2026-06-25T17:22:11,920 Created temporary directory: /tmp/pip-ephem-wheel-cache-encyqtdl
2026-06-25T17:22:11,922 Created temporary directory: /tmp/pip-build-tracker-950oemra
2026-06-25T17:22:11,923 Initialized build tracking at /tmp/pip-build-tracker-950oemra
2026-06-25T17:22:11,923 Created build tracker: /tmp/pip-build-tracker-950oemra
2026-06-25T17:22:11,924 Entered build tracker: /tmp/pip-build-tracker-950oemra
2026-06-25T17:22:11,925 Created temporary directory: /tmp/pip-wheel-m20df0ih
2026-06-25T17:22:11,928 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
2026-06-25T17:22:11,930 Created temporary directory: /tmp/pip-ephem-wheel-cache-f8n6rc_s
2026-06-25T17:22:11,952 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-25T17:22:11,955 2 location(s) to search for versions of oncoref:
2026-06-25T17:22:11,955 * https://pypi.org/simple/oncoref/
2026-06-25T17:22:11,955 * https://www.piwheels.org/simple/oncoref/
2026-06-25T17:22:11,956 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-25T17:22:11,957 Getting page https://pypi.org/simple/oncoref/
2026-06-25T17:22:11,958 Found index url https://pypi.org/simple
2026-06-25T17:22:12,189 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-25T17:22:12,194   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)
2026-06-25T17:22:12,195   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
2026-06-25T17:22:12,196   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)
2026-06-25T17:22:12,197   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
2026-06-25T17:22:12,198   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)
2026-06-25T17:22:12,199   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
2026-06-25T17:22:12,200   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/56/b4/103c9511736de31d6182b47aaf4f03da47c52933be96ea7a060ad7478ae3/oncoref-1.8.1-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,201   Found link https://files.pythonhosted.org/packages/21/3e/8080dbac7eaa58029775dd4937cb7dc70d1e65b52e358ccb75b5dd8ed63e/oncoref-1.8.1.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.1
2026-06-25T17:22:12,201   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/02/4f/03495de60734a5fb8a50476fd036af4b0262949e609827f759349cc1ff6b/oncoref-1.8.2-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,202   Found link https://files.pythonhosted.org/packages/e6/18/5ee9311af10f46d71490d6563884c80cb170f106e31164d3a2cf7e47d1e8/oncoref-1.8.2.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.2
2026-06-25T17:22:12,203   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/9b/4f/60a3e4e56d57a916f462597f08c5c4915e19cb97fc1cd0b85c110e41659e/oncoref-1.8.3-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,204   Found link https://files.pythonhosted.org/packages/e7/7d/22a2797b33413bfe0f46708f396b9b1f9ad9dbc253d94fcbeb6ccf9ad5ff/oncoref-1.8.3.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.3
2026-06-25T17:22:12,205   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/ca/bb/0981e424fd20641c70c1607dc7e707ff53036f90e7482b18ef4f2b100bba/oncoref-1.8.4-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,206   Found link https://files.pythonhosted.org/packages/da/8f/e45e879798fcad2b21996a64d69c0034e947ca8c07b2668b484580bcccd2/oncoref-1.8.4.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.4
2026-06-25T17:22:12,206   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/b8/72/7cb35a084c989d648fc0ef20be3c0b9d888092e0e13aabc75710797dfbbd/oncoref-1.8.5-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,207   Found link https://files.pythonhosted.org/packages/0a/e2/de65c5e1582fe009b3f640e94e6ecd5cf2f139d490750374cdad3af0e14c/oncoref-1.8.5.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.5
2026-06-25T17:22:12,208   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/71/92/3cd4d589831ccb90b12732347718e54d84097a6c780ced1810f52e3b302a/oncoref-1.8.6-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,209   Found link https://files.pythonhosted.org/packages/fe/29/0640ff92bcb51841b69a4d04ccf94a5173a18ee10c54786b959026ca4362/oncoref-1.8.6.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.6
2026-06-25T17:22:12,210   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/f2/29/f869b37c956b8836b9c9b45e89ab7dad98a93270e6bd395b45a7ca5657ad/oncoref-1.8.7-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,211   Found link https://files.pythonhosted.org/packages/62/2d/434129dfb4157eb2bf8c4f89ff3f5c74e65b2a62e619fcd1154388d70aa4/oncoref-1.8.7.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.7
2026-06-25T17:22:12,211   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/06/89/59174cc23b5ca908c5eed6c89f147d28265749466c702e7c45a91004c4d2/oncoref-1.8.8-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,212   Found link https://files.pythonhosted.org/packages/f4/fd/e8f16e540188ecdfa8d331e209374ed0c47ef44e27eae34fc4a262b6e49a/oncoref-1.8.8.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.8
2026-06-25T17:22:12,213   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/21/11/175fa74783a3e4662792af69e82e51a7a991e710858efaeb92a8695d8fda/oncoref-1.8.9-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,214   Found link https://files.pythonhosted.org/packages/9f/cb/7d81ce8e2dab2710860db8ae18d8f1c3a34052d74f01459afa76de5af686/oncoref-1.8.9.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.9
2026-06-25T17:22:12,215 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-25T17:22:12,216 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-25T17:22:12,217 Found index url https://www.piwheels.org/simple
