2026-07-07T02:45:24,112 Created temporary directory: /tmp/pip-ephem-wheel-cache-jn1fuusl 2026-07-07T02:45:24,115 Created temporary directory: /tmp/pip-build-tracker-en6nxux9 2026-07-07T02:45:24,115 Initialized build tracking at /tmp/pip-build-tracker-en6nxux9 2026-07-07T02:45:24,116 Created build tracker: /tmp/pip-build-tracker-en6nxux9 2026-07-07T02:45:24,116 Entered build tracker: /tmp/pip-build-tracker-en6nxux9 2026-07-07T02:45:24,117 Created temporary directory: /tmp/pip-wheel-0tzy6z5y 2026-07-07T02:45:24,120 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 2026-07-07T02:45:24,122 Created temporary directory: /tmp/pip-ephem-wheel-cache-gwqjja8c 2026-07-07T02:45:24,144 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-07-07T02:45:24,147 2 location(s) to search for versions of oncoref: 2026-07-07T02:45:24,147 * https://pypi.org/simple/oncoref/ 2026-07-07T02:45:24,147 * https://www.piwheels.org/simple/oncoref/ 2026-07-07T02:45:24,148 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/ 2026-07-07T02:45:24,149 Getting page https://pypi.org/simple/oncoref/ 2026-07-07T02:45:24,150 Found index url https://pypi.org/simple 2026-07-07T02:45:24,324 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json 2026-07-07T02:45:24,352 Skipping link: No binaries permitted for oncoref: 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2026-07-07T02:45:24,765 Given no hashes to check 1 links for project 'oncoref': discarding no candidates 2026-07-07T02:45:24,785 Collecting oncoref==1.8.63 2026-07-07T02:45:24,787 Created temporary directory: /tmp/pip-unpack-8p_1kv3o 2026-07-07T02:45:24,938 Downloading oncoref-1.8.63.tar.gz (1.8 MB) 2026-07-07T02:45:25,656 Added oncoref==1.8.63 from https://files.pythonhosted.org/packages/4f/2c/84698b57528793591701fb3db2701d26328e48bc1bd63419a2a9bf79d03f/oncoref-1.8.63.tar.gz to build tracker '/tmp/pip-build-tracker-en6nxux9' 2026-07-07T02:45:25,666 Created temporary directory: /tmp/pip-build-env-kpo19xhk 2026-07-07T02:45:25,673 Installing build dependencies: started 2026-07-07T02:45:25,675 Running command pip subprocess to install build dependencies 2026-07-07T02:45:26,815 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-07-07T02:45:27,230 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 2026-07-07T02:45:27,253 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-07-07T02:45:29,030 Collecting setuptools>=61.0 2026-07-07T02:45:29,049 Using cached setuptools-83.0.0-py3-none-any.whl (1.0 MB) 2026-07-07T02:45:29,323 Collecting wheel 2026-07-07T02:45:29,324 Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata 2026-07-07T02:45:29,337 Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB) 2026-07-07T02:45:29,522 Collecting packaging>=24.0 2026-07-07T02:45:29,523 Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata 2026-07-07T02:45:29,537 Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB) 2026-07-07T02:45:29,727 Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB) 2026-07-07T02:45:29,747 Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB) 2026-07-07T02:45:29,770 Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB) 2026-07-07T02:45:29,793 Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB) 2026-07-07T02:45:32,516 Installing collected packages: setuptools, packaging, wheel 2026-07-07T02:45:36,037 Creating /tmp/pip-build-env-kpo19xhk/overlay/local/bin 2026-07-07T02:45:36,038 changing mode of /tmp/pip-build-env-kpo19xhk/overlay/local/bin/wheel to 755 2026-07-07T02:45:36,060 Successfully installed packaging-26.2 setuptools-83.0.0 wheel-0.47.0 2026-07-07T02:45:36,343 Installing build dependencies: finished with status 'done' 2026-07-07T02:45:36,349 Getting requirements to build wheel: started 2026-07-07T02:45:36,350 Running command Getting requirements to build wheel 2026-07-07T02:45:37,040 running egg_info 2026-07-07T02:45:37,046 writing oncoref.egg-info/PKG-INFO 2026-07-07T02:45:37,052 writing dependency_links to oncoref.egg-info/dependency_links.txt 2026-07-07T02:45:37,055 writing entry points to oncoref.egg-info/entry_points.txt 2026-07-07T02:45:37,058 writing requirements to oncoref.egg-info/requires.txt 2026-07-07T02:45:37,059 writing top-level names to oncoref.egg-info/top_level.txt 2026-07-07T02:45:37,094 reading manifest file 'oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:37,104 reading manifest template 'MANIFEST.in' 2026-07-07T02:45:37,106 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression' 