2026-06-26T14:02:52,679 Created temporary directory: /tmp/pip-ephem-wheel-cache-zfoln4le
2026-06-26T14:02:52,681 Created temporary directory: /tmp/pip-build-tracker-07dr76je
2026-06-26T14:02:52,682 Initialized build tracking at /tmp/pip-build-tracker-07dr76je
2026-06-26T14:02:52,682 Created build tracker: /tmp/pip-build-tracker-07dr76je
2026-06-26T14:02:52,683 Entered build tracker: /tmp/pip-build-tracker-07dr76je
2026-06-26T14:02:52,684 Created temporary directory: /tmp/pip-wheel-whvnzp1u
2026-06-26T14:02:52,686 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
2026-06-26T14:02:52,689 Created temporary directory: /tmp/pip-ephem-wheel-cache-9x1fkt0r
2026-06-26T14:02:52,710 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-26T14:02:52,714 2 location(s) to search for versions of oncoref:
2026-06-26T14:02:52,714 * https://pypi.org/simple/oncoref/
2026-06-26T14:02:52,714 * https://www.piwheels.org/simple/oncoref/
2026-06-26T14:02:52,715 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-26T14:02:52,715 Getting page https://pypi.org/simple/oncoref/
2026-06-26T14:02:52,717 Found index url https://pypi.org/simple
2026-06-26T14:02:52,868 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-26T14:02:52,874   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)
2026-06-26T14:02:52,875   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
2026-06-26T14:02:52,876   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)
2026-06-26T14:02:52,877   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
2026-06-26T14:02:52,878   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)
2026-06-26T14:02:52,879   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
2026-06-26T14:02:52,880   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)
2026-06-26T14:02:52,881   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
2026-06-26T14:02:52,882   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)
2026-06-26T14:02:52,882   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
2026-06-26T14:02:52,883   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)
2026-06-26T14:02:52,884   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
2026-06-26T14:02:52,885   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)
2026-06-26T14:02:52,886   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
2026-06-26T14:02:52,886   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)
2026-06-26T14:02:52,887   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
2026-06-26T14:02:52,888   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)
2026-06-26T14:02:52,889   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
2026-06-26T14:02:52,889   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)
2026-06-26T14:02:52,890   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
2026-06-26T14:02:52,891   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)
2026-06-26T14:02:52,892   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
2026-06-26T14:02:52,892   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)
2026-06-26T14:02:52,893   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
2026-06-26T14:02:52,894   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)
2026-06-26T14:02:52,895   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
2026-06-26T14:02:52,896   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)
2026-06-26T14:02:52,896   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
2026-06-26T14:02:52,897   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/78/7b/c22cc3d95ab5b76edffb7cb157822e8af21bcb9f4b5558027675cd684cbf/oncoref-1.8.12-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T14:02:52,898   Found link https://files.pythonhosted.org/packages/d1/d9/ed6fbdf2ac825e2be372fbd326ca99009195e27aad5f2d597579a2aca8c4/oncoref-1.8.12.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.12
2026-06-26T14:02:52,898   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/5e/38/d4f824676b3d280e159182422711e46a9be12a1078869b3b3da846a959d6/oncoref-1.8.13-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T14:02:52,899   Found link https://files.pythonhosted.org/packages/53/53/a8ca36b70ca14b5654f882f5a6fec1709a385bc2cc18d4bde37a2f32d454/oncoref-1.8.13.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.13
2026-06-26T14:02:52,900 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-26T14:02:52,900 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-26T14:02:52,902 Found index url https://www.piwheels.org/simple
2026-06-26T14:02:53,107 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-26T14:02:53,112   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.11-py3-none-any.whl#sha256=602ac0deb73739e65dfb65105b23357a94a67eb9e1faac0880bff5203ed4a818 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-26T14:02:53,113   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)
2026-06-26T14:02:53,114   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)
2026-06-26T14:02:53,114   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)
2026-06-26T14:02:53,115   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)
2026-06-26T14:02:53,116   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)
2026-06-26T14:02:53,116   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)
2026-06-26T14:02:53,117   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)
2026-06-26T14:02:53,117   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)
2026-06-26T14:02:53,118   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)
2026-06-26T14:02:53,118   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)
2026-06-26T14:02:53,119   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)
2026-06-26T14:02:53,119   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)
2026-06-26T14:02:53,120   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)
