2026-06-20T01:53:16,082 Created temporary directory: /tmp/pip-ephem-wheel-cache-kl00wvx7
2026-06-20T01:53:16,083 Created temporary directory: /tmp/pip-build-tracker-tkrutd3l
2026-06-20T01:53:16,084 Initialized build tracking at /tmp/pip-build-tracker-tkrutd3l
2026-06-20T01:53:16,085 Created build tracker: /tmp/pip-build-tracker-tkrutd3l
2026-06-20T01:53:16,085 Entered build tracker: /tmp/pip-build-tracker-tkrutd3l
2026-06-20T01:53:16,086 Created temporary directory: /tmp/pip-wheel-aa_ub8w0
2026-06-20T01:53:16,089 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
2026-06-20T01:53:16,091 Created temporary directory: /tmp/pip-ephem-wheel-cache-j4h3w5x7
2026-06-20T01:53:16,112 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-20T01:53:16,116 2 location(s) to search for versions of oncoref:
2026-06-20T01:53:16,116 * https://pypi.org/simple/oncoref/
2026-06-20T01:53:16,116 * https://www.piwheels.org/simple/oncoref/
2026-06-20T01:53:16,117 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-20T01:53:16,117 Getting page https://pypi.org/simple/oncoref/
2026-06-20T01:53:16,119 Found index url https://pypi.org/simple
2026-06-20T01:53:16,450 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-20T01:53:16,452   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/28/98/3c08853ca8c6e4f7ea1625192d883f4890b4482814b60c92972610af6a91/oncoref-1.6.0-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-20T01:53:16,453   Found link https://files.pythonhosted.org/packages/d3/fa/b1f2479c8c9b44597623ab898f37be9f1c317250cac13115edb09adf0bd0/oncoref-1.6.0.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.6.0
2026-06-20T01:53:16,454   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/00/bc/d076f0b5f3ab5d26840cd8eee073af59210bb90aba8a7826d64980c08e70/oncoref-1.7.0-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-20T01:53:16,455   Found link https://files.pythonhosted.org/packages/6b/4f/2b9be7b2858be7ca1c850ea67261cfe41c9595b7d57ed818b20af88c815c/oncoref-1.7.0.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.7.0
2026-06-20T01:53:16,455   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/3d/cf/214dbe1e3f3ca56d6354d7f2f87283085238025685b7287be5a3020db87c/oncoref-1.8.0-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-20T01:53:16,456   Found link https://files.pythonhosted.org/packages/10/a1/9b3e573b2e9ce5903eef398c68d06cd3d1425a88c87c3f5d8dbe79cbfb3c/oncoref-1.8.0.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.0
2026-06-20T01:53:16,457 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-20T01:53:16,458 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-20T01:53:16,459 Found index url https://www.piwheels.org/simple
2026-06-20T01:53:18,065 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-20T01:53:18,067   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.7.0-py3-none-any.whl#sha256=249750fecb30a99d715c221ca1ca76a4ff790891f0051782cd528395d14db6ed (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-20T01:53:18,068   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.6.0-py3-none-any.whl#sha256=e8383754a89924adfeb524e978f9d8e304fe5f179989515ee7ee4ae3eaa3d997 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-20T01:53:18,069 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-20T01:53:18,070 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-20T01:53:18,088 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-20T01:53:18,106 Collecting oncoref==1.8.0
2026-06-20T01:53:18,108   Created temporary directory: /tmp/pip-unpack-asp53ct5
2026-06-20T01:53:18,358   Downloading oncoref-1.8.0.tar.gz (1.7 MB)
2026-06-20T01:53:18,994   Added oncoref==1.8.0 from https://files.pythonhosted.org/packages/10/a1/9b3e573b2e9ce5903eef398c68d06cd3d1425a88c87c3f5d8dbe79cbfb3c/oncoref-1.8.0.tar.gz to build tracker '/tmp/pip-build-tracker-tkrutd3l'
2026-06-20T01:53:19,001   Created temporary directory: /tmp/pip-build-env-ysynwr1u
2026-06-20T01:53:19,005   Installing build dependencies: started
2026-06-20T01:53:19,006   Running command pip subprocess to install build dependencies
2026-06-20T01:53:20,169   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-20T01:53:20,580   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
2026-06-20T01:53:20,604   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-20T01:53:22,622   Collecting setuptools>=61.0
2026-06-20T01:53:22,623     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-20T01:53:22,647     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-20T01:53:22,883   Collecting wheel
2026-06-20T01:53:22,884     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-20T01:53:22,899     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-20T01:53:23,368   Collecting packaging>=24.0
2026-06-20T01:53:23,369     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-20T01:53:23,382     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-20T01:53:23,588   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-20T01:53:23,625   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-20T01:53:23,715   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-20T01:53:23,749   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-20T01:53:23,775   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-20T01:53:23,881   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-20T01:53:26,663   Installing collected packages: setuptools, packaging, wheel
2026-06-20T01:53:30,136     Creating /tmp/pip-build-env-ysynwr1u/overlay/local/bin
2026-06-20T01:53:30,138     changing mode of /tmp/pip-build-env-ysynwr1u/overlay/local/bin/wheel to 755
2026-06-20T01:53:30,159   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-20T01:53:30,444   Installing build dependencies: finished with status 'done'
2026-06-20T01:53:30,450   Getting requirements to build wheel: started
2026-06-20T01:53:30,452   Running command Getting requirements to build wheel
2026-06-20T01:53:31,130   running egg_info
2026-06-20T01:53:31,135   writing oncoref.egg-info/PKG-INFO
2026-06-20T01:53:31,141   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-20T01:53:31,143   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-20T01:53:31,145   writing requirements to oncoref.egg-info/requires.txt
