2026-06-29T19:42:47,589 Created temporary directory: /tmp/pip-ephem-wheel-cache-q0x8dpi4
2026-06-29T19:42:47,590 Created temporary directory: /tmp/pip-build-tracker-f2kiz4fl
2026-06-29T19:42:47,591 Initialized build tracking at /tmp/pip-build-tracker-f2kiz4fl
2026-06-29T19:42:47,592 Created build tracker: /tmp/pip-build-tracker-f2kiz4fl
2026-06-29T19:42:47,592 Entered build tracker: /tmp/pip-build-tracker-f2kiz4fl
2026-06-29T19:42:47,593 Created temporary directory: /tmp/pip-wheel-xqkhd0ow
2026-06-29T19:42:47,596 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
2026-06-29T19:42:47,598 Created temporary directory: /tmp/pip-ephem-wheel-cache-zmjxs9yo
2026-06-29T19:42:47,620 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-29T19:42:47,623 2 location(s) to search for versions of oncoref:
2026-06-29T19:42:47,623 * https://pypi.org/simple/oncoref/
2026-06-29T19:42:47,623 * https://www.piwheels.org/simple/oncoref/
2026-06-29T19:42:47,624 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-29T19:42:47,625 Getting page https://pypi.org/simple/oncoref/
2026-06-29T19:42:47,626 Found index url https://pypi.org/simple
2026-06-29T19:42:47,877 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-29T19:42:47,888   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)
2026-06-29T19:42:47,890   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
2026-06-29T19:42:47,890   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)
2026-06-29T19:42:47,891   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
2026-06-29T19:42:47,892   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)
2026-06-29T19:42:47,893   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
2026-06-29T19:42:47,894   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)
2026-06-29T19:42:47,895   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
2026-06-29T19:42:47,895   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)
2026-06-29T19:42:47,896   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
2026-06-29T19:42:47,897   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)
2026-06-29T19:42:47,898   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
2026-06-29T19:42:47,899   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)
2026-06-29T19:42:47,900   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
2026-06-29T19:42:47,900   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)
2026-06-29T19:42:47,901   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
2026-06-29T19:42:47,902   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)
2026-06-29T19:42:47,903   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
2026-06-29T19:42:47,903   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)
2026-06-29T19:42:47,904   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
2026-06-29T19:42:47,905   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)
2026-06-29T19:42:47,906   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
2026-06-29T19:42:47,906   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)
2026-06-29T19:42:47,907   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
2026-06-29T19:42:47,908   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)
2026-06-29T19:42:47,909   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
2026-06-29T19:42:47,910   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)
2026-06-29T19:42:47,911   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
2026-06-29T19:42:47,911   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)
2026-06-29T19:42:47,912   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
2026-06-29T19:42:47,912   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)
2026-06-29T19:42:47,913   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
2026-06-29T19:42:47,914   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/2f/c1/703bd890ae830651eae083a090278ba8254ac89bae1c0bfefed061c3e2eb/oncoref-1.8.14-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,915   Found link https://files.pythonhosted.org/packages/72/05/f82628c00d880f035d82572d1160a43c00ca2e7c45b010b4a9f300a5a863/oncoref-1.8.14.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.14
2026-06-29T19:42:47,915   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/ac/42/91b2b04455fb29d40afb47dc7ee2eae30218a24c4d540d95191d31f6f98e/oncoref-1.8.15-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,916   Found link https://files.pythonhosted.org/packages/26/8a/9cb4754077d37b89ed3ee3781cffdb03040d90286aaaedacba8cb238d7c3/oncoref-1.8.15.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.15
2026-06-29T19:42:47,917   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/53/3f/1af50bb6d208ada32a29b7e3ed29169932b97542b48e765c1d96130b7f3d/oncoref-1.8.16-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,917   Found link https://files.pythonhosted.org/packages/b0/d3/a5bd8fc8f94176955d736efbdd944f84c9b72fe55cb88580ba9ab8ed5e04/oncoref-1.8.16.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.16
2026-06-29T19:42:47,918   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/53/77/d24a0f29e452b83e5d6a1bfb366c72b8407bc7505d94280ca3ba609de07e/oncoref-1.8.17-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,919   Found link https://files.pythonhosted.org/packages/c1/e7/7f753f3a4b044b3f3bc8f75b75ef24df1c9b77d3f0742ee37fc243441830/oncoref-1.8.17.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.17
2026-06-29T19:42:47,920   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/04/55/5f2c1936263bdbe9a95a7c82d673eae8724b3eb1b99d4c1c33eadfc6edf5/oncoref-1.8.18-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,920   Found link https://files.pythonhosted.org/packages/3a/54/ceb46bd314647d4f44c1a83e06ca8c15118ca03c20b8111a3f2defb56c6c/oncoref-1.8.18.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.18
2026-06-29T19:42:47,921   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/07/35/638b350ebd4fd975c88adb9168c250b482cf549a77381cced479cdf3923f/oncoref-1.8.19-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,922   Found link https://files.pythonhosted.org/packages/39/5a/c1460247c124e495fc20ae3e76a760ee67da5f7263531a1093ae4cdc1983/oncoref-1.8.19.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.19