2026-06-26T14:02:53,121 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-26T14:02:53,121 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-26T14:02:53,143 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-26T14:02:53,163 Collecting oncoref==1.8.12
2026-06-26T14:02:53,165   Created temporary directory: /tmp/pip-unpack-926v2on3
2026-06-26T14:02:53,654   Downloading oncoref-1.8.12.tar.gz (1.7 MB)
2026-06-26T14:02:54,343   Added oncoref==1.8.12 from https://files.pythonhosted.org/packages/d1/d9/ed6fbdf2ac825e2be372fbd326ca99009195e27aad5f2d597579a2aca8c4/oncoref-1.8.12.tar.gz to build tracker '/tmp/pip-build-tracker-07dr76je'
2026-06-26T14:02:54,350   Created temporary directory: /tmp/pip-build-env-hbr7rf5u
2026-06-26T14:02:54,355   Installing build dependencies: started
2026-06-26T14:02:54,356   Running command pip subprocess to install build dependencies
2026-06-26T14:02:55,527   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-26T14:02:56,187   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
2026-06-26T14:02:56,215   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-26T14:02:58,105   Collecting setuptools>=61.0
2026-06-26T14:02:58,107     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-26T14:02:58,135     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-26T14:02:58,378   Collecting wheel
2026-06-26T14:02:58,379     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-26T14:02:58,398     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-26T14:02:58,590   Collecting packaging>=24.0
2026-06-26T14:02:58,591     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-26T14:02:58,606     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-26T14:02:58,799   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-26T14:02:58,819   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-26T14:02:58,925   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-26T14:02:58,969   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-26T14:02:58,997   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-26T14:02:59,114   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-26T14:03:01,861   Installing collected packages: setuptools, packaging, wheel
2026-06-26T14:03:06,055     Creating /tmp/pip-build-env-hbr7rf5u/overlay/local/bin
2026-06-26T14:03:06,057     changing mode of /tmp/pip-build-env-hbr7rf5u/overlay/local/bin/wheel to 755
2026-06-26T14:03:06,078   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-26T14:03:06,359   Installing build dependencies: finished with status 'done'
2026-06-26T14:03:06,366   Getting requirements to build wheel: started
2026-06-26T14:03:06,367   Running command Getting requirements to build wheel
2026-06-26T14:03:07,133   running egg_info
2026-06-26T14:03:07,139   writing oncoref.egg-info/PKG-INFO
2026-06-26T14:03:07,144   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-26T14:03:07,146   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-26T14:03:07,149   writing requirements to oncoref.egg-info/requires.txt
2026-06-26T14:03:07,150   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-26T14:03:07,185   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:07,194   reading manifest template 'MANIFEST.in'
2026-06-26T14:03:07,196   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-26T14:03:07,197   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-26T14:03:07,198   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-26T14:03:07,200   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-26T14:03:07,201   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-26T14:03:07,202   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-26T14:03:07,202   adding license file 'LICENSE'
2026-06-26T14:03:07,211   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:07,308   Getting requirements to build wheel: finished with status 'done'
2026-06-26T14:03:07,311   Created temporary directory: /tmp/pip-modern-metadata-b_0ghwsv
2026-06-26T14:03:07,313   Preparing metadata (pyproject.toml): started
2026-06-26T14:03:07,315   Running command Preparing metadata (pyproject.toml)
2026-06-26T14:03:07,949   running dist_info
2026-06-26T14:03:07,959   creating /tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info
2026-06-26T14:03:07,960   writing /tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/PKG-INFO
2026-06-26T14:03:07,965   writing dependency_links to /tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/dependency_links.txt
2026-06-26T14:03:07,967   writing entry points to /tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/entry_points.txt
2026-06-26T14:03:07,970   writing requirements to /tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/requires.txt
2026-06-26T14:03:07,971   writing top-level names to /tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/top_level.txt
2026-06-26T14:03:07,972   writing manifest file '/tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:08,004   reading manifest file '/tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:08,006   reading manifest template 'MANIFEST.in'
2026-06-26T14:03:08,007   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-26T14:03:08,008   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-26T14:03:08,009   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-26T14:03:08,010   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-26T14:03:08,011   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-26T14:03:08,012   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-26T14:03:08,012   adding license file 'LICENSE'
2026-06-26T14:03:08,018   writing manifest file '/tmp/pip-modern-metadata-b_0ghwsv/oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:08,020   creating '/tmp/pip-modern-metadata-b_0ghwsv/oncoref-1.8.12.dist-info'
