2026-06-26T03:39:41,309 Created temporary directory: /tmp/pip-ephem-wheel-cache-gmhg1kh0
2026-06-26T03:39:41,311 Created temporary directory: /tmp/pip-build-tracker-byfucwt_
2026-06-26T03:39:41,312 Initialized build tracking at /tmp/pip-build-tracker-byfucwt_
2026-06-26T03:39:41,312 Created build tracker: /tmp/pip-build-tracker-byfucwt_
2026-06-26T03:39:41,313 Entered build tracker: /tmp/pip-build-tracker-byfucwt_
2026-06-26T03:39:41,313 Created temporary directory: /tmp/pip-wheel-0fbm9twn
2026-06-26T03:39:41,316 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
2026-06-26T03:39:41,319 Created temporary directory: /tmp/pip-ephem-wheel-cache-rtmtytwg
2026-06-26T03:39:41,343 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-26T03:39:41,346 2 location(s) to search for versions of oncoref:
2026-06-26T03:39:41,346 * https://pypi.org/simple/oncoref/
2026-06-26T03:39:41,346 * https://www.piwheels.org/simple/oncoref/
2026-06-26T03:39:41,347 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-26T03:39:41,348 Getting page https://pypi.org/simple/oncoref/
2026-06-26T03:39:41,349 Found index url https://pypi.org/simple
2026-06-26T03:39:41,500 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-26T03:39:41,506   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)
2026-06-26T03:39:41,507   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
2026-06-26T03:39:41,508   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)
2026-06-26T03:39:41,509   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
2026-06-26T03:39:41,509   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)
2026-06-26T03:39:41,511   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
2026-06-26T03:39:41,511   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)
2026-06-26T03:39:41,512   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
2026-06-26T03:39:41,513   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)
2026-06-26T03:39:41,514   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
2026-06-26T03:39:41,515   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)
2026-06-26T03:39:41,516   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
2026-06-26T03:39:41,516   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)
2026-06-26T03:39:41,517   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
2026-06-26T03:39:41,518   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)
2026-06-26T03:39:41,519   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
2026-06-26T03:39:41,519   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)
2026-06-26T03:39:41,520   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
2026-06-26T03:39:41,521   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)
2026-06-26T03:39:41,522   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
2026-06-26T03:39:41,523   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)
2026-06-26T03:39:41,523   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
2026-06-26T03:39:41,524   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)
2026-06-26T03:39:41,525   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
2026-06-26T03:39:41,526   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/f8/12/a1f0c9d212afc8cd24b0451f400a187bdd47f18e3cad7f29f2777550ae1a/oncoref-1.8.10-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T03:39:41,527   Found link https://files.pythonhosted.org/packages/77/61/378430e4677aa8b166ce384cbe1d113e10edaa5f59609a77f4c766be2571/oncoref-1.8.10.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.10
2026-06-26T03:39:41,528   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/b4/3d/c5e014ef25909aa0d1066921219dd488045d0d6b5016550231966030cf12/oncoref-1.8.11-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T03:39:41,528   Found link https://files.pythonhosted.org/packages/32/11/bd521deea2d84a375a14221e236bac5683bed470cccee72d352e054794e3/oncoref-1.8.11.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.11
2026-06-26T03:39:41,529 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-26T03:39:41,530 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-26T03:39:41,531 Found index url https://www.piwheels.org/simple
2026-06-26T03:39:41,730 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-26T03:39:41,735   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.10-py3-none-any.whl#sha256=3e789fd35641073e8afc8885dcef12d74a2323c2e0c8dad7b5e369392675e83a (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T03:39:41,735   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.9-py3-none-any.whl#sha256=2415de57054126a885d64b626bbb12657ce55d0791a686b7aba85fd8b784d399 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T03:39:41,736   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)
2026-06-26T03:39:41,736   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)
2026-06-26T03:39:41,737   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)
2026-06-26T03:39:41,737   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)
2026-06-26T03:39:41,738   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)
2026-06-26T03:39:41,739   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)
2026-06-26T03:39:41,739   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)
2026-06-26T03:39:41,740   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)
2026-06-26T03:39:41,740   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)
2026-06-26T03:39:41,741   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)
2026-06-26T03:39:41,742   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)
2026-06-26T03:39:41,742 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-26T03:39:41,743 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-26T03:39:41,763 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-26T03:39:41,780 Collecting oncoref==1.8.11
2026-06-26T03:39:41,782   Created temporary directory: /tmp/pip-unpack-tz7chvf6
2026-06-26T03:39:42,012   Downloading oncoref-1.8.11.tar.gz (1.7 MB)
2026-06-26T03:39:42,651   Added oncoref==1.8.11 from https://files.pythonhosted.org/packages/32/11/bd521deea2d84a375a14221e236bac5683bed470cccee72d352e054794e3/oncoref-1.8.11.tar.gz to build tracker '/tmp/pip-build-tracker-byfucwt_'
2026-06-26T03:39:42,658   Created temporary directory: /tmp/pip-build-env-s1u5auwt
2026-06-26T03:39:42,662   Installing build dependencies: started
2026-06-26T03:39:42,664   Running command pip subprocess to install build dependencies
2026-06-26T03:39:43,850   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-26T03:39:44,319   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
2026-06-26T03:39:44,342   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-26T03:39:46,134   Collecting setuptools>=61.0
2026-06-26T03:39:46,135     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-26T03:39:46,150     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-26T03:39:46,382   Collecting wheel