2026-06-29T19:42:47,923   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/eb/2d/584fe29a9ae1a336ec8dc1dadc08e60e036de296b703c428b69aafb97ee7/oncoref-1.8.20-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,923   Found link https://files.pythonhosted.org/packages/aa/5b/9be05673420aae6512388fb70ff3b3802ca0bca46179299c93e9bdea7cb1/oncoref-1.8.20.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.20
2026-06-29T19:42:47,924   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/c2/b8/d13577ba1cd9a054203201a66d94d70c8c71156e5afaf85c557c52a8a4c8/oncoref-1.8.21-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,925   Found link https://files.pythonhosted.org/packages/f6/9d/ca143333eade742f336f48670b06ee9849c2c31d9322c5c7bb6979a191a3/oncoref-1.8.21.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.21
2026-06-29T19:42:47,925   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/59/bd/c385a7916a14b417f607eecb73034e821165e8f650435947ecf8845c5161/oncoref-1.8.22-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,926   Found link https://files.pythonhosted.org/packages/a7/cc/f9b0c987a30c7928b99e165f2bd778a677eb1433eb0802911d6678139aeb/oncoref-1.8.22.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.22
2026-06-29T19:42:47,927   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/e7/f2/ae5d03f1bf678a753916310b281effcbc4cf19a4e0e6995437966ad6ac91/oncoref-1.8.23-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,928   Found link https://files.pythonhosted.org/packages/be/8c/f6a66a8ae2ba39778734de5548a77246995f30c636670ff2ca38094ff59e/oncoref-1.8.23.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.23
2026-06-29T19:42:47,928   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/28/8d/ca3b2c8c719845b8c38ff91118723bb2c965155ac0a49af2ff8ceff50a56/oncoref-1.8.24-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,929   Found link https://files.pythonhosted.org/packages/62/f6/e9a386e5a93bd80d065addcc4050fefd3bb6e8b55b75ea3ba88025f95255/oncoref-1.8.24.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.24
2026-06-29T19:42:47,930   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/8d/48/dd730548afc982ad049e59c8084f8847a0c49e3d0e288d7b0c299abdad9b/oncoref-1.8.25-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,931   Found link https://files.pythonhosted.org/packages/fe/48/42ff82844f2c14e04799c0441651a2c9b147da3707e4924129d0352b5525/oncoref-1.8.25.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.25
2026-06-29T19:42:47,931   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/15/fc/76fa123a1303b6db49cade8bf9985e206e992b14ad3d49b446acf8ee9516/oncoref-1.8.26-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,932   Found link https://files.pythonhosted.org/packages/e7/5c/785ef9ba1884cb96cc5c5bb24da2b2b7d5836404cefa2cc6b9589707d264/oncoref-1.8.26.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.26
2026-06-29T19:42:47,933   Skipping link: No binaries permitted for oncoref: https://files.pythonhosted.org/packages/1f/6e/9d45c29e74006d28dd4da8b329a4b939dd7bfa89496792f969392734b44a/oncoref-1.8.27-py3-none-any.whl (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:47,934   Found link https://files.pythonhosted.org/packages/b1/35/566b316d8325fc6cf07c3cb72c7432a37302396da59a1b78dbd75c3c8e2b/oncoref-1.8.27.tar.gz (from https://pypi.org/simple/oncoref/) (requires-python:>=3.9), version: 1.8.27
2026-06-29T19:42:47,935 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-29T19:42:47,935 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-29T19:42:47,937 Found index url https://www.piwheels.org/simple
2026-06-29T19:42:48,229 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-29T19:42:48,239   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.25-py3-none-any.whl#sha256=af07dfe64ba72883f3223dd56f5b55a3370d8deb1d781fcff373e4aa696cadd2 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,239   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.24-py3-none-any.whl#sha256=37eddc72a25836c04689e807b2e937964e7758be69a3c63ef6f43b079edd274b (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,240   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.23-py3-none-any.whl#sha256=93e12c751d36e6067e12446d95075d3f1529e62cabab5ddafc06717951f4b978 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,240   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.22-py3-none-any.whl#sha256=f9f6af90f23f91ed83e606231a0b8288143792f632998acf8e42adb9b41fa572 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,241   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.21-py3-none-any.whl#sha256=ac7131b0f8f46c73d142fc08042a64e251ad3df564bfc62308d462affc18f008 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,242   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.20-py3-none-any.whl#sha256=02858d3770dc0077ec2663efc1ab8ae19e982b234caa93e7035f95670b0d174e (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,242   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.19-py3-none-any.whl#sha256=bbbd40de31c902830f47fa96432cc1984e1164d334e95a40633e18ec8caaa41e (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,243   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.18-py3-none-any.whl#sha256=91f223a369ce125813e0c188cafd3277343fd2ca1caa4d34a5394ba1cb195781 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,243   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.17-py3-none-any.whl#sha256=5fa3e3356c1574425d42aebe7d135c933ff623b539736554634a762eeaab4a29 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,244   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.16-py3-none-any.whl#sha256=9defcd77c3360e0675a10c0b8de4a1784c19f227a985079b95e21e462de63e97 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,244   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.15-py3-none-any.whl#sha256=4dcd40c2e5c10b8f8be0d8df8489b5f05153d465eb43ddf7f9dc158bbe6b1de3 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,245   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.14-py3-none-any.whl#sha256=ac41cf84ca97c695a15f40326738750e2762e39f366bf99300777803874b26da (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,246   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.13-py3-none-any.whl#sha256=91c3e1fa8448033a913075559a2ee2b76fcbad64e20aeb7696484a9a5619dbef (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,246   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.12-py3-none-any.whl#sha256=2a0e59477b8939fc63d4a78f31b0b793fb2f49ea2aab861d853fa8479ccf9608 (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:42:48,246   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)