2026-06-20T01:53:31,146   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-20T01:53:31,180   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:31,189   reading manifest template 'MANIFEST.in'
2026-06-20T01:53:31,190   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-20T01:53:31,191   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-20T01:53:31,193   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-20T01:53:31,194   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-20T01:53:31,195   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-20T01:53:31,196   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-20T01:53:31,197   adding license file 'LICENSE'
2026-06-20T01:53:31,204   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:31,302   Getting requirements to build wheel: finished with status 'done'
2026-06-20T01:53:31,306   Created temporary directory: /tmp/pip-modern-metadata-eq4asdeu
2026-06-20T01:53:31,308   Preparing metadata (pyproject.toml): started
2026-06-20T01:53:31,309   Running command Preparing metadata (pyproject.toml)
2026-06-20T01:53:31,953   running dist_info
2026-06-20T01:53:31,963   creating /tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info
2026-06-20T01:53:31,964   writing /tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/PKG-INFO
2026-06-20T01:53:31,970   writing dependency_links to /tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/dependency_links.txt
2026-06-20T01:53:31,971   writing entry points to /tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/entry_points.txt
2026-06-20T01:53:31,974   writing requirements to /tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/requires.txt
2026-06-20T01:53:31,975   writing top-level names to /tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/top_level.txt
2026-06-20T01:53:31,976   writing manifest file '/tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:32,009   reading manifest file '/tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:32,011   reading manifest template 'MANIFEST.in'
2026-06-20T01:53:32,012   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-20T01:53:32,013   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-20T01:53:32,014   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-20T01:53:32,015   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-20T01:53:32,016   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-20T01:53:32,017   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-20T01:53:32,018   adding license file 'LICENSE'
2026-06-20T01:53:32,024   writing manifest file '/tmp/pip-modern-metadata-eq4asdeu/oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:32,025   creating '/tmp/pip-modern-metadata-eq4asdeu/oncoref-1.8.0.dist-info'
2026-06-20T01:53:32,150   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-20T01:53:32,155   Source in /tmp/pip-wheel-aa_ub8w0/oncoref_c56b6b77fe6d461f937d957de045239b has version 1.8.0, which satisfies requirement oncoref==1.8.0 from https://files.pythonhosted.org/packages/10/a1/9b3e573b2e9ce5903eef398c68d06cd3d1425a88c87c3f5d8dbe79cbfb3c/oncoref-1.8.0.tar.gz
2026-06-20T01:53:32,156   Removed oncoref==1.8.0 from https://files.pythonhosted.org/packages/10/a1/9b3e573b2e9ce5903eef398c68d06cd3d1425a88c87c3f5d8dbe79cbfb3c/oncoref-1.8.0.tar.gz from build tracker '/tmp/pip-build-tracker-tkrutd3l'
2026-06-20T01:53:32,162 Created temporary directory: /tmp/pip-unpack-o_l3636l
2026-06-20T01:53:32,163 Building wheels for collected packages: oncoref
2026-06-20T01:53:32,167   Created temporary directory: /tmp/pip-wheel-dd7bwuak
2026-06-20T01:53:32,167   Destination directory: /tmp/pip-wheel-dd7bwuak
2026-06-20T01:53:32,169   Building wheel for oncoref (pyproject.toml): started
2026-06-20T01:53:32,171   Running command Building wheel for oncoref (pyproject.toml)
2026-06-20T01:53:32,786   running bdist_wheel
2026-06-20T01:53:32,803   running build
2026-06-20T01:53:32,804   running build_py
2026-06-20T01:53:32,810   creating build/lib/oncoref
2026-06-20T01:53:32,812   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-20T01:53:32,815   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-20T01:53:32,817   copying oncoref/version.py -> build/lib/oncoref
2026-06-20T01:53:32,819   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-20T01:53:32,821   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-20T01:53:32,823   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-20T01:53:32,825   copying oncoref/cta.py -> build/lib/oncoref
2026-06-20T01:53:32,828   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-20T01:53:32,830   copying oncoref/ici.py -> build/lib/oncoref
2026-06-20T01:53:32,832   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-20T01:53:32,835   copying oncoref/cli.py -> build/lib/oncoref
2026-06-20T01:53:32,837   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-20T01:53:32,839   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-20T01:53:32,842   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-20T01:53:32,844   copying oncoref/expression.py -> build/lib/oncoref
2026-06-20T01:53:32,847   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-20T01:53:32,850   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-20T01:53:32,852   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-20T01:53:32,854   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-20T01:53:32,857   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-20T01:53:32,859   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-20T01:53:32,862   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-20T01:53:32,864   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-20T01:53:32,866   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-20T01:53:32,869   copying oncoref/genome.py -> build/lib/oncoref
2026-06-20T01:53:32,871   copying oncoref/samples.py -> build/lib/oncoref