2026-06-26T03:39:46,383     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-26T03:39:46,397     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-26T03:39:46,583   Collecting packaging>=24.0
2026-06-26T03:39:46,584     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-26T03:39:46,597     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-26T03:39:46,789   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-26T03:39:46,810   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-26T03:39:46,899   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-26T03:39:46,929   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-26T03:39:46,961   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-26T03:39:47,047   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-26T03:39:49,789   Installing collected packages: setuptools, packaging, wheel
2026-06-26T03:39:53,167     Creating /tmp/pip-build-env-s1u5auwt/overlay/local/bin
2026-06-26T03:39:53,169     changing mode of /tmp/pip-build-env-s1u5auwt/overlay/local/bin/wheel to 755
2026-06-26T03:39:53,189   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-26T03:39:53,475   Installing build dependencies: finished with status 'done'
2026-06-26T03:39:53,483   Getting requirements to build wheel: started
2026-06-26T03:39:53,484   Running command Getting requirements to build wheel
2026-06-26T03:39:54,215   running egg_info
2026-06-26T03:39:54,220   writing oncoref.egg-info/PKG-INFO
2026-06-26T03:39:54,226   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-26T03:39:54,227   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-26T03:39:54,230   writing requirements to oncoref.egg-info/requires.txt
2026-06-26T03:39:54,231   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-26T03:39:54,265   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:54,274   reading manifest template 'MANIFEST.in'
2026-06-26T03:39:54,276   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-26T03:39:54,277   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-26T03:39:54,278   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-26T03:39:54,279   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-26T03:39:54,280   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-26T03:39:54,281   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-26T03:39:54,282   adding license file 'LICENSE'
2026-06-26T03:39:54,290   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:54,388   Getting requirements to build wheel: finished with status 'done'
2026-06-26T03:39:54,391   Created temporary directory: /tmp/pip-modern-metadata-ezw4iyee
2026-06-26T03:39:54,393   Preparing metadata (pyproject.toml): started
2026-06-26T03:39:54,395   Running command Preparing metadata (pyproject.toml)
2026-06-26T03:39:55,028   running dist_info
2026-06-26T03:39:55,039   creating /tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info
2026-06-26T03:39:55,039   writing /tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/PKG-INFO
2026-06-26T03:39:55,045   writing dependency_links to /tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/dependency_links.txt
2026-06-26T03:39:55,047   writing entry points to /tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/entry_points.txt
2026-06-26T03:39:55,049   writing requirements to /tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/requires.txt
2026-06-26T03:39:55,050   writing top-level names to /tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/top_level.txt
2026-06-26T03:39:55,052   writing manifest file '/tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:55,084   reading manifest file '/tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:55,086   reading manifest template 'MANIFEST.in'
2026-06-26T03:39:55,087   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-26T03:39:55,088   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-26T03:39:55,089   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-26T03:39:55,090   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-26T03:39:55,091   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-26T03:39:55,092   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-26T03:39:55,092   adding license file 'LICENSE'
2026-06-26T03:39:55,099   writing manifest file '/tmp/pip-modern-metadata-ezw4iyee/oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:55,100   creating '/tmp/pip-modern-metadata-ezw4iyee/oncoref-1.8.11.dist-info'
2026-06-26T03:39:55,225   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-26T03:39:55,230   Source in /tmp/pip-wheel-0fbm9twn/oncoref_da7ecd7016f7433b88441ec6296f88bc has version 1.8.11, which satisfies requirement oncoref==1.8.11 from https://files.pythonhosted.org/packages/32/11/bd521deea2d84a375a14221e236bac5683bed470cccee72d352e054794e3/oncoref-1.8.11.tar.gz
2026-06-26T03:39:55,231   Removed oncoref==1.8.11 from https://files.pythonhosted.org/packages/32/11/bd521deea2d84a375a14221e236bac5683bed470cccee72d352e054794e3/oncoref-1.8.11.tar.gz from build tracker '/tmp/pip-build-tracker-byfucwt_'
2026-06-26T03:39:55,237 Created temporary directory: /tmp/pip-unpack-hhezh3mv
2026-06-26T03:39:55,237 Building wheels for collected packages: oncoref
2026-06-26T03:39:55,242   Created temporary directory: /tmp/pip-wheel-xqq47sar
2026-06-26T03:39:55,242   Destination directory: /tmp/pip-wheel-xqq47sar
2026-06-26T03:39:55,244   Building wheel for oncoref (pyproject.toml): started
2026-06-26T03:39:55,245   Running command Building wheel for oncoref (pyproject.toml)
2026-06-26T03:39:55,857   running bdist_wheel
2026-06-26T03:39:55,875   running build
2026-06-26T03:39:55,876   running build_py
2026-06-26T03:39:55,882   creating build/lib/oncoref
2026-06-26T03:39:55,884   copying oncoref/antigen_coverage.py -> build/lib/oncoref
2026-06-26T03:39:55,886   copying oncoref/samples.py -> build/lib/oncoref
2026-06-26T03:39:55,888   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-26T03:39:55,891   copying oncoref/plots.py -> build/lib/oncoref
2026-06-26T03:39:55,894   copying oncoref/genome.py -> build/lib/oncoref
2026-06-26T03:39:55,896   copying oncoref/ici_response.py -> build/lib/oncoref
2026-06-26T03:39:55,898   copying oncoref/version.py -> build/lib/oncoref
2026-06-26T03:39:55,900   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-26T03:39:55,902   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-26T03:39:55,905   copying oncoref/ici.py -> build/lib/oncoref
2026-06-26T03:39:55,908   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-26T03:39:55,910   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-26T03:39:55,912   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-26T03:39:55,914   copying oncoref/expression.py -> build/lib/oncoref
2026-06-26T03:39:55,917   copying oncoref/cta.py -> build/lib/oncoref
2026-06-26T03:39:55,920   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-26T03:39:55,922   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-26T03:39:55,924   copying oncoref/cohorts.py -> build/lib/oncoref