2026-06-29T19:42:48,247   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)
2026-06-29T19:42:48,247   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)
2026-06-29T19:42:48,248   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)
2026-06-29T19:42:48,249   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)
2026-06-29T19:42:48,249   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)
2026-06-29T19:42:48,250   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)
2026-06-29T19:42:48,250   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)
2026-06-29T19:42:48,251   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)
2026-06-29T19:42:48,251   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)
2026-06-29T19:42:48,252   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)
2026-06-29T19:42:48,253   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)
2026-06-29T19:42:48,253   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)
2026-06-29T19:42:48,254   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)
2026-06-29T19:42:48,254 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-29T19:42:48,255 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-29T19:42:48,278 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-29T19:42:48,297 Collecting oncoref==1.8.26
2026-06-29T19:42:48,300   Created temporary directory: /tmp/pip-unpack-2w279psp
2026-06-29T19:42:48,638   Downloading oncoref-1.8.26.tar.gz (1.7 MB)
2026-06-29T19:42:49,400   Added oncoref==1.8.26 from https://files.pythonhosted.org/packages/e7/5c/785ef9ba1884cb96cc5c5bb24da2b2b7d5836404cefa2cc6b9589707d264/oncoref-1.8.26.tar.gz to build tracker '/tmp/pip-build-tracker-f2kiz4fl'
2026-06-29T19:42:49,407   Created temporary directory: /tmp/pip-build-env-_et4i91p
2026-06-29T19:42:49,411   Installing build dependencies: started
2026-06-29T19:42:49,413   Running command pip subprocess to install build dependencies
2026-06-29T19:42:51,325   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-29T19:42:51,790   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
2026-06-29T19:42:51,813   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-29T19:42:53,848   Collecting setuptools>=61.0
2026-06-29T19:42:53,849     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-29T19:42:53,864     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-29T19:42:54,120   Collecting wheel
2026-06-29T19:42:54,122     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-29T19:42:54,135     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-29T19:42:54,318   Collecting packaging>=24.0
2026-06-29T19:42:54,319     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-29T19:42:54,332     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-29T19:42:54,524   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-29T19:42:54,545   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-29T19:42:54,621   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-29T19:42:54,662   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-29T19:42:54,688   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-29T19:42:54,797   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-29T19:42:57,808   Installing collected packages: setuptools, packaging, wheel
2026-06-29T19:43:01,646     Creating /tmp/pip-build-env-_et4i91p/overlay/local/bin
2026-06-29T19:43:01,648     changing mode of /tmp/pip-build-env-_et4i91p/overlay/local/bin/wheel to 755
2026-06-29T19:43:01,669   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-29T19:43:01,955   Installing build dependencies: finished with status 'done'
2026-06-29T19:43:01,969   Getting requirements to build wheel: started
2026-06-29T19:43:01,970   Running command Getting requirements to build wheel
2026-06-29T19:43:02,667   running egg_info
2026-06-29T19:43:02,672   writing oncoref.egg-info/PKG-INFO
2026-06-29T19:43:02,678   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-29T19:43:02,680   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-29T19:43:02,682   writing requirements to oncoref.egg-info/requires.txt
2026-06-29T19:43:02,684   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-29T19:43:02,718   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:02,728   reading manifest template 'MANIFEST.in'
2026-06-29T19:43:02,729   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-29T19:43:02,731   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-29T19:43:02,732   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-29T19:43:02,733   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-29T19:43:02,734   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-29T19:43:02,735   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-29T19:43:02,735   adding license file 'LICENSE'
2026-06-29T19:43:02,743   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:02,842   Getting requirements to build wheel: finished with status 'done'
2026-06-29T19:43:02,845   Created temporary directory: /tmp/pip-modern-metadata-qige40zd
2026-06-29T19:43:02,848   Preparing metadata (pyproject.toml): started
2026-06-29T19:43:02,849   Running command Preparing metadata (pyproject.toml)
2026-06-29T19:43:03,505   running dist_info
2026-06-29T19:43:03,515   creating /tmp/pip-modern-metadata-qige40zd/oncoref.egg-info
2026-06-29T19:43:03,516   writing /tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/PKG-INFO
2026-06-29T19:43:03,522   writing dependency_links to /tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/dependency_links.txt