2026-06-26T14:03:08,148   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-26T14:03:08,153   Source in /tmp/pip-wheel-whvnzp1u/oncoref_df03c600dfab452884532f7ed1876753 has version 1.8.12, which satisfies requirement oncoref==1.8.12 from https://files.pythonhosted.org/packages/d1/d9/ed6fbdf2ac825e2be372fbd326ca99009195e27aad5f2d597579a2aca8c4/oncoref-1.8.12.tar.gz
2026-06-26T14:03:08,154   Removed oncoref==1.8.12 from https://files.pythonhosted.org/packages/d1/d9/ed6fbdf2ac825e2be372fbd326ca99009195e27aad5f2d597579a2aca8c4/oncoref-1.8.12.tar.gz from build tracker '/tmp/pip-build-tracker-07dr76je'
2026-06-26T14:03:08,160 Created temporary directory: /tmp/pip-unpack-4exbubr6
2026-06-26T14:03:08,161 Building wheels for collected packages: oncoref
2026-06-26T14:03:08,165   Created temporary directory: /tmp/pip-wheel-y6noes5r
2026-06-26T14:03:08,166   Destination directory: /tmp/pip-wheel-y6noes5r
2026-06-26T14:03:08,168   Building wheel for oncoref (pyproject.toml): started
2026-06-26T14:03:08,169   Running command Building wheel for oncoref (pyproject.toml)
2026-06-26T14:03:08,798   running bdist_wheel
2026-06-26T14:03:08,815   running build
2026-06-26T14:03:08,816   running build_py
2026-06-26T14:03:08,823   creating build/lib/oncoref
2026-06-26T14:03:08,825   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-26T14:03:08,828   copying oncoref/expression.py -> build/lib/oncoref
2026-06-26T14:03:08,831   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-26T14:03:08,833   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-26T14:03:08,836   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-26T14:03:08,838   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-26T14:03:08,840   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-26T14:03:08,843   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-26T14:03:08,845   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-26T14:03:08,848   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-26T14:03:08,850   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-26T14:03:08,853   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-26T14:03:08,855   copying oncoref/cta_coverage.py -> build/lib/oncoref
2026-06-26T14:03:08,856   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-26T14:03:08,859   copying oncoref/samples.py -> build/lib/oncoref
2026-06-26T14:03:08,861   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-26T14:03:08,863   copying oncoref/version.py -> build/lib/oncoref
2026-06-26T14:03:08,864   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-26T14:03:08,866   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-26T14:03:08,869   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-26T14:03:08,871   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-26T14:03:08,874   copying oncoref/cohorts.py -> build/lib/oncoref
2026-06-26T14:03:08,875   copying oncoref/plots.py -> build/lib/oncoref
2026-06-26T14:03:08,879   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-26T14:03:08,881   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-26T14:03:08,884   copying oncoref/ici_response.py -> build/lib/oncoref
2026-06-26T14:03:08,886   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-26T14:03:08,888   copying oncoref/genome.py -> build/lib/oncoref
2026-06-26T14:03:08,891   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-26T14:03:08,893   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-26T14:03:08,896   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-26T14:03:08,898   copying oncoref/cta.py -> build/lib/oncoref
2026-06-26T14:03:08,900   copying oncoref/cta_peptides.py -> build/lib/oncoref
2026-06-26T14:03:08,902   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-26T14:03:08,904   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-26T14:03:08,906   copying oncoref/cli.py -> build/lib/oncoref
2026-06-26T14:03:08,909   copying oncoref/cancer_ontology.py -> build/lib/oncoref
2026-06-26T14:03:08,911   copying oncoref/ici.py -> build/lib/oncoref
2026-06-26T14:03:08,913   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-26T14:03:08,916   copying oncoref/antigen_coverage.py -> build/lib/oncoref
2026-06-26T14:03:08,918   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-26T14:03:08,920   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-26T14:03:08,935   creating build/lib/oncoref/data
2026-06-26T14:03:08,936   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,938   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,940   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,942   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,944   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,947   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,949   copying oncoref/data/cancer-normal-tissue-map.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,952   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,960   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,962   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,966   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,968   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,970   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,972   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,975   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,978   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,981   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,983   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,985   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,988   copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,990   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,992   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,995   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-26T14:03:08,997   