2026-06-26T03:39:55,926   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-26T03:39:55,929   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-26T03:39:55,931   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-26T03:39:55,933   copying oncoref/cli.py -> build/lib/oncoref
2026-06-26T03:39:55,936   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-26T03:39:55,938   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-26T03:39:55,941   copying oncoref/cta_peptides.py -> build/lib/oncoref
2026-06-26T03:39:55,943   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-26T03:39:55,945   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-26T03:39:55,947   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-26T03:39:55,950   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-26T03:39:55,952   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-26T03:39:55,954   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-26T03:39:55,957   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-26T03:39:55,959   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-26T03:39:55,961   copying oncoref/cancer_ontology.py -> build/lib/oncoref
2026-06-26T03:39:55,963   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-26T03:39:55,965   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-26T03:39:55,967   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-26T03:39:55,969   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-26T03:39:55,972   copying oncoref/cta_coverage.py -> build/lib/oncoref
2026-06-26T03:39:55,974   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-26T03:39:55,976   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-26T03:39:55,978   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-26T03:39:55,992   creating build/lib/oncoref/data
2026-06-26T03:39:55,993   copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:55,996   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,000   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,002   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,004   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,007   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,010   copying oncoref/data/cancer-normal-tissue-map.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,012   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,015   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,018   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,021   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,023   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,027   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,030   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,033   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,036   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,038   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,040   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,044   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,046   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,051   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,054   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,057   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,060   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,063   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,070   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,073   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,075   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,078   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,081   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,083   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,087   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,096   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,099   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,101   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,104   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,107   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,109   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,114   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,117   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,120   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,122   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,125   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,127   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,129   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,131   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,133   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,136   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,138   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,141   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,144   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,146   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,149   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-26T03:39:56,151   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-26T03:39:56,160   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-26T03:39:56,174   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-26T03:39:56,185   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-26T03:39:56,199   installing to build/bdist.linux-armv7l/wheel
2026-06-26T03:39:56,199   running install
2026-06-26T03:39:56,222   running install_lib
2026-06-26T03:39:56,227   creating build/bdist.linux-armv7l/wheel
2026-06-26T03:39:56,230   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-26T03:39:56,231   copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,233   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,235   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,237   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,241   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,243   copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,246   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,247   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,250   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,253   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,256   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,258   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,260   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,262   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,265   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,268   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,270   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,272   copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,274   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,277   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,281   