2026-06-24T22:17:57,265 Created temporary directory: /tmp/pip-ephem-wheel-cache-dslzqky4
2026-06-24T22:17:57,266 Created temporary directory: /tmp/pip-build-tracker-kdxlmai_
2026-06-24T22:17:57,267 Initialized build tracking at /tmp/pip-build-tracker-kdxlmai_
2026-06-24T22:17:57,267 Created build tracker: /tmp/pip-build-tracker-kdxlmai_
2026-06-24T22:17:57,268 Entered build tracker: /tmp/pip-build-tracker-kdxlmai_
2026-06-24T22:17:57,269 Created temporary directory: /tmp/pip-wheel-iv347uip
2026-06-24T22:17:57,272 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
2026-06-24T22:17:57,274 Created temporary directory: /tmp/pip-ephem-wheel-cache-sl6_wkvx
2026-06-24T22:17:57,298 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-24T22:17:57,301 2 location(s) to search for versions of oncoref:
2026-06-24T22:17:57,301 * https://pypi.org/simple/oncoref/
2026-06-24T22:17:57,301 * https://www.piwheels.org/simple/oncoref/
2026-06-24T22:17:57,302 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-24T22:17:57,303 Getting page https://pypi.org/simple/oncoref/
2026-06-24T22:17:57,304 Found index url https://pypi.org/simple
2026-06-24T22:17:57,535 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-24T22:17:57,540   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)
2026-06-24T22:17:57,541   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
2026-06-24T22:17:57,542   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)
2026-06-24T22:17:57,543   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
2026-06-24T22:17:57,543   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)
2026-06-24T22:17:57,544   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
2026-06-24T22:17:57,545   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)
2026-06-24T22:17:57,546   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
2026-06-24T22:17:57,547   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)
2026-06-24T22:17:57,548   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
2026-06-24T22:17:57,548   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)
2026-06-24T22:17:57,550   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
2026-06-24T22:17:57,550   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)
2026-06-24T22:17:57,551   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
2026-06-24T22:17:57,552   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)
2026-06-24T22:17:57,552   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
2026-06-24T22:17:57,553   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)
2026-06-24T22:17:57,554   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
2026-06-24T22:17:57,554   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)
2026-06-24T22:17:57,555   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
2026-06-24T22:17:57,556   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)
2026-06-24T22:17:57,557   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
2026-06-24T22:17:57,558 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-24T22:17:57,558 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-24T22:17:57,560 Found index url https://www.piwheels.org/simple
2026-06-24T22:17:57,764 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-24T22:17:57,768   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)
2026-06-24T22:17:57,769   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)
2026-06-24T22:17:57,770   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)
2026-06-24T22:17:57,771   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)
2026-06-24T22:17:57,771   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)
2026-06-24T22:17:57,772   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)
2026-06-24T22:17:57,772   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)
2026-06-24T22:17:57,773   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)
2026-06-24T22:17:57,773   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)
2026-06-24T22:17:57,773   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)
2026-06-24T22:17:57,774 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-24T22:17:57,775 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-24T22:17:57,794 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-24T22:17:57,812 Collecting oncoref==1.8.8
2026-06-24T22:17:57,814   Created temporary directory: /tmp/pip-unpack-j9sdboxw
2026-06-24T22:17:58,059   Downloading oncoref-1.8.8.tar.gz (1.7 MB)
2026-06-24T22:17:58,744   Added oncoref==1.8.8 from https://files.pythonhosted.org/packages/f4/fd/e8f16e540188ecdfa8d331e209374ed0c47ef44e27eae34fc4a262b6e49a/oncoref-1.8.8.tar.gz to build tracker '/tmp/pip-build-tracker-kdxlmai_'
2026-06-24T22:17:58,751   Created temporary directory: /tmp/pip-build-env-b4ir_mm_
2026-06-24T22:17:58,755   Installing build dependencies: started
2026-06-24T22:17:58,756   Running command pip subprocess to install build dependencies
2026-06-24T22:17:59,887   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-24T22:18:00,361   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
2026-06-24T22:18:00,384   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-24T22:18:02,195   Collecting setuptools>=61.0
2026-06-24T22:18:02,197     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-24T22:18:02,211     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-24T22:18:02,456   Collecting wheel
2026-06-24T22:18:02,457     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-24T22:18:02,470     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-24T22:18:02,673   Collecting packaging>=24.0
2026-06-24T22:18:02,674     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-24T22:18:02,688     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-24T22:18:02,879   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-24T22:18:02,899   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-24T22:18:02,976   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-24T22:18:03,007   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-24T22:18:03,034   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-24T22:18:03,133   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-24T22:18:05,872   Installing collected packages: setuptools, packaging, wheel
2026-06-24T22:18:09,276     Creating /tmp/pip-build-env-b4ir_mm_/overlay/local/bin
2026-06-24T22:18:09,278     changing mode of /tmp/pip-build-env-b4ir_mm_/overlay/local/bin/wheel to 755
2026-06-24T22:18:09,298   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-24T22:18:09,582   Installing build dependencies: finished with status 'done'