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,000   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,003   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,005   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,011   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,013   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,015   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,018   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,022   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,024   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,028   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,030   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,032   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,034   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,036   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,039   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,041   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,045   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,049   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,052   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,054   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,057   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,059   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,064   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,067   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,070   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,072   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,074   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,076   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,081   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-26T14:03:09,083   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-26T14:03:09,092   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-26T14:03:09,099   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-26T14:03:09,110   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-26T14:03:09,125   installing to build/bdist.linux-armv7l/wheel
2026-06-26T14:03:09,126   running install
2026-06-26T14:03:09,149   running install_lib
2026-06-26T14:03:09,154   creating build/bdist.linux-armv7l/wheel
2026-06-26T14:03:09,157   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-26T14:03:09,158   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,160   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,164   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,166   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,168   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,170   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,172   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,175   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,177   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,179   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,181   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,184   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,185   copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,187   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,189   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,191   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,194   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,195   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,197   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,200   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,202   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,204   copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,206   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,209   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,212   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,215   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-26T14:03:09,216   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,218   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,220   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,222   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,224   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,226   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,228   copying build/lib/oncoref/data/cancer-normal-tissue-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,230   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,239   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,241   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,244   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,247   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,248   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,250   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,252   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,254   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,257   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,259   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,261   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,263   copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,265   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,267   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,270   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,272   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,279   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,281   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,284   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,290   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,292   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,299   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,301   