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,283   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,286   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,288   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,290   copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,292   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,295   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,297   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,300   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,303   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,305   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,307   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,310   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,312   copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,314   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,317   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,319   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,321   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,324   copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,326   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,328   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,331   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T03:39:56,335   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-26T03:39:56,336   copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,338   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,342   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,344   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,346   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,349   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,351   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,359   copying build/lib/oncoref/data/cancer-normal-tissue-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,361   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,363   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,366   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,368   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,370   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,374   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,377   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,378   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,387   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,389   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,391   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,393   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,395   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,396   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,401   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,402   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,405   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,407   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,409   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,416   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,418   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,420   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,422   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,425   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,427   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,429   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,432   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,439   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,441   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,443   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,445   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,447   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,448   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,453   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,455   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,457   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,459   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,461   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,463   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,465   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,466   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,468   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,471   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,478   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,480   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,483   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,485   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,487   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,489   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T03:39:56,491   running install_egg_info
2026-06-26T03:39:56,501   running egg_info
2026-06-26T03:39:56,506   writing oncoref.egg-info/PKG-INFO
2026-06-26T03:39:56,511   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-26T03:39:56,513   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-26T03:39:56,515   writing requirements to oncoref.egg-info/requires.txt
2026-06-26T03:39:56,516   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-26T03:39:56,535   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:56,544   reading manifest template 'MANIFEST.in'
2026-06-26T03:39:56,546   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-26T03:39:56,547   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-26T03:39:56,548   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-26T03:39:56,549   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-26T03:39:56,550   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-26T03:39:56,551   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-26T03:39:56,552   adding license file 'LICENSE'
2026-06-26T03:39:56,560   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T03:39:56,562   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.11-py3.11.egg-info
2026-06-26T03:39:56,573   running install_scripts
2026-06-26T03:39:56,586   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.11.dist-info/WHEEL
2026-06-26T03:39:56,589   creating '/tmp/pip-wheel-xqq47sar/.tmp-dr6jk50q/oncoref-1.8.11-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-26T03:39:56,594   adding 'oncoref/__init__.py'
2026-06-26T03:39:56,596   adding 'oncoref/antigen_coverage.py'
2026-06-26T03:39:56,598   adding 'oncoref/apd1.py'
2026-06-26T03:39:56,600   adding 'oncoref/cancer_genes.py'
2026-06-26T03:39:56,601   adding 'oncoref/cancer_ontology.py'
2026-06-26T03:39:56,612   adding 'oncoref/cancer_types.py'
2026-06-26T03:39:56,615   adding 'oncoref/catalog.py'
2026-06-26T03:39:56,620   adding 'oncoref/cli.py'
2026-06-26T03:39:56,623   adding 'oncoref/cohorts.py'
2026-06-26T03:39:56,628   adding 'oncoref/coverage.py'
