2026-06-29T19:49:10,109 Created temporary directory: /tmp/pip-ephem-wheel-cache-qjsqvpg9
2026-06-29T19:49:10,111 Created temporary directory: /tmp/pip-build-tracker-03oc4tnv
2026-06-29T19:49:10,112 Initialized build tracking at /tmp/pip-build-tracker-03oc4tnv
2026-06-29T19:49:10,112 Created build tracker: /tmp/pip-build-tracker-03oc4tnv
2026-06-29T19:49:10,113 Entered build tracker: /tmp/pip-build-tracker-03oc4tnv
2026-06-29T19:49:10,114 Created temporary directory: /tmp/pip-wheel-hlze9tnf
2026-06-29T19:49:10,117 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
2026-06-29T19:49:10,119 Created temporary directory: /tmp/pip-ephem-wheel-cache-ujlu49ma
2026-06-29T19:49:10,141 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-29T19:49:10,144 2 location(s) to search for versions of oncoref:
2026-06-29T19:49:10,144 * https://pypi.org/simple/oncoref/
2026-06-29T19:49:10,144 * https://www.piwheels.org/simple/oncoref/
2026-06-29T19:49:10,145 Fetching project page and analyzing links: https://pypi.org/simple/oncoref/
2026-06-29T19:49:10,146 Getting page https://pypi.org/simple/oncoref/
2026-06-29T19:49:10,147 Found index url https://pypi.org/simple
2026-06-29T19:49:10,397 Fetched page https://pypi.org/simple/oncoref/ as application/vnd.pypi.simple.v1+json
2026-06-29T19:49:10,409   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)
2026-06-29T19:49:10,410   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
2026-06-29T19:49:10,411   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)
2026-06-29T19:49:10,412   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
2026-06-29T19:49:10,413   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)
2026-06-29T19:49:10,414   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
2026-06-29T19:49:10,414   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)
2026-06-29T19:49:10,415   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
2026-06-29T19:49:10,416   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)
2026-06-29T19:49:10,417   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
2026-06-29T19:49:10,418   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)
2026-06-29T19:49:10,419   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
2026-06-29T19:49:10,420   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)
2026-06-29T19:49:10,420   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
2026-06-29T19:49:10,421   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)
2026-06-29T19:49:10,422   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
2026-06-29T19:49:10,423   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)
2026-06-29T19:49:10,424   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
2026-06-29T19:49:10,424   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)
2026-06-29T19:49:10,425   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
2026-06-29T19:49:10,426   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)
2026-06-29T19:49:10,427   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
2026-06-29T19:49:10,427   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)
2026-06-29T19:49:10,428   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
2026-06-29T19:49:10,429   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)
2026-06-29T19:49:10,430   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
2026-06-29T19:49:10,431   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)
2026-06-29T19:49:10,432   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
2026-06-29T19:49:10,432   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)
2026-06-29T19:49:10,433   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
2026-06-29T19:49:10,434   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)
2026-06-29T19:49:10,434   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
2026-06-29T19:49:10,435   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)
2026-06-29T19:49:10,436   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
2026-06-29T19:49:10,436   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)
2026-06-29T19:49:10,437   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
2026-06-29T19:49:10,438   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)
2026-06-29T19:49:10,439   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
2026-06-29T19:49:10,439   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)
2026-06-29T19:49:10,440   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
2026-06-29T19:49:10,441   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)
2026-06-29T19:49:10,442   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
2026-06-29T19:49:10,443   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)
2026-06-29T19:49:10,444   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
2026-06-29T19:49:10,444   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)
2026-06-29T19:49:10,445   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
2026-06-29T19:49:10,445   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)
2026-06-29T19:49:10,446   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
2026-06-29T19:49:10,447   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)
2026-06-29T19:49:10,448   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
2026-06-29T19:49:10,448   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)
2026-06-29T19:49:10,449   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
2026-06-29T19:49:10,450   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)
2026-06-29T19:49:10,451   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
2026-06-29T19:49:10,451   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)
2026-06-29T19:49:10,452   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