2026-06-25T17:22:12,407 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-25T17:22:12,412   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.8-py3-none-any.whl#sha256=f1b7351039ce534abc9d36a03b53fd9479b1629b4a6fd8698bc500162f1cd362 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,412   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.7-py3-none-any.whl#sha256=84f80af8afa25d02579e67983b74fd2e515df1ce6d0cb602ecb6808e994f8f63 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,413   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.6-py3-none-any.whl#sha256=460f281fc846e410a5992e3a87193febdfac8bf81f3e5497a5e5d72ae58176bf (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,413   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.5-py3-none-any.whl#sha256=cfedb20aa2c2593dfb010bc01a13d5b6c732ec5cf013fd70b65c71d1adb71f7e (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,414   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.4-py3-none-any.whl#sha256=d649c7a749c099fe67033ecbdbafe4bf8bcd93bd71d9830ce2a6127a1c093cad (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,414   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.3-py3-none-any.whl#sha256=bf75676ac99a0d1c144249b8cf320ac292b65716c9ffdc50ad27b55db1153821 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,415   Skipping link: No binaries permitted for oncoref: https://archive1.piwheels.org/simple/oncoref/oncoref-1.8.2-py3-none-any.whl#sha256=9f47ca1a637e6255fbf29fd252834c85e5d19238a980add71843cd860b39777e (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,415   Skipping link: No binaries permitted for oncoref: https://archive1.piwheels.org/simple/oncoref/oncoref-1.8.1-py3-none-any.whl#sha256=12f0eb28c115080796010095a4032b844d9ea4383bc0ea2e2b75a3e5f21c9392 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,416   Skipping link: No binaries permitted for oncoref: https://archive1.piwheels.org/simple/oncoref/oncoref-1.8.0-py3-none-any.whl#sha256=6f9be6d1511d7e84166b02f2cd219b977025db68916073cb4bd1ebdfc8919914 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-25T17:22:12,417   Skipping link: No binaries permitted for oncoref: https://archive1.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)
2026-06-25T17:22:12,417   Skipping link: No binaries permitted for oncoref: https://archive1.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)
2026-06-25T17:22:12,418 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-25T17:22:12,419 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-25T17:22:12,438 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-25T17:22:12,456 Collecting oncoref==1.8.9
2026-06-25T17:22:12,459   Created temporary directory: /tmp/pip-unpack-8eiu6h55
2026-06-25T17:22:12,691   Downloading oncoref-1.8.9.tar.gz (1.7 MB)
2026-06-25T17:22:13,384   Added oncoref==1.8.9 from https://files.pythonhosted.org/packages/9f/cb/7d81ce8e2dab2710860db8ae18d8f1c3a34052d74f01459afa76de5af686/oncoref-1.8.9.tar.gz to build tracker '/tmp/pip-build-tracker-950oemra'
2026-06-25T17:22:13,391   Created temporary directory: /tmp/pip-build-env-40pokmsf
2026-06-25T17:22:13,396   Installing build dependencies: started
2026-06-25T17:22:13,397   Running command pip subprocess to install build dependencies
2026-06-25T17:22:14,525   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-25T17:22:14,999   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
2026-06-25T17:22:15,022   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-25T17:22:16,820   Collecting setuptools>=61.0
2026-06-25T17:22:16,821     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-25T17:22:16,838     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-25T17:22:17,071   Collecting wheel
2026-06-25T17:22:17,073     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-25T17:22:17,087     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-25T17:22:17,268   Collecting packaging>=24.0
2026-06-25T17:22:17,269     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-25T17:22:17,283     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-25T17:22:17,471   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-25T17:22:17,491   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-25T17:22:17,593   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-25T17:22:17,633   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-25T17:22:17,658   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-25T17:22:17,776   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-25T17:22:20,512   Installing collected packages: setuptools, packaging, wheel
2026-06-25T17:22:23,988     Creating /tmp/pip-build-env-40pokmsf/overlay/local/bin
2026-06-25T17:22:23,990     changing mode of /tmp/pip-build-env-40pokmsf/overlay/local/bin/wheel to 755
2026-06-25T17:22:24,010   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-25T17:22:24,294   Installing build dependencies: finished with status 'done'
2026-06-25T17:22:24,300   Getting requirements to build wheel: started
2026-06-25T17:22:24,302   Running command Getting requirements to build wheel
2026-06-25T17:22:24,991   running egg_info
2026-06-25T17:22:24,997   writing oncoref.egg-info/PKG-INFO
2026-06-25T17:22:25,003   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-25T17:22:25,005   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-25T17:22:25,007   writing requirements to oncoref.egg-info/requires.txt
2026-06-25T17:22:25,009   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-25T17:22:25,043   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:25,052   reading manifest template 'MANIFEST.in'
2026-06-25T17:22:25,054   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-25T17:22:25,055   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-25T17:22:25,057   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-25T17:22:25,058   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-25T17:22:25,059   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-25T17:22:25,060   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-25T17:22:25,061   adding license file 'LICENSE'
2026-06-25T17:22:25,069   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:25,166   Getting requirements to build wheel: finished with status 'done'
2026-06-25T17:22:25,170   Created temporary directory: /tmp/pip-modern-metadata-coztjaho
2026-06-25T17:22:25,172   Preparing metadata (pyproject.toml): started
2026-06-25T17:22:25,173   Running command Preparing metadata (pyproject.toml)
2026-06-25T17:22:25,829   running dist_info
2026-06-25T17:22:25,839   creating /tmp/pip-modern-metadata-coztjaho/oncoref.egg-info
2026-06-25T17:22:25,840   writing /tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/PKG-INFO