2026-07-07T02:45:37,108 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles' 2026-07-07T02:45:37,110 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives' 2026-07-07T02:45:37,112 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5' 2026-07-07T02:45:37,113 warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv' 2026-07-07T02:45:37,114 warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv' 2026-07-07T02:45:37,115 adding license file 'LICENSE' 2026-07-07T02:45:37,124 writing manifest file 'oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:37,222 Getting requirements to build wheel: finished with status 'done' 2026-07-07T02:45:37,225 Created temporary directory: /tmp/pip-modern-metadata-9ifaqdhw 2026-07-07T02:45:37,228 Preparing metadata (pyproject.toml): started 2026-07-07T02:45:37,229 Running command Preparing metadata (pyproject.toml) 2026-07-07T02:45:37,878 running dist_info 2026-07-07T02:45:37,888 creating /tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info 2026-07-07T02:45:37,889 writing /tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/PKG-INFO 2026-07-07T02:45:37,895 writing dependency_links to /tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/dependency_links.txt 2026-07-07T02:45:37,897 writing entry points to /tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/entry_points.txt 2026-07-07T02:45:37,899 writing requirements to /tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/requires.txt 2026-07-07T02:45:37,900 writing top-level names to /tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/top_level.txt 2026-07-07T02:45:37,902 writing manifest file '/tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:37,934 reading manifest file '/tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:37,936 reading manifest template 'MANIFEST.in' 2026-07-07T02:45:37,938 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression' 2026-07-07T02:45:37,939 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles' 2026-07-07T02:45:37,940 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives' 2026-07-07T02:45:37,942 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5' 2026-07-07T02:45:37,943 warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv' 2026-07-07T02:45:37,943 warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv' 2026-07-07T02:45:37,944 adding license file 'LICENSE' 2026-07-07T02:45:37,950 writing manifest file '/tmp/pip-modern-metadata-9ifaqdhw/oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:37,952 creating '/tmp/pip-modern-metadata-9ifaqdhw/oncoref-1.8.63.dist-info' 2026-07-07T02:45:38,078 Preparing metadata (pyproject.toml): finished with status 'done' 2026-07-07T02:45:38,083 Source in /tmp/pip-wheel-0tzy6z5y/oncoref_a3bc78c9d80d4fd69adb61c66c8b2352 has version 1.8.63, which satisfies requirement oncoref==1.8.63 from https://files.pythonhosted.org/packages/4f/2c/84698b57528793591701fb3db2701d26328e48bc1bd63419a2a9bf79d03f/oncoref-1.8.63.tar.gz 2026-07-07T02:45:38,084 Removed oncoref==1.8.63 from https://files.pythonhosted.org/packages/4f/2c/84698b57528793591701fb3db2701d26328e48bc1bd63419a2a9bf79d03f/oncoref-1.8.63.tar.gz from build tracker '/tmp/pip-build-tracker-en6nxux9' 2026-07-07T02:45:38,090 Created temporary directory: /tmp/pip-unpack-_1hukmi0 2026-07-07T02:45:38,090 Building wheels for collected packages: oncoref 2026-07-07T02:45:38,095 Created temporary directory: /tmp/pip-wheel-osx5c2ky 2026-07-07T02:45:38,096 Destination directory: /tmp/pip-wheel-osx5c2ky 2026-07-07T02:45:38,098 Building wheel for oncoref (pyproject.toml): started 2026-07-07T02:45:38,099 Running command Building wheel for oncoref (pyproject.toml) 2026-07-07T02:45:38,721 running bdist_wheel 2026-07-07T02:45:38,738 running build 2026-07-07T02:45:38,739 running build_py 2026-07-07T02:45:38,746 creating build/lib/oncoref 2026-07-07T02:45:38,748 copying oncoref/ici_response.py -> build/lib/oncoref 2026-07-07T02:45:38,750 copying oncoref/coverage.py -> build/lib/oncoref 2026-07-07T02:45:38,753 copying oncoref/normalization.py -> build/lib/oncoref 2026-07-07T02:45:38,756 copying oncoref/gene_families.py -> build/lib/oncoref 2026-07-07T02:45:38,759 copying oncoref/tmb.py -> build/lib/oncoref 2026-07-07T02:45:38,761 copying oncoref/reference_data.py -> build/lib/oncoref 2026-07-07T02:45:38,764 copying oncoref/apd1.py -> build/lib/oncoref 2026-07-07T02:45:38,767 copying oncoref/cta.py -> build/lib/oncoref 2026-07-07T02:45:38,770 