2026-06-29T19:49:10,453   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)
2026-06-29T19:49:10,454   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
2026-06-29T19:49:10,455   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)
2026-06-29T19:49:10,456   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
2026-06-29T19:49:10,456 Fetching project page and analyzing links: https://www.piwheels.org/simple/oncoref/
2026-06-29T19:49:10,457 Getting page https://www.piwheels.org/simple/oncoref/
2026-06-29T19:49:10,458 Found index url https://www.piwheels.org/simple
2026-06-29T19:49:10,758 Fetched page https://www.piwheels.org/simple/oncoref/ as text/html
2026-06-29T19:49:10,767   Skipping link: No binaries permitted for oncoref: https://www.piwheels.org/simple/oncoref/oncoref-1.8.26-py3-none-any.whl#sha256=577cc03d90c5cc790909fba9f7a20fcbb5a1825a744ad3917b8314b33d0dc71d (from https://www.piwheels.org/simple/oncoref/) (requires-python:>=3.9)
2026-06-29T19:49:10,768   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)
2026-06-29T19:49:10,768   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)
2026-06-29T19:49:10,769   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)
2026-06-29T19:49:10,769   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)
2026-06-29T19:49:10,770   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)
2026-06-29T19:49:10,771   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)
2026-06-29T19:49:10,771   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)
2026-06-29T19:49:10,772   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)
2026-06-29T19:49:10,772   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)
2026-06-29T19:49:10,773   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)
2026-06-29T19:49:10,774   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)
2026-06-29T19:49:10,774   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)
2026-06-29T19:49:10,774   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)
2026-06-29T19:49:10,775   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)
2026-06-29T19:49:10,775   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)
2026-06-29T19:49:10,776   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)
2026-06-29T19:49:10,776   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)
2026-06-29T19:49:10,777   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)
2026-06-29T19:49:10,777   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)
2026-06-29T19:49:10,778   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)
2026-06-29T19:49:10,779   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)
2026-06-29T19:49:10,779   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)
2026-06-29T19:49:10,780   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)
2026-06-29T19:49:10,780   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)
2026-06-29T19:49:10,781   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)
2026-06-29T19:49:10,781   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)
2026-06-29T19:49:10,782   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)
2026-06-29T19:49:10,782   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)
2026-06-29T19:49:10,783 Skipping link: not a file: https://www.piwheels.org/simple/oncoref/
2026-06-29T19:49:10,783 Skipping link: not a file: https://pypi.org/simple/oncoref/
2026-06-29T19:49:10,806 Given no hashes to check 1 links for project 'oncoref': discarding no candidates
2026-06-29T19:49:10,825 Collecting oncoref==1.8.27
2026-06-29T19:49:10,828   Created temporary directory: /tmp/pip-unpack-65xsbp73
2026-06-29T19:49:11,157   Downloading oncoref-1.8.27.tar.gz (1.7 MB)
2026-06-29T19:49:11,878   Added oncoref==1.8.27 from https://files.pythonhosted.org/packages/b1/35/566b316d8325fc6cf07c3cb72c7432a37302396da59a1b78dbd75c3c8e2b/oncoref-1.8.27.tar.gz to build tracker '/tmp/pip-build-tracker-03oc4tnv'
2026-06-29T19:49:11,889   Created temporary directory: /tmp/pip-build-env-m9hhe2mj
2026-06-29T19:49:11,894   Installing build dependencies: started
2026-06-29T19:49:11,896   Running command pip subprocess to install build dependencies
2026-06-29T19:49:13,033   Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11)
2026-06-29T19:49:13,508   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
2026-06-29T19:49:13,531   Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple
2026-06-29T19:49:15,527   Collecting setuptools>=61.0
2026-06-29T19:49:15,528     Obtaining dependency information for setuptools>=61.0 from https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata
2026-06-29T19:49:15,542     Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl.metadata (6.5 kB)
2026-06-29T19:49:15,779   Collecting wheel
2026-06-29T19:49:15,780     Obtaining dependency information for wheel from https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata
2026-06-29T19:49:15,792     Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl.metadata (2.3 kB)
2026-06-29T19:49:15,976   Collecting packaging>=24.0
2026-06-29T19:49:15,977     Obtaining dependency information for packaging>=24.0 from https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata
2026-06-29T19:49:16,004     Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl.metadata (3.5 kB)
2026-06-29T19:49:16,192   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-29T19:49:16,211   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-29T19:49:16,297   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-29T19:49:16,337   Using cached https://www.piwheels.org/simple/wheel/wheel-0.47.0-py3-none-any.whl (32 kB)
2026-06-29T19:49:16,362   Using cached https://www.piwheels.org/simple/packaging/packaging-26.2-py3-none-any.whl (100 kB)