2026-06-29T19:43:03,524   writing entry points to /tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/entry_points.txt
2026-06-29T19:43:03,526   writing requirements to /tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/requires.txt
2026-06-29T19:43:03,527   writing top-level names to /tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/top_level.txt
2026-06-29T19:43:03,529   writing manifest file '/tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:03,561   reading manifest file '/tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:03,563   reading manifest template 'MANIFEST.in'
2026-06-29T19:43:03,564   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-29T19:43:03,565   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-29T19:43:03,566   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-29T19:43:03,567   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-29T19:43:03,568   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-29T19:43:03,569   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-29T19:43:03,569   adding license file 'LICENSE'
2026-06-29T19:43:03,575   writing manifest file '/tmp/pip-modern-metadata-qige40zd/oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:03,577   creating '/tmp/pip-modern-metadata-qige40zd/oncoref-1.8.26.dist-info'
2026-06-29T19:43:03,703   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-29T19:43:03,707   Source in /tmp/pip-wheel-xqkhd0ow/oncoref_6857881e464f468bb72ad728695e8b44 has version 1.8.26, which satisfies requirement oncoref==1.8.26 from https://files.pythonhosted.org/packages/e7/5c/785ef9ba1884cb96cc5c5bb24da2b2b7d5836404cefa2cc6b9589707d264/oncoref-1.8.26.tar.gz
2026-06-29T19:43:03,708   Removed oncoref==1.8.26 from https://files.pythonhosted.org/packages/e7/5c/785ef9ba1884cb96cc5c5bb24da2b2b7d5836404cefa2cc6b9589707d264/oncoref-1.8.26.tar.gz from build tracker '/tmp/pip-build-tracker-f2kiz4fl'
2026-06-29T19:43:03,714 Created temporary directory: /tmp/pip-unpack-ultsna5i
2026-06-29T19:43:03,715 Building wheels for collected packages: oncoref
2026-06-29T19:43:03,719   Created temporary directory: /tmp/pip-wheel-9w71xwef
2026-06-29T19:43:03,719   Destination directory: /tmp/pip-wheel-9w71xwef
2026-06-29T19:43:03,722   Building wheel for oncoref (pyproject.toml): started
2026-06-29T19:43:03,723   Running command Building wheel for oncoref (pyproject.toml)
2026-06-29T19:43:04,365   running bdist_wheel
2026-06-29T19:43:04,382   running build
2026-06-29T19:43:04,383   running build_py
2026-06-29T19:43:04,390   creating build/lib/oncoref
2026-06-29T19:43:04,392   copying oncoref/expression.py -> build/lib/oncoref
2026-06-29T19:43:04,396   copying oncoref/cta_coverage.py -> build/lib/oncoref
2026-06-29T19:43:04,398   copying oncoref/antigen_coverage.py -> build/lib/oncoref
2026-06-29T19:43:04,401   copying oncoref/cli.py -> build/lib/oncoref
2026-06-29T19:43:04,404   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-29T19:43:04,406   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-29T19:43:04,408   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-29T19:43:04,410   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-29T19:43:04,413   copying oncoref/cancer_ontology.py -> build/lib/oncoref
2026-06-29T19:43:04,415   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-29T19:43:04,418   copying oncoref/samples.py -> build/lib/oncoref
2026-06-29T19:43:04,420   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-29T19:43:04,423   copying oncoref/cohorts.py -> build/lib/oncoref
2026-06-29T19:43:04,425   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-29T19:43:04,428   copying oncoref/plots.py -> build/lib/oncoref
2026-06-29T19:43:04,431   copying oncoref/genome.py -> build/lib/oncoref
2026-06-29T19:43:04,434   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-29T19:43:04,437   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-29T19:43:04,439   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-29T19:43:04,442   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-29T19:43:04,444   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-29T19:43:04,447   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-29T19:43:04,449   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-29T19:43:04,452   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-29T19:43:04,454   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-29T19:43:04,457   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-29T19:43:04,460   copying oncoref/cta_peptides.py -> build/lib/oncoref
2026-06-29T19:43:04,462   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-29T19:43:04,465   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-29T19:43:04,468   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-29T19:43:04,470   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-29T19:43:04,473   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-29T19:43:04,475   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-29T19:43:04,477   copying oncoref/ici_response.py -> build/lib/oncoref
2026-06-29T19:43:04,479   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-29T19:43:04,482   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-29T19:43:04,484   copying oncoref/cta.py -> build/lib/oncoref
2026-06-29T19:43:04,487   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-29T19:43:04,489   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-29T19:43:04,491   copying oncoref/version.py -> build/lib/oncoref
2026-06-29T19:43:04,493   copying oncoref/ici.py -> build/lib/oncoref
2026-06-29T19:43:04,496   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-29T19:43:04,511   creating build/lib/oncoref/data