copying oncoref/__init__.py -> build/lib/oncoref 2026-07-07T02:45:38,773 copying oncoref/cta_curation_plots.py -> build/lib/oncoref 2026-07-07T02:45:38,775 copying oncoref/cta_peptides.py -> build/lib/oncoref 2026-07-07T02:45:38,777 copying oncoref/load_dataset.py -> build/lib/oncoref 2026-07-07T02:45:38,779 copying oncoref/fusions.py -> build/lib/oncoref 2026-07-07T02:45:38,782 copying oncoref/antigen_coverage.py -> build/lib/oncoref 2026-07-07T02:45:38,784 copying oncoref/samples.py -> build/lib/oncoref 2026-07-07T02:45:38,785 copying oncoref/cli.py -> build/lib/oncoref 2026-07-07T02:45:38,788 copying oncoref/cta_regen.py -> build/lib/oncoref 2026-07-07T02:45:38,791 copying oncoref/proteoforms.py -> build/lib/oncoref 2026-07-07T02:45:38,793 copying oncoref/ici.py -> build/lib/oncoref 2026-07-07T02:45:38,796 copying oncoref/cta_tissues.py -> build/lib/oncoref 2026-07-07T02:45:38,798 copying oncoref/cancer_ontology.py -> build/lib/oncoref 2026-07-07T02:45:38,800 copying oncoref/data_manifest.py -> build/lib/oncoref 2026-07-07T02:45:38,803 copying oncoref/catalog.py -> build/lib/oncoref 2026-07-07T02:45:38,805 copying oncoref/version.py -> build/lib/oncoref 2026-07-07T02:45:38,807 copying oncoref/data_bundle.py -> build/lib/oncoref 2026-07-07T02:45:38,810 copying oncoref/response_signatures.py -> build/lib/oncoref 2026-07-07T02:45:38,812 copying oncoref/hpa.py -> build/lib/oncoref 2026-07-07T02:45:38,814 copying oncoref/source_matrices.py -> build/lib/oncoref 2026-07-07T02:45:38,816 copying oncoref/expression_engine.py -> build/lib/oncoref 2026-07-07T02:45:38,819 copying oncoref/gene_qc.py -> build/lib/oncoref 2026-07-07T02:45:38,821 copying oncoref/gene_ids.py -> build/lib/oncoref 2026-07-07T02:45:38,823 copying oncoref/expression.py -> build/lib/oncoref 2026-07-07T02:45:38,827 copying oncoref/cancer_types.py -> build/lib/oncoref 2026-07-07T02:45:38,832 copying oncoref/cancer_genes.py -> build/lib/oncoref 2026-07-07T02:45:38,834 copying oncoref/expression_registry.py -> build/lib/oncoref 2026-07-07T02:45:38,836 copying oncoref/plots.py -> build/lib/oncoref 2026-07-07T02:45:38,839 copying oncoref/peptides.py -> build/lib/oncoref 2026-07-07T02:45:38,841 copying oncoref/incidence.py -> build/lib/oncoref 2026-07-07T02:45:38,843 copying oncoref/cta_coverage.py -> build/lib/oncoref 2026-07-07T02:45:38,845 copying oncoref/cohorts.py -> build/lib/oncoref 2026-07-07T02:45:38,847 copying oncoref/expression_builders.py -> build/lib/oncoref 2026-07-07T02:45:38,850 copying oncoref/genome.py -> build/lib/oncoref 2026-07-07T02:45:38,864 creating build/lib/oncoref/data 2026-07-07T02:45:38,865 copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,868 copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,870 copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,872 copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,874 copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,878 copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,881 copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,883 copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,886 copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,888 copying oncoref/data/cancer-normal-tissue-map.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,890 copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,893 copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,899 copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,901 copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,903 copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,906 copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,908 copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,911 copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,914 copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,917 copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,920 copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,922 copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,924 copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,927 copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,929 copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,938 copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,940 copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,942 copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,945 copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,948 copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,955 copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,957 copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,960 copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,966 copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,969 copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,972 copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,974 copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,978 copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,981 copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,985 copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data 2026-07-07T02:45:38,988 copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,002 copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,004 copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,007 copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,009 copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,012 copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,015 copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,019 copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,022 copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,025 copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,028 copying oncoref/data/expression-artifact-gene-universe-deltas.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,037 copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,039 copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,041 copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data 2026-07-07T02:45:39,046 copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data 2026-07-07T02:45:39,055 copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data 2026-07-07T02:45:39,069 copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data 2026-07-07T02:45:39,081 copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data 2026-07-07T02:45:39,096 installing to build/bdist.linux-armv7l/wheel 2026-07-07T02:45:39,096 running install 2026-07-07T02:45:39,121 running install_lib 2026-07-07T02:45:39,127 creating build/bdist.linux-armv7l/wheel 2026-07-07T02:45:39,130 creating build/bdist.linux-armv7l/wheel/oncoref 2026-07-07T02:45:39,131 copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,134 copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,137 copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,141 copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,144 copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,147 copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,149 copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,152 copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,154 copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,157 copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,159 copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,161 copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,163 copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,166 copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,168 copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,169 copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,172 copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,175 copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,177 copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,180 copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,183 copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,185 copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,187 copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,190 copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,192 copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,195 copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,197 copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,199 copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,201 copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,204 copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,207 copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,211 creating build/bdist.linux-armv7l/wheel/oncoref/data 2026-07-07T02:45:39,212 copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,214 copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,216 copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,218 copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,220 copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,222 copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,224 copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,226 copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,228 copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,230 copying build/lib/oncoref/data/cancer-normal-tissue-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,232 copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,235 copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,239 copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,241 copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,243 copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,245 copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,247 copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,249 copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,269 copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,272 copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,273 copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,279 copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,281 copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,283 copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,285 copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,287 copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,290 copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,295 copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,297 copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,298 copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,300 copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,302 copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,307 copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,309 copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,311 copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,315 copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,317 copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,320 copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,321 copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,324 copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,327 copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,329 copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,331 copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,338 copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,339 copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,342 copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,343 copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,346 copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,348 copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,351 copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,353 copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,362 copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,364 copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,366 copying build/lib/oncoref/data/expression-artifact-gene-universe-deltas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,373 copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,375 copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,377 copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,381 copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data 2026-07-07T02:45:39,389 copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,393 copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,396 copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,399 copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,401 copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,405 copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,408 copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,411 copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,413 copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,415 copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,418 copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref 2026-07-07T02:45:39,420 running install_egg_info 2026-07-07T02:45:39,430 running egg_info 2026-07-07T02:45:39,435 writing oncoref.egg-info/PKG-INFO 2026-07-07T02:45:39,441 writing dependency_links to oncoref.egg-info/dependency_links.txt 2026-07-07T02:45:39,443 writing entry points to oncoref.egg-info/entry_points.txt 2026-07-07T02:45:39,446 