2026-06-24T22:18:09,588   Getting requirements to build wheel: started
2026-06-24T22:18:09,590   Running command Getting requirements to build wheel
2026-06-24T22:18:10,310   running egg_info
2026-06-24T22:18:10,316   writing oncoref.egg-info/PKG-INFO
2026-06-24T22:18:10,321   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-24T22:18:10,323   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-24T22:18:10,326   writing requirements to oncoref.egg-info/requires.txt
2026-06-24T22:18:10,327   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-24T22:18:10,361   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:10,371   reading manifest template 'MANIFEST.in'
2026-06-24T22:18:10,372   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-24T22:18:10,373   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-24T22:18:10,375   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-24T22:18:10,376   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-24T22:18:10,377   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-24T22:18:10,377   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-24T22:18:10,378   adding license file 'LICENSE'
2026-06-24T22:18:10,386   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:10,484   Getting requirements to build wheel: finished with status 'done'
2026-06-24T22:18:10,487   Created temporary directory: /tmp/pip-modern-metadata-b3yoemzq
2026-06-24T22:18:10,489   Preparing metadata (pyproject.toml): started
2026-06-24T22:18:10,491   Running command Preparing metadata (pyproject.toml)
2026-06-24T22:18:11,123   running dist_info
2026-06-24T22:18:11,133   creating /tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info
2026-06-24T22:18:11,134   writing /tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/PKG-INFO
2026-06-24T22:18:11,140   writing dependency_links to /tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/dependency_links.txt
2026-06-24T22:18:11,141   writing entry points to /tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/entry_points.txt
2026-06-24T22:18:11,144   writing requirements to /tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/requires.txt
2026-06-24T22:18:11,145   writing top-level names to /tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/top_level.txt
2026-06-24T22:18:11,146   writing manifest file '/tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:11,178   reading manifest file '/tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:11,180   reading manifest template 'MANIFEST.in'
2026-06-24T22:18:11,181   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-24T22:18:11,183   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-24T22:18:11,184   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-24T22:18:11,185   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-24T22:18:11,186   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-24T22:18:11,187   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-24T22:18:11,187   adding license file 'LICENSE'
2026-06-24T22:18:11,194   writing manifest file '/tmp/pip-modern-metadata-b3yoemzq/oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:11,195   creating '/tmp/pip-modern-metadata-b3yoemzq/oncoref-1.8.8.dist-info'
2026-06-24T22:18:11,320   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-24T22:18:11,325   Source in /tmp/pip-wheel-iv347uip/oncoref_5de52938a6fa4a819bf5f03da2c36c66 has version 1.8.8, which satisfies requirement oncoref==1.8.8 from https://files.pythonhosted.org/packages/f4/fd/e8f16e540188ecdfa8d331e209374ed0c47ef44e27eae34fc4a262b6e49a/oncoref-1.8.8.tar.gz
2026-06-24T22:18:11,326   Removed oncoref==1.8.8 from https://files.pythonhosted.org/packages/f4/fd/e8f16e540188ecdfa8d331e209374ed0c47ef44e27eae34fc4a262b6e49a/oncoref-1.8.8.tar.gz from build tracker '/tmp/pip-build-tracker-kdxlmai_'
2026-06-24T22:18:11,332 Created temporary directory: /tmp/pip-unpack-5jqoccic
2026-06-24T22:18:11,333 Building wheels for collected packages: oncoref
2026-06-24T22:18:11,337   Created temporary directory: /tmp/pip-wheel-rizc88y0
2026-06-24T22:18:11,337   Destination directory: /tmp/pip-wheel-rizc88y0
2026-06-24T22:18:11,340   Building wheel for oncoref (pyproject.toml): started
2026-06-24T22:18:11,341   Running command Building wheel for oncoref (pyproject.toml)
2026-06-24T22:18:11,952   running bdist_wheel
2026-06-24T22:18:11,969   running build
2026-06-24T22:18:11,969   running build_py
2026-06-24T22:18:11,976   creating build/lib/oncoref
2026-06-24T22:18:11,978   copying oncoref/antigen_coverage.py -> build/lib/oncoref
2026-06-24T22:18:11,980   copying oncoref/samples.py -> build/lib/oncoref
2026-06-24T22:18:11,982   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-24T22:18:11,985   copying oncoref/plots.py -> build/lib/oncoref
2026-06-24T22:18:11,988   copying oncoref/genome.py -> build/lib/oncoref
2026-06-24T22:18:11,991   copying oncoref/ici_response.py -> build/lib/oncoref
2026-06-24T22:18:11,993   copying oncoref/version.py -> build/lib/oncoref
2026-06-24T22:18:11,994   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-24T22:18:11,997   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-24T22:18:12,000   copying oncoref/ici.py -> build/lib/oncoref
2026-06-24T22:18:12,002   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-24T22:18:12,004   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-24T22:18:12,006   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-24T22:18:12,008   copying oncoref/expression.py -> build/lib/oncoref
2026-06-24T22:18:12,011   copying oncoref/cta.py -> build/lib/oncoref
2026-06-24T22:18:12,014   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-24T22:18:12,016   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-24T22:18:12,018   copying oncoref/cohorts.py -> build/lib/oncoref
2026-06-24T22:18:12,020   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-24T22:18:12,022   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-24T22:18:12,024   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-24T22:18:12,026   copying oncoref/cli.py -> build/lib/oncoref
2026-06-24T22:18:12,029   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-24T22:18:12,031   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-24T22:18:12,033   copying oncoref/cta_peptides.py -> build/lib/oncoref