2026-06-20T01:53:32,873   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-20T01:53:32,875   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-20T01:53:32,877   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-20T01:53:32,879   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-20T01:53:32,881   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-20T01:53:32,883   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-20T01:53:32,885   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-20T01:53:32,888   copying oncoref/plots.py -> build/lib/oncoref
2026-06-20T01:53:32,891   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-20T01:53:32,893   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-20T01:53:32,907   creating build/lib/oncoref/data
2026-06-20T01:53:32,908   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,911   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,913   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,915   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,917   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,920   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,922   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,924   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,926   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,929   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,932   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,934   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,937   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,939   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,941   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,944   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,946   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,951   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,954   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,957   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,962   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,965   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,967   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,970   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,974   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,977   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,979   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,985   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,987   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,990   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-20T01:53:32,998   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,000   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,003   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,005   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,007   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,010   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,012   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,014   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,016   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,018   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,021   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,024   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,026   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,028   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,031   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,034   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,036   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,038   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,041   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,045   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,047   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-20T01:53:33,050   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-20T01:53:33,061   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-20T01:53:33,067   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-20T01:53:33,077   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-20T01:53:33,091   installing to build/bdist.linux-armv7l/wheel
2026-06-20T01:53:33,092   running install
2026-06-20T01:53:33,115   running install_lib
2026-06-20T01:53:33,121   creating build/bdist.linux-armv7l/wheel
2026-06-20T01:53:33,124   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-20T01:53:33,125   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,128   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,131   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,133   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,136   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,138   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,141   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,143   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,146   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,150   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-20T01:53:33,151   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,154   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,157   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,159   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,161   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,164   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,166   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,168   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,170   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,173   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,177   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,179   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,182   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,185   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,198   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,201   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,203   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,205   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,211   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,214   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,218   