writing requirements to oncoref.egg-info/requires.txt 2026-07-07T02:45:39,447 writing top-level names to oncoref.egg-info/top_level.txt 2026-07-07T02:45:39,466 reading manifest file 'oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:39,476 reading manifest template 'MANIFEST.in' 2026-07-07T02:45:39,478 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression' 2026-07-07T02:45:39,480 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles' 2026-07-07T02:45:39,482 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives' 2026-07-07T02:45:39,484 warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5' 2026-07-07T02:45:39,485 warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv' 2026-07-07T02:45:39,487 warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv' 2026-07-07T02:45:39,487 adding license file 'LICENSE' 2026-07-07T02:45:39,496 writing manifest file 'oncoref.egg-info/SOURCES.txt' 2026-07-07T02:45:39,498 Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.63-py3.11.egg-info 2026-07-07T02:45:39,511 running install_scripts 2026-07-07T02:45:39,523 creating build/bdist.linux-armv7l/wheel/oncoref-1.8.63.dist-info/WHEEL 2026-07-07T02:45:39,526 creating '/tmp/pip-wheel-osx5c2ky/.tmp-s1oppd97/oncoref-1.8.63-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-07-07T02:45:39,530 adding 'oncoref/__init__.py' 2026-07-07T02:45:39,532 adding 'oncoref/antigen_coverage.py' 2026-07-07T02:45:39,534 adding 'oncoref/apd1.py' 2026-07-07T02:45:39,536 adding 'oncoref/cancer_genes.py' 2026-07-07T02:45:39,538 adding 'oncoref/cancer_ontology.py' 2026-07-07T02:45:39,545 adding 'oncoref/cancer_types.py' 2026-07-07T02:45:39,548 adding 'oncoref/catalog.py' 2026-07-07T02:45:39,552 adding 'oncoref/cli.py' 2026-07-07T02:45:39,554 adding 'oncoref/cohorts.py' 2026-07-07T02:45:39,557 adding 'oncoref/coverage.py' 2026-07-07T02:45:39,560 adding 'oncoref/cta.py' 2026-07-07T02:45:39,562 adding 'oncoref/cta_coverage.py' 2026-07-07T02:45:39,564 adding 'oncoref/cta_curation_plots.py' 2026-07-07T02:45:39,566 adding 'oncoref/cta_peptides.py' 2026-07-07T02:45:39,569 adding 'oncoref/cta_regen.py' 2026-07-07T02:45:39,571 adding 'oncoref/cta_tissues.py' 2026-07-07T02:45:39,576 adding 'oncoref/data_bundle.py' 2026-07-07T02:45:39,578 adding 'oncoref/data_manifest.py' 2026-07-07T02:45:39,593 adding 'oncoref/expression.py' 2026-07-07T02:45:39,596 adding 'oncoref/expression_builders.py' 2026-07-07T02:45:39,600 adding 'oncoref/expression_engine.py' 2026-07-07T02:45:39,601 adding 'oncoref/expression_registry.py' 2026-07-07T02:45:39,603 adding 'oncoref/fusions.py' 2026-07-07T02:45:39,606 adding 'oncoref/gene_families.py' 2026-07-07T02:45:39,607 adding 'oncoref/gene_ids.py' 2026-07-07T02:45:39,609 adding 'oncoref/gene_qc.py' 2026-07-07T02:45:39,611 adding 'oncoref/genome.py' 2026-07-07T02:45:39,613 adding 'oncoref/hpa.py' 2026-07-07T02:45:39,617 adding 'oncoref/ici.py' 2026-07-07T02:45:39,619 adding 'oncoref/ici_response.py' 2026-07-07T02:45:39,621 adding 'oncoref/incidence.py' 2026-07-07T02:45:39,623 adding 'oncoref/load_dataset.py' 2026-07-07T02:45:39,627 adding 'oncoref/normalization.py' 2026-07-07T02:45:39,629 adding 'oncoref/peptides.py' 2026-07-07T02:45:39,636 adding 'oncoref/plots.py' 2026-07-07T02:45:39,639 adding 'oncoref/proteoforms.py' 2026-07-07T02:45:39,641 adding 'oncoref/reference_data.py' 2026-07-07T02:45:39,642 adding 'oncoref/response_signatures.py' 2026-07-07T02:45:39,644 adding 'oncoref/samples.py' 2026-07-07T02:45:39,645 adding 'oncoref/source_matrices.py' 2026-07-07T02:45:39,647 adding 'oncoref/tmb.py' 2026-07-07T02:45:39,649 adding 'oncoref/version.py' 2026-07-07T02:45:39,653 adding 'oncoref/data/cancer-apd1-response.csv' 2026-07-07T02:45:39,654 adding 'oncoref/data/cancer-code-burden-map.csv' 2026-07-07T02:45:39,655 adding 'oncoref/data/cancer-cohort-aggregates.csv' 2026-07-07T02:45:39,660 adding 'oncoref/data/cancer-driver-genes.csv' 2026-07-07T02:45:39,663 adding 'oncoref/data/cancer-driver-variants.csv' 2026-07-07T02:45:39,665 adding 'oncoref/data/cancer-expression-source-candidates.csv' 2026-07-07T02:45:39,666 adding 'oncoref/data/cancer-frameshift-burden.csv' 2026-07-07T02:45:39,669 adding 'oncoref/data/cancer-fusions.csv' 2026-07-07T02:45:39,686 adding 'oncoref/data/cancer-ici-response-estimates.csv' 2026-07-07T02:45:39,690 adding 'oncoref/data/cancer-ici-response.csv' 2026-07-07T02:45:39,692 adding 'oncoref/data/cancer-incidence-mortality.csv' 2026-07-07T02:45:39,706 