2026-06-24T22:18:12,035   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-24T22:18:12,037   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-24T22:18:12,039   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-24T22:18:12,041   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-24T22:18:12,044   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-24T22:18:12,046   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-24T22:18:12,048   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-24T22:18:12,050   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-24T22:18:12,052   copying oncoref/cancer_ontology.py -> build/lib/oncoref
2026-06-24T22:18:12,054   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-24T22:18:12,056   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-24T22:18:12,058   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-24T22:18:12,060   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-24T22:18:12,063   copying oncoref/cta_coverage.py -> build/lib/oncoref
2026-06-24T22:18:12,065   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-24T22:18:12,067   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-24T22:18:12,070   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-24T22:18:12,084   creating build/lib/oncoref/data
2026-06-24T22:18:12,085   copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,088   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,093   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,095   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,097   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,100   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,102   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,105   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,108   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,111   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,113   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,118   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,121   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,124   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,126   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,128   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,130   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,133   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,136   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,140   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,142   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,145   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,147   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,149   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,155   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,157   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,159   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,162   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,164   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,167   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,170   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,178   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,180   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,182   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,185   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,187   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,189   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,195   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,197   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,200   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,202   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,204   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,207   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,209   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,211   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,213   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,216   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,219   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,222   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,225   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,227   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,230   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-24T22:18:12,232   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-24T22:18:12,238   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-24T22:18:12,252   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-24T22:18:12,263   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-24T22:18:12,277   installing to build/bdist.linux-armv7l/wheel
2026-06-24T22:18:12,277   running install
2026-06-24T22:18:12,300   running install_lib
2026-06-24T22:18:12,305   creating build/bdist.linux-armv7l/wheel
2026-06-24T22:18:12,308   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-24T22:18:12,309   copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,311   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,313   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,315   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,319   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,321   copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,323   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,325   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,327   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,330   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,333   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,335   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,337   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,339   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,342   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,344   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,347   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,349   copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,351   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,353   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,356   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,358   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,361   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,363   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,365   copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,367   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,370   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,372   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,374   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,377   