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,221   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,227   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,229   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,232   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,235   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,240   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,242   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,244   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,250   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,251   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,253   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,260   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,262   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,264   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,266   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,268   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,270   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,272   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,274   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,276   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,278   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,280   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,282   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,285   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,286   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,288   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,291   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,293   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,299   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,301   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,302   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,307   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,308   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,311   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-20T01:53:33,320   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,322   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,325   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,327   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,330   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,332   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,335   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,338   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,340   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,342   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,345   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,347   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,349   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,352   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,354   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,357   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,359   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,361   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,364   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,366   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,368   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,370   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,373   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,375   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,377   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,380   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,382   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-20T01:53:33,385   running install_egg_info
2026-06-20T01:53:33,394   running egg_info
2026-06-20T01:53:33,399   writing oncoref.egg-info/PKG-INFO
2026-06-20T01:53:33,404   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-20T01:53:33,406   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-20T01:53:33,409   writing requirements to oncoref.egg-info/requires.txt
2026-06-20T01:53:33,410   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-20T01:53:33,429   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:33,437   reading manifest template 'MANIFEST.in'
2026-06-20T01:53:33,439   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-20T01:53:33,441   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-20T01:53:33,443   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-20T01:53:33,444   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-20T01:53:33,446   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-20T01:53:33,447   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-20T01:53:33,448   adding license file 'LICENSE'
2026-06-20T01:53:33,456   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-20T01:53:33,458   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.0-py3.11.egg-info
2026-06-20T01:53:33,471   running install_scripts
2026-06-20T01:53:33,483   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.0.dist-info/WHEEL
2026-06-20T01:53:33,486   creating '/tmp/pip-wheel-dd7bwuak/.tmp-4nh998n4/oncoref-1.8.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-20T01:53:33,490   adding 'oncoref/__init__.py'
2026-06-20T01:53:33,492   adding 'oncoref/apd1.py'
2026-06-20T01:53:33,494   adding 'oncoref/cancer_genes.py'
2026-06-20T01:53:33,499   adding 'oncoref/cancer_types.py'
2026-06-20T01:53:33,502   adding 'oncoref/catalog.py'
2026-06-20T01:53:33,506   adding 'oncoref/cli.py'
2026-06-20T01:53:33,510   adding 'oncoref/coverage.py'
2026-06-20T01:53:33,513   adding 'oncoref/cta.py'
2026-06-20T01:53:33,515   adding 'oncoref/cta_curation_plots.py'
2026-06-20T01:53:33,518   adding 'oncoref/cta_regen.py'
2026-06-20T01:53:33,521   adding 'oncoref/cta_tissues.py'
2026-06-20T01:53:33,523   adding 'oncoref/data_bundle.py'
2026-06-20T01:53:33,526   adding 'oncoref/data_manifest.py'
2026-06-20T01:53:33,534   adding 'oncoref/expression.py'
2026-06-20T01:53:33,537   adding 'oncoref/expression_builders.py'
