 2026-04-11T23:31:59,952 adding 'topiary/cli/filtering.py' 2026-04-11T23:31:59,954 adding 'topiary/cli/outputs.py' 2026-04-11T23:31:59,955 adding 'topiary/cli/protein_changes.py' 2026-04-11T23:31:59,957 adding 'topiary/cli/rna.py' 2026-04-11T23:31:59,958 adding 'topiary/cli/script.py' 2026-04-11T23:31:59,959 adding 'topiary/cli/sequence.py' 2026-04-11T23:31:59,961 adding 'topiary/rna/__init__.py' 2026-04-11T23:31:59,963 adding 'topiary/rna/common.py' 2026-04-11T23:31:59,965 adding 'topiary/rna/cufflinks.py' 2026-04-11T23:31:59,967 adding 'topiary/rna/expression_loader.py' 2026-04-11T23:31:59,968 adding 'topiary/rna/gtf.py' 2026-04-11T23:31:59,972 adding 'topiary-4.11.1.dist-info/licenses/LICENSE' 2026-04-11T23:31:59,974 adding 'topiary-4.11.1.dist-info/METADATA' 2026-04-11T23:31:59,976 adding 'topiary-4.11.1.dist-info/WHEEL' 2026-04-11T23:31:59,977 adding 'topiary-4.11.1.dist-info/entry_points.txt' 2026-04-11T23:31:59,978 adding 'topiary-4.11.1.dist-info/top_level.txt' 2026-04-11T23:31:59,979 adding 'topiary-4.11.1.dist-info/RECORD' 2026-04-11T23:31:59,982 removing build/bdist.linux-armv7l/wheel 2026-04-11T23:32:00,097 Building wheel for topiary (pyproject.toml): finished with status 'done' 2026-04-11T23:32:00,104 Created wheel for topiary: filename=topiary-4.11.1-py3-none-any.whl size=133742 sha256=50ec8bc56b23fc0c3e3adfcb8fc2040f696eab52a3bb2b4a799a2fb939214ce7 2026-04-11T23:32:00,106 Stored in directory: /tmp/pip-ephem-wheel-cache-m9tenl_9/wheels/8d/d3/1f/96916fb6aab51020b00073718da2b14fbcd393fd2b2f06b520 2026-04-11T23:32:00,122 Successfully built topiary 2026-04-11T23:32:00,129 Removed build tracker: '/tmp/pip-build-tracker-m5a87tke'