2026-06-26T03:39:56,632   adding 'oncoref/cta.py'
2026-06-26T03:39:56,634   adding 'oncoref/cta_coverage.py'
2026-06-26T03:39:56,636   adding 'oncoref/cta_curation_plots.py'
2026-06-26T03:39:56,638   adding 'oncoref/cta_peptides.py'
2026-06-26T03:39:56,642   adding 'oncoref/cta_regen.py'
2026-06-26T03:39:56,644   adding 'oncoref/cta_tissues.py'
2026-06-26T03:39:56,648   adding 'oncoref/data_bundle.py'
2026-06-26T03:39:56,651   adding 'oncoref/data_manifest.py'
2026-06-26T03:39:56,665   adding 'oncoref/expression.py'
2026-06-26T03:39:56,669   adding 'oncoref/expression_builders.py'
2026-06-26T03:39:56,672   adding 'oncoref/expression_engine.py'
2026-06-26T03:39:56,674   adding 'oncoref/expression_registry.py'
2026-06-26T03:39:56,676   adding 'oncoref/fusions.py'
2026-06-26T03:39:56,680   adding 'oncoref/gene_families.py'
2026-06-26T03:39:56,683   adding 'oncoref/gene_ids.py'
2026-06-26T03:39:56,685   adding 'oncoref/gene_qc.py'
2026-06-26T03:39:56,687   adding 'oncoref/genome.py'
2026-06-26T03:39:56,688   adding 'oncoref/hpa.py'
2026-06-26T03:39:56,693   adding 'oncoref/ici.py'
2026-06-26T03:39:56,694   adding 'oncoref/ici_response.py'
2026-06-26T03:39:56,696   adding 'oncoref/incidence.py'
2026-06-26T03:39:56,698   adding 'oncoref/load_dataset.py'
2026-06-26T03:39:56,702   adding 'oncoref/normalization.py'
2026-06-26T03:39:56,704   adding 'oncoref/peptides.py'
2026-06-26T03:39:56,712   adding 'oncoref/plots.py'
2026-06-26T03:39:56,714   adding 'oncoref/proteoforms.py'
2026-06-26T03:39:56,717   adding 'oncoref/reference_data.py'
2026-06-26T03:39:56,718   adding 'oncoref/response_signatures.py'
2026-06-26T03:39:56,720   adding 'oncoref/samples.py'
2026-06-26T03:39:56,721   adding 'oncoref/source_matrices.py'
2026-06-26T03:39:56,723   adding 'oncoref/tmb.py'
2026-06-26T03:39:56,724   adding 'oncoref/version.py'
2026-06-26T03:39:56,728   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-26T03:39:56,729   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-26T03:39:56,730   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-26T03:39:56,735   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-26T03:39:56,738   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-26T03:39:56,740   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-26T03:39:56,742   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-26T03:39:56,745   adding 'oncoref/data/cancer-fusions.csv'
2026-06-26T03:39:56,762   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-26T03:39:56,766   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-26T03:39:56,768   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-26T03:39:56,782   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-26T03:39:56,784   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-26T03:39:56,785   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-26T03:39:56,786   adding 'oncoref/data/cancer-normal-tissue-map.csv'
2026-06-26T03:39:56,815   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-26T03:39:56,818   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-26T03:39:56,819   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-26T03:39:56,830   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-26T03:39:56,833   adding 'oncoref/data/cancer-tmb.csv'
2026-06-26T03:39:56,835   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-26T03:39:56,839   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-26T03:39:56,840   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-26T03:39:56,893   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-26T03:39:56,898   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-26T03:39:56,902   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-26T03:39:56,903   adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv'
2026-06-26T03:39:56,914   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-26T03:39:56,916   adding 'oncoref/data/cohort-registry.csv'
2026-06-26T03:39:56,918   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-26T03:39:56,919   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-26T03:39:56,920   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-26T03:39:56,922   adding 'oncoref/data/disease-state-rules.csv'
2026-06-26T03:39:56,948   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-26T03:39:56,954   adding 'oncoref/data/expression_sources.yaml'
2026-06-26T03:39:56,956   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-26T03:39:56,957   adding 'oncoref/data/family-burden-map.csv'
2026-06-26T03:39:56,958   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-26T03:39:56,960   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-26T03:39:56,961   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-26T03:39:56,963   adding 'oncoref/data/histone-genes.csv'
2026-06-26T03:39:56,964   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-26T03:39:56,965   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-26T03:39:56,966   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-26T03:39:57,007   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-26T03:39:57,010   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-26T03:39:57,012   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-26T03:39:57,014   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-26T03:39:57,016   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-26T03:39:57,018   adding 'oncoref/data/proteoform-groups.csv'
2026-06-26T03:39:57,020   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-26T03:39:57,021   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-26T03:39:57,027   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-26T03:39:57,030   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-26T03:39:57,048   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-26T03:39:57,051   adding 'oncoref/data/source-matrices.csv'
2026-06-26T03:39:57,052   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-26T03:39:57,056   adding 'oncoref-1.8.11.dist-info/licenses/LICENSE'
2026-06-26T03:39:57,057   adding 'oncoref-1.8.11.dist-info/METADATA'
2026-06-26T03:39:57,059   adding 'oncoref-1.8.11.dist-info/WHEEL'
2026-06-26T03:39:57,059   adding 'oncoref-1.8.11.dist-info/entry_points.txt'
2026-06-26T03:39:57,060   adding 'oncoref-1.8.11.dist-info/top_level.txt'
2026-06-26T03:39:57,062   adding 'oncoref-1.8.11.dist-info/RECORD'
2026-06-26T03:39:57,081   removing build/bdist.linux-armv7l/wheel
2026-06-26T03:39:57,201   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-26T03:39:57,240   Created wheel for oncoref: filename=oncoref-1.8.11-py3-none-any.whl size=1665579 sha256=602ac0deb73739e65dfb65105b23357a94a67eb9e1faac0880bff5203ed4a818
2026-06-26T03:39:57,242   Stored in directory: /tmp/pip-ephem-wheel-cache-rtmtytwg/wheels/d4/60/e3/2d669cefd4724527c8a7ff2cfcaff7c30d4ad272bdb78da4c7
2026-06-26T03:39:57,258 Successfully built oncoref
2026-06-26T03:39:57,297 Removed build tracker: '/tmp/pip-build-tracker-byfucwt_'