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,379   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,381   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,384   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,386   copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,388   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,390   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,392   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,394   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,397   copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,399   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,401   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,403   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-24T22:18:12,407   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-24T22:18:12,408   copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,410   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,414   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,416   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,418   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,420   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,422   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,429   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,431   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,434   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,437   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,439   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,444   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,447   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,449   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,462   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,464   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,466   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,468   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,470   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,472   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,477   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,479   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,482   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,484   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,486   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,491   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,493   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,495   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,497   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,499   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,502   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,504   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,506   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,516   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,518   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,520   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,522   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,524   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,526   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,532   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,534   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,536   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,538   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,541   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,542   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,544   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,546   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,548   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,550   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,558   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,561   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,564   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,566   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,568   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,571   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-24T22:18:12,573   running install_egg_info
2026-06-24T22:18:12,582   running egg_info
2026-06-24T22:18:12,587   writing oncoref.egg-info/PKG-INFO
2026-06-24T22:18:12,592   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-24T22:18:12,593   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-24T22:18:12,595   writing requirements to oncoref.egg-info/requires.txt
2026-06-24T22:18:12,596   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-24T22:18:12,615   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:12,624   reading manifest template 'MANIFEST.in'
2026-06-24T22:18:12,626   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-24T22:18:12,627   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-24T22:18:12,628   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-24T22:18:12,629   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-24T22:18:12,630   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-24T22:18:12,631   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-24T22:18:12,631   adding license file 'LICENSE'
2026-06-24T22:18:12,639   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-24T22:18:12,641   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.8-py3.11.egg-info
2026-06-24T22:18:12,653   running install_scripts
2026-06-24T22:18:12,664   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.8.dist-info/WHEEL
2026-06-24T22:18:12,667   creating '/tmp/pip-wheel-rizc88y0/.tmp-ddsh36gx/oncoref-1.8.8-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-24T22:18:12,671   adding 'oncoref/__init__.py'
2026-06-24T22:18:12,672   adding 'oncoref/antigen_coverage.py'
2026-06-24T22:18:12,674   adding 'oncoref/apd1.py'
2026-06-24T22:18:12,675   adding 'oncoref/cancer_genes.py'
2026-06-24T22:18:12,677   adding 'oncoref/cancer_ontology.py'
2026-06-24T22:18:12,682   adding 'oncoref/cancer_types.py'
2026-06-24T22:18:12,684   adding 'oncoref/catalog.py'
2026-06-24T22:18:12,687   adding 'oncoref/cli.py'
2026-06-24T22:18:12,688   adding 'oncoref/cohorts.py'
2026-06-24T22:18:12,692   adding 'oncoref/coverage.py'
2026-06-24T22:18:12,695   adding 'oncoref/cta.py'
2026-06-24T22:18:12,696   adding 'oncoref/cta_coverage.py'
2026-06-24T22:18:12,698   adding 'oncoref/cta_curation_plots.py'
2026-06-24T22:18:12,699   adding 'oncoref/cta_peptides.py'
2026-06-24T22:18:12,702   adding 'oncoref/cta_regen.py'