2026-06-25T17:22:25,846   writing dependency_links to /tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/dependency_links.txt
2026-06-25T17:22:25,848   writing entry points to /tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/entry_points.txt
2026-06-25T17:22:25,851   writing requirements to /tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/requires.txt
2026-06-25T17:22:25,852   writing top-level names to /tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/top_level.txt
2026-06-25T17:22:25,853   writing manifest file '/tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:25,885   reading manifest file '/tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:25,887   reading manifest template 'MANIFEST.in'
2026-06-25T17:22:25,889   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-25T17:22:25,890   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-25T17:22:25,891   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-25T17:22:25,892   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-25T17:22:25,893   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-25T17:22:25,893   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-25T17:22:25,894   adding license file 'LICENSE'
2026-06-25T17:22:25,900   writing manifest file '/tmp/pip-modern-metadata-coztjaho/oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:25,902   creating '/tmp/pip-modern-metadata-coztjaho/oncoref-1.8.9.dist-info'
2026-06-25T17:22:26,028   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-25T17:22:26,033   Source in /tmp/pip-wheel-m20df0ih/oncoref_7c6626a940144d6ca7453c1a5c4ebdaf has version 1.8.9, which satisfies requirement oncoref==1.8.9 from https://files.pythonhosted.org/packages/9f/cb/7d81ce8e2dab2710860db8ae18d8f1c3a34052d74f01459afa76de5af686/oncoref-1.8.9.tar.gz
2026-06-25T17:22:26,034   Removed oncoref==1.8.9 from https://files.pythonhosted.org/packages/9f/cb/7d81ce8e2dab2710860db8ae18d8f1c3a34052d74f01459afa76de5af686/oncoref-1.8.9.tar.gz from build tracker '/tmp/pip-build-tracker-950oemra'
2026-06-25T17:22:26,040 Created temporary directory: /tmp/pip-unpack-f8t6t7k4
2026-06-25T17:22:26,041 Building wheels for collected packages: oncoref
2026-06-25T17:22:26,045   Created temporary directory: /tmp/pip-wheel-etg_q5re
2026-06-25T17:22:26,046   Destination directory: /tmp/pip-wheel-etg_q5re
2026-06-25T17:22:26,048   Building wheel for oncoref (pyproject.toml): started
2026-06-25T17:22:26,050   Running command Building wheel for oncoref (pyproject.toml)
2026-06-25T17:22:26,670   running bdist_wheel
2026-06-25T17:22:26,687   running build
2026-06-25T17:22:26,688   running build_py
2026-06-25T17:22:26,695   creating build/lib/oncoref
2026-06-25T17:22:26,697   copying oncoref/antigen_coverage.py -> build/lib/oncoref
2026-06-25T17:22:26,699   copying oncoref/samples.py -> build/lib/oncoref
2026-06-25T17:22:26,701   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-25T17:22:26,704   copying oncoref/plots.py -> build/lib/oncoref
2026-06-25T17:22:26,707   copying oncoref/genome.py -> build/lib/oncoref
2026-06-25T17:22:26,709   copying oncoref/ici_response.py -> build/lib/oncoref
2026-06-25T17:22:26,711   copying oncoref/version.py -> build/lib/oncoref
2026-06-25T17:22:26,713   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-25T17:22:26,715   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-25T17:22:26,718   copying oncoref/ici.py -> build/lib/oncoref
2026-06-25T17:22:26,721   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-25T17:22:26,723   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-25T17:22:26,725   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-25T17:22:26,727   copying oncoref/expression.py -> build/lib/oncoref
2026-06-25T17:22:26,730   copying oncoref/cta.py -> build/lib/oncoref
2026-06-25T17:22:26,733   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-25T17:22:26,735   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-25T17:22:26,737   copying oncoref/cohorts.py -> build/lib/oncoref
2026-06-25T17:22:26,739   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-25T17:22:26,742   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-25T17:22:26,744   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-25T17:22:26,746   copying oncoref/cli.py -> build/lib/oncoref
2026-06-25T17:22:26,749   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-25T17:22:26,751   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-25T17:22:26,754   copying oncoref/cta_peptides.py -> build/lib/oncoref
2026-06-25T17:22:26,755   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-25T17:22:26,758   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-25T17:22:26,760   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-25T17:22:26,762   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-25T17:22:26,765   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-25T17:22:26,767   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-25T17:22:26,769   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-25T17:22:26,772   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-25T17:22:26,774   copying oncoref/cancer_ontology.py -> build/lib/oncoref
2026-06-25T17:22:26,776   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-25T17:22:26,778   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-25T17:22:26,780   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-25T17:22:26,783   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-25T17:22:26,786   copying oncoref/cta_coverage.py -> build/lib/oncoref
2026-06-25T17:22:26,788   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-25T17:22:26,790   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-25T17:22:26,793   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-25T17:22:26,807   creating build/lib/oncoref/data