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,303   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,305   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,309   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,311   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,315   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,318   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,327   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,329   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,331   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,333   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,335   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,338   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,340   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,343   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,347   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,350   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,352   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,355   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,357   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,362   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,365   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,368   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,370   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,372   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,374   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,379   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-26T14:03:09,381   copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,384   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,386   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,389   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,392   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,395   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,398   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,401   copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,403   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,405   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,407   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,410   copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,412   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,415   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,418   copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,421   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,423   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-26T14:03:09,426   running install_egg_info
2026-06-26T14:03:09,436   running egg_info
2026-06-26T14:03:09,441   writing oncoref.egg-info/PKG-INFO
2026-06-26T14:03:09,445   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-26T14:03:09,447   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-26T14:03:09,449   writing requirements to oncoref.egg-info/requires.txt
2026-06-26T14:03:09,450   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-26T14:03:09,469   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:09,478   reading manifest template 'MANIFEST.in'
2026-06-26T14:03:09,479   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-26T14:03:09,480   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-26T14:03:09,481   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-26T14:03:09,482   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-26T14:03:09,483   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-26T14:03:09,484   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-26T14:03:09,485   adding license file 'LICENSE'
2026-06-26T14:03:09,493   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-26T14:03:09,494   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.12-py3.11.egg-info
2026-06-26T14:03:09,506   running install_scripts
2026-06-26T14:03:09,517   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.12.dist-info/WHEEL
2026-06-26T14:03:09,520   creating '/tmp/pip-wheel-y6noes5r/.tmp-7w3qqomb/oncoref-1.8.12-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-26T14:03:09,524   adding 'oncoref/__init__.py'
2026-06-26T14:03:09,525   adding 'oncoref/antigen_coverage.py'
2026-06-26T14:03:09,527   adding 'oncoref/apd1.py'
2026-06-26T14:03:09,528   adding 'oncoref/cancer_genes.py'
2026-06-26T14:03:09,530   adding 'oncoref/cancer_ontology.py'
2026-06-26T14:03:09,537   adding 'oncoref/cancer_types.py'
2026-06-26T14:03:09,539   adding 'oncoref/catalog.py'
2026-06-26T14:03:09,543   adding 'oncoref/cli.py'
2026-06-26T14:03:09,544   adding 'oncoref/cohorts.py'
2026-06-26T14:03:09,548   adding 'oncoref/coverage.py'
2026-06-26T14:03:09,550   adding 'oncoref/cta.py'
2026-06-26T14:03:09,552   adding 'oncoref/cta_coverage.py'
2026-06-26T14:03:09,554   adding 'oncoref/cta_curation_plots.py'
2026-06-26T14:03:09,555   adding 'oncoref/cta_peptides.py'
2026-06-26T14:03:09,558   adding 'oncoref/cta_regen.py'
2026-06-26T14:03:09,560   adding 'oncoref/cta_tissues.py'
2026-06-26T14:03:09,562   adding 'oncoref/data_bundle.py'
2026-06-26T14:03:09,564   adding 'oncoref/data_manifest.py'
2026-06-26T14:03:09,574   adding 'oncoref/expression.py'
2026-06-26T14:03:09,577   adding 'oncoref/expression_builders.py'
2026-06-26T14:03:09,579   adding 'oncoref/expression_engine.py'
2026-06-26T14:03:09,581   adding 'oncoref/expression_registry.py'
2026-06-26T14:03:09,583   adding 'oncoref/fusions.py'
2026-06-26T14:03:09,586   adding 'oncoref/gene_families.py'
2026-06-26T14:03:09,587   adding 'oncoref/gene_ids.py'
2026-06-26T14:03:09,589   adding 'oncoref/gene_qc.py'
2026-06-26T14:03:09,592   adding 'oncoref/genome.py'
2026-06-26T14:03:09,593   adding 'oncoref/hpa.py'
2026-06-26T14:03:09,598   adding 'oncoref/ici.py'