2026-06-29T19:43:04,512   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,515   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,523   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,526   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,529   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,531   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,533   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,536   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,539   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,541   copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,543   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,548   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,551   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,553   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,555   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,558   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,560   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,562   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,564   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,572   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,575   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,578   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,581   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,583   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,587   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,590   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,593   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,596   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,599   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,601   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,605   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,611   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,614   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,617   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,619   copying oncoref/data/cancer-normal-tissue-map.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,622   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,626   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,628   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,634   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,636   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,640   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,642   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,645   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,648   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,651   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,653   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,657   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,660   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,662   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,668   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,670   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,673   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,676   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-29T19:43:04,679   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-29T19:43:04,706   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-29T19:43:04,726   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-29T19:43:04,742   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-29T19:43:04,973   installing to build/bdist.linux-armv7l/wheel
2026-06-29T19:43:04,974   running install
2026-06-29T19:43:04,996   running install_lib
2026-06-29T19:43:05,002   creating build/bdist.linux-armv7l/wheel
2026-06-29T19:43:05,005   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-29T19:43:05,006   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,010   copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,012   copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,014   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,016   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,019   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,021   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,023   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,025   copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,027   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,030   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,032   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,035   copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,037   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,039   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,042   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,044   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,046   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,049   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,052   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,054   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,056   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,058   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,061   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,063   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,065   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,067   copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,069   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,072   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,076   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-29T19:43:05,077   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,080   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,087   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,090   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,093   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,095   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,097   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,099   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,102   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,103   copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,106   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,110   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,113   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,114   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,116   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,118   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,119   