2026-06-25T17:22:26,809   copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,812   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,816   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,818   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,820   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,823   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,826   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,829   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,832   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,835   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,837   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,842   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,845   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,847   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,849   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,851   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,854   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,856   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,859   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,863   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,865   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,868   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,871   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,873   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,879   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,882   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,884   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,886   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,889   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,891   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,894   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,905   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,908   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,910   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,914   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,916   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,918   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,924   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,926   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,929   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,932   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,935   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,937   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,940   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,942   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,944   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,947   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,950   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,953   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,956   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,959   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,962   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-25T17:22:26,964   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-25T17:22:26,974   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-25T17:22:26,991   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-25T17:22:26,999   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-25T17:22:27,014   installing to build/bdist.linux-armv7l/wheel
2026-06-25T17:22:27,014   running install
2026-06-25T17:22:27,037   running install_lib
2026-06-25T17:22:27,043   creating build/bdist.linux-armv7l/wheel
2026-06-25T17:22:27,045   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-25T17:22:27,047   copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,049   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,051   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,053   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,057   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,059   copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,061   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,063   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,065   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,069   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,072   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,074   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,076   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,078   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,082   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,085   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,087   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,089   copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,091   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,094   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,096   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,099   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,101   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,104   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,106   copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,108   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,111   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,113   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,116   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,118   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,120   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,123   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,125   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,128   copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,130   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,132   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,134   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,137   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,139   copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,141   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,143   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,146   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-25T17:22:27,150   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-25T17:22:27,151   copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,154   