adding 'oncoref/data/cancer-key-genes.csv' 2026-07-07T02:45:39,708 adding 'oncoref/data/cancer-lineage-group-overrides.csv' 2026-07-07T02:45:39,709 adding 'oncoref/data/cancer-lineage-groups.csv' 2026-07-07T02:45:39,711 adding 'oncoref/data/cancer-normal-tissue-map.csv' 2026-07-07T02:45:39,739 adding 'oncoref/data/cancer-reference-expression-samples.csv.gz' 2026-07-07T02:45:39,742 adding 'oncoref/data/cancer-response-signatures.csv' 2026-07-07T02:45:39,744 adding 'oncoref/data/cancer-subtype-groupings.csv' 2026-07-07T02:45:39,755 adding 'oncoref/data/cancer-testis-antigens.csv' 2026-07-07T02:45:39,758 adding 'oncoref/data/cancer-tmb.csv' 2026-07-07T02:45:39,761 adding 'oncoref/data/cancer-type-genes.csv' 2026-07-07T02:45:39,765 adding 'oncoref/data/cancer-type-registry.csv' 2026-07-07T02:45:39,766 adding 'oncoref/data/cancer-viral-antigens.csv' 2026-07-07T02:45:39,819 adding 'oncoref/data/canonical-gene-space.csv.gz' 2026-07-07T02:45:39,824 adding 'oncoref/data/cdna-identical-gene-groups.csv' 2026-07-07T02:45:39,828 adding 'oncoref/data/censored-gene-reference-tpm.csv' 2026-07-07T02:45:39,830 adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv' 2026-07-07T02:45:39,840 adding 'oncoref/data/clean-tpm-censored-genes.csv' 2026-07-07T02:45:39,843 adding 'oncoref/data/cohort-registry.csv' 2026-07-07T02:45:39,844 adding 'oncoref/data/cta-candidate-references.csv' 2026-07-07T02:45:39,845 adding 'oncoref/data/cta-ihc-unreliable.csv' 2026-07-07T02:45:39,847 adding 'oncoref/data/degenerate-subtype-pairs.csv' 2026-07-07T02:45:39,848 adding 'oncoref/data/disease-state-rules.csv' 2026-07-07T02:45:39,875 adding 'oncoref/data/ensembl-id-aliases.csv' 2026-07-07T02:45:39,887 adding 'oncoref/data/expression-artifact-gene-universe-deltas.csv' 2026-07-07T02:45:39,893 adding 'oncoref/data/expression_sources.yaml' 2026-07-07T02:45:39,895 adding 'oncoref/data/extra-tx-mappings.csv' 2026-07-07T02:45:39,896 adding 'oncoref/data/family-burden-map.csv' 2026-07-07T02:45:39,897 adding 'oncoref/data/fusion-expression-effects.csv' 2026-07-07T02:45:39,899 adding 'oncoref/data/fusion-surrogate-expression.csv' 2026-07-07T02:45:39,900 adding 'oncoref/data/hemoglobin-genes.csv' 2026-07-07T02:45:39,902 adding 'oncoref/data/histone-genes.csv' 2026-07-07T02:45:39,903 adding 'oncoref/data/housekeeping-genes.csv' 2026-07-07T02:45:39,904 adding 'oncoref/data/mitochondrial-genes.csv' 2026-07-07T02:45:39,906 adding 'oncoref/data/narrative-gene-sets.csv' 2026-07-07T02:45:39,946 adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz' 2026-07-07T02:45:39,949 adding 'oncoref/data/nuclear-retained-lncrnas.csv' 2026-07-07T02:45:39,952 adding 'oncoref/data/numt-pseudogenes.csv' 2026-07-07T02:45:39,953 adding 'oncoref/data/proteoform-collapse-overrides.csv' 2026-07-07T02:45:39,956 adding 'oncoref/data/proteoform-groups-genome.csv' 2026-07-07T02:45:39,957 adding 'oncoref/data/proteoform-groups.csv' 2026-07-07T02:45:39,959 adding 'oncoref/data/rare-cancer-fusion-rules.csv' 2026-07-07T02:45:39,960 adding 'oncoref/data/ribosomal-protein-genes.csv' 2026-07-07T02:45:39,967 adding 'oncoref/data/ribosomal-protein-pseudogenes.csv' 2026-07-07T02:45:39,969 adding 'oncoref/data/rrna-and-pseudogenes.csv' 2026-07-07T02:45:39,988 adding 'oncoref/data/small-noncoding-rnas.csv' 2026-07-07T02:45:39,990 adding 'oncoref/data/source-matrices.csv' 2026-07-07T02:45:39,992 adding 'oncoref/data/tissue-burden-map.csv' 2026-07-07T02:45:39,995 adding 'oncoref-1.8.63.dist-info/licenses/LICENSE' 2026-07-07T02:45:39,997 adding 'oncoref-1.8.63.dist-info/METADATA' 2026-07-07T02:45:39,998 adding 'oncoref-1.8.63.dist-info/WHEEL' 2026-07-07T02:45:39,999 adding 'oncoref-1.8.63.dist-info/entry_points.txt' 2026-07-07T02:45:40,000 adding 'oncoref-1.8.63.dist-info/top_level.txt' 2026-07-07T02:45:40,002 adding 'oncoref-1.8.63.dist-info/RECORD' 2026-07-07T02:45:40,021 removing build/bdist.linux-armv7l/wheel 2026-07-07T02:45:40,140 Building wheel for oncoref (pyproject.toml): finished with status 'done' 2026-07-07T02:45:40,180 Created wheel for oncoref: filename=oncoref-1.8.63-py3-none-any.whl size=1705771 sha256=120f9dd44c4bb111e25b0c8f6b4db3a2fd88aa3a88e2d29539514ff834a1c15a 2026-07-07T02:45:40,181 Stored in directory: /tmp/pip-ephem-wheel-cache-gwqjja8c/wheels/fb/6c/ce/9cc364c957b0c88ed28e274a2be57e6e25fd448e76a10e0da0 2026-07-07T02:45:40,196 Successfully built oncoref 2026-07-07T02:45:40,254 Removed build tracker: '/tmp/pip-build-tracker-en6nxux9'