2026-06-24T22:18:12,704   adding 'oncoref/cta_tissues.py'
2026-06-24T22:18:12,706   adding 'oncoref/data_bundle.py'
2026-06-24T22:18:12,708   adding 'oncoref/data_manifest.py'
2026-06-24T22:18:12,717   adding 'oncoref/expression.py'
2026-06-24T22:18:12,720   adding 'oncoref/expression_builders.py'
2026-06-24T22:18:12,721   adding 'oncoref/expression_engine.py'
2026-06-24T22:18:12,723   adding 'oncoref/expression_registry.py'
2026-06-24T22:18:12,725   adding 'oncoref/fusions.py'
2026-06-24T22:18:12,727   adding 'oncoref/gene_families.py'
2026-06-24T22:18:12,729   adding 'oncoref/gene_ids.py'
2026-06-24T22:18:12,731   adding 'oncoref/gene_qc.py'
2026-06-24T22:18:12,733   adding 'oncoref/genome.py'
2026-06-24T22:18:12,734   adding 'oncoref/hpa.py'
2026-06-24T22:18:12,738   adding 'oncoref/ici.py'
2026-06-24T22:18:12,739   adding 'oncoref/ici_response.py'
2026-06-24T22:18:12,741   adding 'oncoref/incidence.py'
2026-06-24T22:18:12,743   adding 'oncoref/load_dataset.py'
2026-06-24T22:18:12,746   adding 'oncoref/normalization.py'
2026-06-24T22:18:12,748   adding 'oncoref/peptides.py'
2026-06-24T22:18:12,755   adding 'oncoref/plots.py'
2026-06-24T22:18:12,758   adding 'oncoref/proteoforms.py'
2026-06-24T22:18:12,760   adding 'oncoref/reference_data.py'
2026-06-24T22:18:12,761   adding 'oncoref/response_signatures.py'
2026-06-24T22:18:12,763   adding 'oncoref/samples.py'
2026-06-24T22:18:12,764   adding 'oncoref/source_matrices.py'
2026-06-24T22:18:12,765   adding 'oncoref/tmb.py'
2026-06-24T22:18:12,767   adding 'oncoref/version.py'
2026-06-24T22:18:12,770   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-24T22:18:12,771   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-24T22:18:12,773   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-24T22:18:12,778   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-24T22:18:12,780   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-24T22:18:12,782   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-24T22:18:12,783   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-24T22:18:12,786   adding 'oncoref/data/cancer-fusions.csv'
2026-06-24T22:18:12,804   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-24T22:18:12,808   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-24T22:18:12,809   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-24T22:18:12,824   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-24T22:18:12,825   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-24T22:18:12,827   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-24T22:18:12,855   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-24T22:18:12,858   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-24T22:18:12,859   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-24T22:18:12,871   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-24T22:18:12,874   adding 'oncoref/data/cancer-tmb.csv'
2026-06-24T22:18:12,876   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-24T22:18:12,880   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-24T22:18:12,882   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-24T22:18:12,934   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-24T22:18:12,939   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-24T22:18:12,943   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-24T22:18:12,944   adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv'
2026-06-24T22:18:12,955   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-24T22:18:12,957   adding 'oncoref/data/cohort-registry.csv'
2026-06-24T22:18:12,959   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-24T22:18:12,960   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-24T22:18:12,961   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-24T22:18:12,963   adding 'oncoref/data/disease-state-rules.csv'
2026-06-24T22:18:12,989   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-24T22:18:12,995   adding 'oncoref/data/expression_sources.yaml'
2026-06-24T22:18:12,997   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-24T22:18:12,998   adding 'oncoref/data/family-burden-map.csv'
2026-06-24T22:18:13,000   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-24T22:18:13,001   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-24T22:18:13,002   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-24T22:18:13,004   adding 'oncoref/data/histone-genes.csv'
2026-06-24T22:18:13,005   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-24T22:18:13,007   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-24T22:18:13,008   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-24T22:18:13,048   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-24T22:18:13,052   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-24T22:18:13,054   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-24T22:18:13,055   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-24T22:18:13,058   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-24T22:18:13,059   adding 'oncoref/data/proteoform-groups.csv'
2026-06-24T22:18:13,061   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-24T22:18:13,062   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-24T22:18:13,068   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-24T22:18:13,070   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-24T22:18:13,089   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-24T22:18:13,092   adding 'oncoref/data/source-matrices.csv'
2026-06-24T22:18:13,093   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-24T22:18:13,096   adding 'oncoref-1.8.8.dist-info/licenses/LICENSE'
2026-06-24T22:18:13,098   adding 'oncoref-1.8.8.dist-info/METADATA'
2026-06-24T22:18:13,099   adding 'oncoref-1.8.8.dist-info/WHEEL'
2026-06-24T22:18:13,100   adding 'oncoref-1.8.8.dist-info/entry_points.txt'
2026-06-24T22:18:13,101   adding 'oncoref-1.8.8.dist-info/top_level.txt'
2026-06-24T22:18:13,102   adding 'oncoref-1.8.8.dist-info/RECORD'
2026-06-24T22:18:13,123   removing build/bdist.linux-armv7l/wheel
2026-06-24T22:18:13,242   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-24T22:18:13,282   Created wheel for oncoref: filename=oncoref-1.8.8-py3-none-any.whl size=1653704 sha256=f1b7351039ce534abc9d36a03b53fd9479b1629b4a6fd8698bc500162f1cd362
2026-06-24T22:18:13,284   Stored in directory: /tmp/pip-ephem-wheel-cache-sl6_wkvx/wheels/78/29/74/617074c0de34dc6685f7ca46d11f17dca6316c7829005524d4
2026-06-24T22:18:13,300 Successfully built oncoref
2026-06-24T22:18:13,350 Removed build tracker: '/tmp/pip-build-tracker-kdxlmai_'