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,158   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,160   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,162   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,165   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,167   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,177   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,179   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,182   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,185   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,187   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,192   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,195   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,197   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,208   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,210   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,213   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,214   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,217   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,219   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,224   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,226   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,229   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,231   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,234   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,243   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,246   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,248   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,251   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,255   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,258   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,260   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,263   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,277   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,279   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,282   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,285   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,287   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,290   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,298   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,300   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,304   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,306   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,309   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,312   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,314   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,316   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,318   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,321   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,330   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,333   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,336   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,339   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,341   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,344   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-25T17:22:27,346   running install_egg_info
2026-06-25T17:22:27,356   running egg_info
2026-06-25T17:22:27,362   writing oncoref.egg-info/PKG-INFO
2026-06-25T17:22:27,367   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-25T17:22:27,369   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-25T17:22:27,372   writing requirements to oncoref.egg-info/requires.txt
2026-06-25T17:22:27,373   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-25T17:22:27,393   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:27,402   reading manifest template 'MANIFEST.in'
2026-06-25T17:22:27,404   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-25T17:22:27,406   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-25T17:22:27,407   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-25T17:22:27,409   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-25T17:22:27,411   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-25T17:22:27,412   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-25T17:22:27,413   adding license file 'LICENSE'
2026-06-25T17:22:27,421   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-25T17:22:27,424   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.9-py3.11.egg-info
2026-06-25T17:22:27,436   running install_scripts
2026-06-25T17:22:27,449   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.9.dist-info/WHEEL
2026-06-25T17:22:27,452   creating '/tmp/pip-wheel-etg_q5re/.tmp-euzd5khb/oncoref-1.8.9-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-25T17:22:27,456   adding 'oncoref/__init__.py'
2026-06-25T17:22:27,458   adding 'oncoref/antigen_coverage.py'
2026-06-25T17:22:27,460   adding 'oncoref/apd1.py'
2026-06-25T17:22:27,463   adding 'oncoref/cancer_genes.py'
2026-06-25T17:22:27,464   adding 'oncoref/cancer_ontology.py'
2026-06-25T17:22:27,469   adding 'oncoref/cancer_types.py'
2026-06-25T17:22:27,472   adding 'oncoref/catalog.py'
2026-06-25T17:22:27,476   adding 'oncoref/cli.py'
2026-06-25T17:22:27,478   adding 'oncoref/cohorts.py'
2026-06-25T17:22:27,481   adding 'oncoref/coverage.py'
2026-06-25T17:22:27,485   adding 'oncoref/cta.py'
2026-06-25T17:22:27,487   adding 'oncoref/cta_coverage.py'
2026-06-25T17:22:27,489   adding 'oncoref/cta_curation_plots.py'
2026-06-25T17:22:27,491   adding 'oncoref/cta_peptides.py'
2026-06-25T17:22:27,494   adding 'oncoref/cta_regen.py'
2026-06-25T17:22:27,496   adding 'oncoref/cta_tissues.py'
2026-06-25T17:22:27,499   adding 'oncoref/data_bundle.py'
2026-06-25T17:22:27,501   adding 'oncoref/data_manifest.py'
2026-06-25T17:22:27,510   adding 'oncoref/expression.py'
2026-06-25T17:22:27,513   adding 'oncoref/expression_builders.py'
2026-06-25T17:22:27,516   adding 'oncoref/expression_engine.py'
2026-06-25T17:22:27,517   adding 'oncoref/expression_registry.py'