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,121   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,123   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,131   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,133   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,136   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,139   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,141   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,143   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,146   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,149   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,151   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,163   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,166   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,168   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,169   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,172   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,177   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,179   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,181   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,184   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,195   copying build/lib/oncoref/data/cancer-normal-tissue-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,198   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,200   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,202   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,207   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,209   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,212   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,214   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,216   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,218   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,220   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,222   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,224   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,227   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,229   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,233   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,236   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,239   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,243   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,255   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:43:05,259   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,262   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,266   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,269   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,273   copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,276   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,279   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,282   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,286   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,289   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,292   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,295   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,299   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:43:05,303   running install_egg_info
2026-06-29T19:43:05,317   running egg_info
2026-06-29T19:43:05,326   writing oncoref.egg-info/PKG-INFO
2026-06-29T19:43:05,333   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-29T19:43:05,335   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-29T19:43:05,338   writing requirements to oncoref.egg-info/requires.txt
2026-06-29T19:43:05,340   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-29T19:43:05,359   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:05,368   reading manifest template 'MANIFEST.in'
2026-06-29T19:43:05,370   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-29T19:43:05,372   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-29T19:43:05,373   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-29T19:43:05,375   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-29T19:43:05,376   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-29T19:43:05,377   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-29T19:43:05,378   adding license file 'LICENSE'
2026-06-29T19:43:05,387   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:43:05,389   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.26-py3.11.egg-info
2026-06-29T19:43:05,401   running install_scripts
2026-06-29T19:43:05,414   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.26.dist-info/WHEEL
2026-06-29T19:43:05,418   creating '/tmp/pip-wheel-9w71xwef/.tmp-yq7h1abc/oncoref-1.8.26-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-29T19:43:05,422   adding 'oncoref/__init__.py'
2026-06-29T19:43:05,424   adding 'oncoref/antigen_coverage.py'
2026-06-29T19:43:05,426   adding 'oncoref/apd1.py'
2026-06-29T19:43:05,428   adding 'oncoref/cancer_genes.py'
2026-06-29T19:43:05,429   adding 'oncoref/cancer_ontology.py'
2026-06-29T19:43:05,437   adding 'oncoref/cancer_types.py'
2026-06-29T19:43:05,440   adding 'oncoref/catalog.py'
2026-06-29T19:43:05,443   adding 'oncoref/cli.py'
2026-06-29T19:43:05,445   adding 'oncoref/cohorts.py'
2026-06-29T19:43:05,449   adding 'oncoref/coverage.py'
2026-06-29T19:43:05,452   adding 'oncoref/cta.py'
2026-06-29T19:43:05,454   adding 'oncoref/cta_coverage.py'
2026-06-29T19:43:05,456   adding 'oncoref/cta_curation_plots.py'
2026-06-29T19:43:05,458   adding 'oncoref/cta_peptides.py'
2026-06-29T19:43:05,461   adding 'oncoref/cta_regen.py'
2026-06-29T19:43:05,464   adding 'oncoref/cta_tissues.py'
2026-06-29T19:43:05,468   adding 'oncoref/data_bundle.py'
2026-06-29T19:43:05,472   adding 'oncoref/data_manifest.py'
2026-06-29T19:43:05,484   adding 'oncoref/expression.py'
2026-06-29T19:43:05,487   adding 'oncoref/expression_builders.py'
2026-06-29T19:43:05,491   adding 'oncoref/expression_engine.py'
2026-06-29T19:43:05,493   adding 'oncoref/expression_registry.py'
2026-06-29T19:43:05,495   adding 'oncoref/fusions.py'
2026-06-29T19:43:05,498   adding 'oncoref/gene_families.py'