2026-06-20T01:53:33,540   adding 'oncoref/expression_engine.py'
2026-06-20T01:53:33,542   adding 'oncoref/expression_registry.py'
2026-06-20T01:53:33,544   adding 'oncoref/fusions.py'
2026-06-20T01:53:33,546   adding 'oncoref/gene_families.py'
2026-06-20T01:53:33,548   adding 'oncoref/gene_ids.py'
2026-06-20T01:53:33,550   adding 'oncoref/gene_qc.py'
2026-06-20T01:53:33,553   adding 'oncoref/genome.py'
2026-06-20T01:53:33,555   adding 'oncoref/hpa.py'
2026-06-20T01:53:33,558   adding 'oncoref/ici.py'
2026-06-20T01:53:33,561   adding 'oncoref/incidence.py'
2026-06-20T01:53:33,563   adding 'oncoref/load_dataset.py'
2026-06-20T01:53:33,567   adding 'oncoref/normalization.py'
2026-06-20T01:53:33,570   adding 'oncoref/peptides.py'
2026-06-20T01:53:33,576   adding 'oncoref/plots.py'
2026-06-20T01:53:33,579   adding 'oncoref/proteoforms.py'
2026-06-20T01:53:33,581   adding 'oncoref/reference_data.py'
2026-06-20T01:53:33,583   adding 'oncoref/response_signatures.py'
2026-06-20T01:53:33,584   adding 'oncoref/samples.py'
2026-06-20T01:53:33,586   adding 'oncoref/source_matrices.py'
2026-06-20T01:53:33,587   adding 'oncoref/tmb.py'
2026-06-20T01:53:33,588   adding 'oncoref/version.py'
2026-06-20T01:53:33,592   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-20T01:53:33,593   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-20T01:53:33,594   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-20T01:53:33,599   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-20T01:53:33,602   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-20T01:53:33,604   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-20T01:53:33,605   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-20T01:53:33,608   adding 'oncoref/data/cancer-fusions.csv'
2026-06-20T01:53:33,626   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-20T01:53:33,630   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-20T01:53:33,632   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-20T01:53:33,646   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-20T01:53:33,649   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-20T01:53:33,650   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-20T01:53:33,678   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-20T01:53:33,682   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-20T01:53:33,683   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-20T01:53:33,694   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-20T01:53:33,697   adding 'oncoref/data/cancer-tmb.csv'
2026-06-20T01:53:33,700   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-20T01:53:33,704   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-20T01:53:33,705   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-20T01:53:33,758   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-20T01:53:33,764   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-20T01:53:33,768   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-20T01:53:33,778   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-20T01:53:33,781   adding 'oncoref/data/cohort-registry.csv'
2026-06-20T01:53:33,782   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-20T01:53:33,783   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-20T01:53:33,785   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-20T01:53:33,786   adding 'oncoref/data/disease-state-rules.csv'
2026-06-20T01:53:33,813   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-20T01:53:33,820   adding 'oncoref/data/expression_sources.yaml'
2026-06-20T01:53:33,822   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-20T01:53:33,823   adding 'oncoref/data/family-burden-map.csv'
2026-06-20T01:53:33,824   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-20T01:53:33,826   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-20T01:53:33,827   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-20T01:53:33,828   adding 'oncoref/data/histone-genes.csv'
2026-06-20T01:53:33,830   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-20T01:53:33,831   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-20T01:53:33,832   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-20T01:53:33,873   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-20T01:53:33,877   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-20T01:53:33,879   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-20T01:53:33,880   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-20T01:53:33,883   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-20T01:53:33,884   adding 'oncoref/data/proteoform-groups.csv'
2026-06-20T01:53:33,886   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-20T01:53:33,887   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-20T01:53:33,894   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-20T01:53:33,896   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-20T01:53:33,915   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-20T01:53:33,917   adding 'oncoref/data/source-matrices.csv'
2026-06-20T01:53:33,919   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-20T01:53:33,922   adding 'oncoref-1.8.0.dist-info/licenses/LICENSE'
2026-06-20T01:53:33,924   adding 'oncoref-1.8.0.dist-info/METADATA'
2026-06-20T01:53:33,925   adding 'oncoref-1.8.0.dist-info/WHEEL'
2026-06-20T01:53:33,926   adding 'oncoref-1.8.0.dist-info/entry_points.txt'
2026-06-20T01:53:33,926   adding 'oncoref-1.8.0.dist-info/top_level.txt'
2026-06-20T01:53:33,928   adding 'oncoref-1.8.0.dist-info/RECORD'
2026-06-20T01:53:33,948   removing build/bdist.linux-armv7l/wheel
2026-06-20T01:53:34,066   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-20T01:53:34,119   Created wheel for oncoref: filename=oncoref-1.8.0-py3-none-any.whl size=1634862 sha256=6f9be6d1511d7e84166b02f2cd219b977025db68916073cb4bd1ebdfc8919914
2026-06-20T01:53:34,120   Stored in directory: /tmp/pip-ephem-wheel-cache-j4h3w5x7/wheels/f6/c9/3b/f367866b9ecb6292b92cafcb5906cb3ce1bf6831b2c7c1fadc
2026-06-20T01:53:34,135 Successfully built oncoref
2026-06-20T01:53:34,188 Removed build tracker: '/tmp/pip-build-tracker-tkrutd3l'