2026-06-25T17:22:27,520   adding 'oncoref/fusions.py'
2026-06-25T17:22:27,522   adding 'oncoref/gene_families.py'
2026-06-25T17:22:27,525   adding 'oncoref/gene_ids.py'
2026-06-25T17:22:27,527   adding 'oncoref/gene_qc.py'
2026-06-25T17:22:27,529   adding 'oncoref/genome.py'
2026-06-25T17:22:27,531   adding 'oncoref/hpa.py'
2026-06-25T17:22:27,535   adding 'oncoref/ici.py'
2026-06-25T17:22:27,537   adding 'oncoref/ici_response.py'
2026-06-25T17:22:27,540   adding 'oncoref/incidence.py'
2026-06-25T17:22:27,542   adding 'oncoref/load_dataset.py'
2026-06-25T17:22:27,546   adding 'oncoref/normalization.py'
2026-06-25T17:22:27,548   adding 'oncoref/peptides.py'
2026-06-25T17:22:27,556   adding 'oncoref/plots.py'
2026-06-25T17:22:27,559   adding 'oncoref/proteoforms.py'
2026-06-25T17:22:27,562   adding 'oncoref/reference_data.py'
2026-06-25T17:22:27,563   adding 'oncoref/response_signatures.py'
2026-06-25T17:22:27,565   adding 'oncoref/samples.py'
2026-06-25T17:22:27,567   adding 'oncoref/source_matrices.py'
2026-06-25T17:22:27,569   adding 'oncoref/tmb.py'
2026-06-25T17:22:27,570   adding 'oncoref/version.py'
2026-06-25T17:22:27,574   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-25T17:22:27,576   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-25T17:22:27,578   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-25T17:22:27,583   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-25T17:22:27,586   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-25T17:22:27,589   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-25T17:22:27,590   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-25T17:22:27,594   adding 'oncoref/data/cancer-fusions.csv'
2026-06-25T17:22:27,612   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-25T17:22:27,616   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-25T17:22:27,618   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-25T17:22:27,633   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-25T17:22:27,635   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-25T17:22:27,637   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-25T17:22:27,666   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-25T17:22:27,669   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-25T17:22:27,671   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-25T17:22:27,683   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-25T17:22:27,686   adding 'oncoref/data/cancer-tmb.csv'
2026-06-25T17:22:27,689   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-25T17:22:27,693   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-25T17:22:27,695   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-25T17:22:27,748   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-25T17:22:27,754   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-25T17:22:27,758   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-25T17:22:27,760   adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv'
2026-06-25T17:22:27,771   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-25T17:22:27,774   adding 'oncoref/data/cohort-registry.csv'
2026-06-25T17:22:27,776   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-25T17:22:27,777   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-25T17:22:27,779   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-25T17:22:27,781   adding 'oncoref/data/disease-state-rules.csv'
2026-06-25T17:22:27,808   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-25T17:22:27,815   adding 'oncoref/data/expression_sources.yaml'
2026-06-25T17:22:27,817   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-25T17:22:27,819   adding 'oncoref/data/family-burden-map.csv'
2026-06-25T17:22:27,820   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-25T17:22:27,822   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-25T17:22:27,823   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-25T17:22:27,825   adding 'oncoref/data/histone-genes.csv'
2026-06-25T17:22:27,826   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-25T17:22:27,827   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-25T17:22:27,828   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-25T17:22:27,869   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-25T17:22:27,872   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-25T17:22:27,874   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-25T17:22:27,875   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-25T17:22:27,878   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-25T17:22:27,879   adding 'oncoref/data/proteoform-groups.csv'
2026-06-25T17:22:27,881   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-25T17:22:27,882   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-25T17:22:27,889   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-25T17:22:27,891   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-25T17:22:27,910   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-25T17:22:27,912   adding 'oncoref/data/source-matrices.csv'
2026-06-25T17:22:27,914   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-25T17:22:27,917   adding 'oncoref-1.8.9.dist-info/licenses/LICENSE'
2026-06-25T17:22:27,919   adding 'oncoref-1.8.9.dist-info/METADATA'
2026-06-25T17:22:27,920   adding 'oncoref-1.8.9.dist-info/WHEEL'
2026-06-25T17:22:27,921   adding 'oncoref-1.8.9.dist-info/entry_points.txt'
2026-06-25T17:22:27,922   adding 'oncoref-1.8.9.dist-info/top_level.txt'
2026-06-25T17:22:27,924   adding 'oncoref-1.8.9.dist-info/RECORD'
2026-06-25T17:22:27,942   removing build/bdist.linux-armv7l/wheel
2026-06-25T17:22:28,061   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-25T17:22:28,098   Created wheel for oncoref: filename=oncoref-1.8.9-py3-none-any.whl size=1655430 sha256=2415de57054126a885d64b626bbb12657ce55d0791a686b7aba85fd8b784d399
2026-06-25T17:22:28,099   Stored in directory: /tmp/pip-ephem-wheel-cache-f8n6rc_s/wheels/d6/49/88/f125c04a76efcc5a5e3dc03b47c8ad91a275e709e5cba51a1a
2026-06-25T17:22:28,115 Successfully built oncoref
2026-06-25T17:22:28,158 Removed build tracker: '/tmp/pip-build-tracker-950oemra'