2026-06-29T19:43:05,500   adding 'oncoref/gene_ids.py'
2026-06-29T19:43:05,503   adding 'oncoref/gene_qc.py'
2026-06-29T19:43:05,505   adding 'oncoref/genome.py'
2026-06-29T19:43:05,507   adding 'oncoref/hpa.py'
2026-06-29T19:43:05,512   adding 'oncoref/ici.py'
2026-06-29T19:43:05,514   adding 'oncoref/ici_response.py'
2026-06-29T19:43:05,516   adding 'oncoref/incidence.py'
2026-06-29T19:43:05,518   adding 'oncoref/load_dataset.py'
2026-06-29T19:43:05,523   adding 'oncoref/normalization.py'
2026-06-29T19:43:05,526   adding 'oncoref/peptides.py'
2026-06-29T19:43:05,533   adding 'oncoref/plots.py'
2026-06-29T19:43:05,537   adding 'oncoref/proteoforms.py'
2026-06-29T19:43:05,539   adding 'oncoref/reference_data.py'
2026-06-29T19:43:05,542   adding 'oncoref/response_signatures.py'
2026-06-29T19:43:05,544   adding 'oncoref/samples.py'
2026-06-29T19:43:05,546   adding 'oncoref/source_matrices.py'
2026-06-29T19:43:05,548   adding 'oncoref/tmb.py'
2026-06-29T19:43:05,550   adding 'oncoref/version.py'
2026-06-29T19:43:05,556   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-29T19:43:05,559   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-29T19:43:05,561   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-29T19:43:05,568   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-29T19:43:05,572   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-29T19:43:05,576   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-29T19:43:05,580   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-29T19:43:05,584   adding 'oncoref/data/cancer-fusions.csv'
2026-06-29T19:43:05,603   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-29T19:43:05,610   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-29T19:43:05,614   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-29T19:43:05,632   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-29T19:43:05,637   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-29T19:43:05,641   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-29T19:43:05,646   adding 'oncoref/data/cancer-normal-tissue-map.csv'
2026-06-29T19:43:05,678   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-29T19:43:05,681   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-29T19:43:05,682   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-29T19:43:05,694   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-29T19:43:05,697   adding 'oncoref/data/cancer-tmb.csv'
2026-06-29T19:43:05,700   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-29T19:43:05,704   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-29T19:43:05,705   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-29T19:43:05,758   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-29T19:43:05,765   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-29T19:43:05,769   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-29T19:43:05,771   adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv'
2026-06-29T19:43:05,782   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-29T19:43:05,785   adding 'oncoref/data/cohort-registry.csv'
2026-06-29T19:43:05,786   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-29T19:43:05,787   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-29T19:43:05,789   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-29T19:43:05,790   adding 'oncoref/data/disease-state-rules.csv'
2026-06-29T19:43:05,817   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-29T19:43:05,824   adding 'oncoref/data/expression_sources.yaml'
2026-06-29T19:43:05,826   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-29T19:43:05,827   adding 'oncoref/data/family-burden-map.csv'
2026-06-29T19:43:05,829   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-29T19:43:05,830   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-29T19:43:05,832   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-29T19:43:05,833   adding 'oncoref/data/histone-genes.csv'
2026-06-29T19:43:05,835   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-29T19:43:05,837   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-29T19:43:05,838   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-29T19:43:05,879   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-29T19:43:05,885   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-29T19:43:05,888   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-29T19:43:05,890   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-29T19:43:05,894   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-29T19:43:05,897   adding 'oncoref/data/proteoform-groups.csv'
2026-06-29T19:43:05,900   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-29T19:43:05,902   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-29T19:43:05,910   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-29T19:43:05,913   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-29T19:43:05,932   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-29T19:43:05,935   adding 'oncoref/data/source-matrices.csv'
2026-06-29T19:43:05,936   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-29T19:43:05,939   adding 'oncoref-1.8.26.dist-info/licenses/LICENSE'
2026-06-29T19:43:05,941   adding 'oncoref-1.8.26.dist-info/METADATA'
2026-06-29T19:43:05,943   adding 'oncoref-1.8.26.dist-info/WHEEL'
2026-06-29T19:43:05,943   adding 'oncoref-1.8.26.dist-info/entry_points.txt'
2026-06-29T19:43:05,944   adding 'oncoref-1.8.26.dist-info/top_level.txt'
2026-06-29T19:43:05,946   adding 'oncoref-1.8.26.dist-info/RECORD'
2026-06-29T19:43:05,976   removing build/bdist.linux-armv7l/wheel
2026-06-29T19:43:06,109   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-29T19:43:06,155   Created wheel for oncoref: filename=oncoref-1.8.26-py3-none-any.whl size=1675201 sha256=577cc03d90c5cc790909fba9f7a20fcbb5a1825a744ad3917b8314b33d0dc71d
2026-06-29T19:43:06,157   Stored in directory: /tmp/pip-ephem-wheel-cache-zmjxs9yo/wheels/33/65/d0/4643128872fe7f211399ca5b8516d7ff72dbbfa95ef706c035
2026-06-29T19:43:06,171 Successfully built oncoref
2026-06-29T19:43:06,214 Removed build tracker: '/tmp/pip-build-tracker-f2kiz4fl'