2026-06-26T14:03:09,600   adding 'oncoref/ici_response.py'
2026-06-26T14:03:09,601   adding 'oncoref/incidence.py'
2026-06-26T14:03:09,603   adding 'oncoref/load_dataset.py'
2026-06-26T14:03:09,607   adding 'oncoref/normalization.py'
2026-06-26T14:03:09,609   adding 'oncoref/peptides.py'
2026-06-26T14:03:09,616   adding 'oncoref/plots.py'
2026-06-26T14:03:09,619   adding 'oncoref/proteoforms.py'
2026-06-26T14:03:09,621   adding 'oncoref/reference_data.py'
2026-06-26T14:03:09,623   adding 'oncoref/response_signatures.py'
2026-06-26T14:03:09,624   adding 'oncoref/samples.py'
2026-06-26T14:03:09,626   adding 'oncoref/source_matrices.py'
2026-06-26T14:03:09,627   adding 'oncoref/tmb.py'
2026-06-26T14:03:09,628   adding 'oncoref/version.py'
2026-06-26T14:03:09,632   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-26T14:03:09,633   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-26T14:03:09,634   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-26T14:03:09,639   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-26T14:03:09,641   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-26T14:03:09,643   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-26T14:03:09,645   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-26T14:03:09,648   adding 'oncoref/data/cancer-fusions.csv'
2026-06-26T14:03:09,665   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-26T14:03:09,669   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-26T14:03:09,670   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-26T14:03:09,685   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-26T14:03:09,687   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-26T14:03:09,688   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-26T14:03:09,689   adding 'oncoref/data/cancer-normal-tissue-map.csv'
2026-06-26T14:03:09,718   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-26T14:03:09,721   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-26T14:03:09,722   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-26T14:03:09,734   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-26T14:03:09,736   adding 'oncoref/data/cancer-tmb.csv'
2026-06-26T14:03:09,739   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-26T14:03:09,742   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-26T14:03:09,744   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-26T14:03:09,797   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-26T14:03:09,802   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-26T14:03:09,806   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-26T14:03:09,808   adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv'
2026-06-26T14:03:09,818   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-26T14:03:09,820   adding 'oncoref/data/cohort-registry.csv'
2026-06-26T14:03:09,822   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-26T14:03:09,823   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-26T14:03:09,824   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-26T14:03:09,826   adding 'oncoref/data/disease-state-rules.csv'
2026-06-26T14:03:09,852   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-26T14:03:09,858   adding 'oncoref/data/expression_sources.yaml'
2026-06-26T14:03:09,860   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-26T14:03:09,861   adding 'oncoref/data/family-burden-map.csv'
2026-06-26T14:03:09,863   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-26T14:03:09,864   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-26T14:03:09,865   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-26T14:03:09,867   adding 'oncoref/data/histone-genes.csv'
2026-06-26T14:03:09,868   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-26T14:03:09,869   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-26T14:03:09,871   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-26T14:03:09,911   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-26T14:03:09,915   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-26T14:03:09,917   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-26T14:03:09,918   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-26T14:03:09,920   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-26T14:03:09,922   adding 'oncoref/data/proteoform-groups.csv'
2026-06-26T14:03:09,923   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-26T14:03:09,925   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-26T14:03:09,931   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-26T14:03:09,933   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-26T14:03:09,952   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-26T14:03:09,954   adding 'oncoref/data/source-matrices.csv'
2026-06-26T14:03:09,956   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-26T14:03:09,959   adding 'oncoref-1.8.12.dist-info/licenses/LICENSE'
2026-06-26T14:03:09,961   adding 'oncoref-1.8.12.dist-info/METADATA'
2026-06-26T14:03:09,962   adding 'oncoref-1.8.12.dist-info/WHEEL'
2026-06-26T14:03:09,963   adding 'oncoref-1.8.12.dist-info/entry_points.txt'
2026-06-26T14:03:09,964   adding 'oncoref-1.8.12.dist-info/top_level.txt'
2026-06-26T14:03:09,966   adding 'oncoref-1.8.12.dist-info/RECORD'
2026-06-26T14:03:09,985   removing build/bdist.linux-armv7l/wheel
2026-06-26T14:03:10,105   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-26T14:03:10,144   Created wheel for oncoref: filename=oncoref-1.8.12-py3-none-any.whl size=1666007 sha256=2a0e59477b8939fc63d4a78f31b0b793fb2f49ea2aab861d853fa8479ccf9608
2026-06-26T14:03:10,146   Stored in directory: /tmp/pip-ephem-wheel-cache-9x1fkt0r/wheels/df/37/fe/144964fbc470e4c2820900dbb3bac3e910f1badf3458bc4ed7
2026-06-26T14:03:10,161 Successfully built oncoref
2026-06-26T14:03:10,213 Removed build tracker: '/tmp/pip-build-tracker-07dr76je'