2026-06-29T19:49:16,471   Using cached https://www.piwheels.org/simple/setuptools/setuptools-82.0.1-py3-none-any.whl (1.0 MB)
2026-06-29T19:49:19,225   Installing collected packages: setuptools, packaging, wheel
2026-06-29T19:49:23,116     Creating /tmp/pip-build-env-m9hhe2mj/overlay/local/bin
2026-06-29T19:49:23,118     changing mode of /tmp/pip-build-env-m9hhe2mj/overlay/local/bin/wheel to 755
2026-06-29T19:49:23,141   Successfully installed packaging-26.2 setuptools-82.0.1 wheel-0.47.0
2026-06-29T19:49:23,430   Installing build dependencies: finished with status 'done'
2026-06-29T19:49:23,437   Getting requirements to build wheel: started
2026-06-29T19:49:23,438   Running command Getting requirements to build wheel
2026-06-29T19:49:24,142   running egg_info
2026-06-29T19:49:24,147   writing oncoref.egg-info/PKG-INFO
2026-06-29T19:49:24,153   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-29T19:49:24,155   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-29T19:49:24,157   writing requirements to oncoref.egg-info/requires.txt
2026-06-29T19:49:24,158   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-29T19:49:24,192   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:24,202   reading manifest template 'MANIFEST.in'
2026-06-29T19:49:24,203   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-29T19:49:24,204   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-29T19:49:24,205   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-29T19:49:24,207   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-29T19:49:24,207   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-29T19:49:24,208   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-29T19:49:24,209   adding license file 'LICENSE'
2026-06-29T19:49:24,217   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:24,315   Getting requirements to build wheel: finished with status 'done'
2026-06-29T19:49:24,318   Created temporary directory: /tmp/pip-modern-metadata-9t5k4_ah
2026-06-29T19:49:24,320   Preparing metadata (pyproject.toml): started
2026-06-29T19:49:24,322   Running command Preparing metadata (pyproject.toml)
2026-06-29T19:49:24,966   running dist_info
2026-06-29T19:49:24,976   creating /tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info
2026-06-29T19:49:24,977   writing /tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/PKG-INFO
2026-06-29T19:49:24,984   writing dependency_links to /tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/dependency_links.txt
2026-06-29T19:49:24,985   writing entry points to /tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/entry_points.txt
2026-06-29T19:49:24,988   writing requirements to /tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/requires.txt
2026-06-29T19:49:24,989   writing top-level names to /tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/top_level.txt
2026-06-29T19:49:24,991   writing manifest file '/tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:25,023   reading manifest file '/tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:25,025   reading manifest template 'MANIFEST.in'
2026-06-29T19:49:25,027   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-29T19:49:25,028   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-29T19:49:25,029   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-29T19:49:25,030   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-29T19:49:25,031   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-29T19:49:25,032   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-29T19:49:25,032   adding license file 'LICENSE'
2026-06-29T19:49:25,038   writing manifest file '/tmp/pip-modern-metadata-9t5k4_ah/oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:25,040   creating '/tmp/pip-modern-metadata-9t5k4_ah/oncoref-1.8.27.dist-info'
2026-06-29T19:49:25,172   Preparing metadata (pyproject.toml): finished with status 'done'
2026-06-29T19:49:25,177   Source in /tmp/pip-wheel-hlze9tnf/oncoref_8913856670a740fa87bc75233b38684d has version 1.8.27, which satisfies requirement oncoref==1.8.27 from https://files.pythonhosted.org/packages/b1/35/566b316d8325fc6cf07c3cb72c7432a37302396da59a1b78dbd75c3c8e2b/oncoref-1.8.27.tar.gz
2026-06-29T19:49:25,178   Removed oncoref==1.8.27 from https://files.pythonhosted.org/packages/b1/35/566b316d8325fc6cf07c3cb72c7432a37302396da59a1b78dbd75c3c8e2b/oncoref-1.8.27.tar.gz from build tracker '/tmp/pip-build-tracker-03oc4tnv'
2026-06-29T19:49:25,184 Created temporary directory: /tmp/pip-unpack-gn9uvn5h
2026-06-29T19:49:25,185 Building wheels for collected packages: oncoref
2026-06-29T19:49:25,189   Created temporary directory: /tmp/pip-wheel-gxs7_4sh
2026-06-29T19:49:25,190   Destination directory: /tmp/pip-wheel-gxs7_4sh
2026-06-29T19:49:25,192   Building wheel for oncoref (pyproject.toml): started
2026-06-29T19:49:25,193   Running command Building wheel for oncoref (pyproject.toml)
2026-06-29T19:49:25,810   running bdist_wheel
2026-06-29T19:49:25,827   running build
2026-06-29T19:49:25,828   running build_py
2026-06-29T19:49:25,835   creating build/lib/oncoref
2026-06-29T19:49:25,837   copying oncoref/proteoforms.py -> build/lib/oncoref
2026-06-29T19:49:25,840   copying oncoref/cta_regen.py -> build/lib/oncoref
2026-06-29T19:49:25,843   copying oncoref/expression_engine.py -> build/lib/oncoref
2026-06-29T19:49:25,845   copying oncoref/expression.py -> build/lib/oncoref
2026-06-29T19:49:25,849   copying oncoref/gene_ids.py -> build/lib/oncoref
2026-06-29T19:49:25,851   copying oncoref/cta.py -> build/lib/oncoref
2026-06-29T19:49:25,854   copying oncoref/source_matrices.py -> build/lib/oncoref
2026-06-29T19:49:25,856   copying oncoref/data_bundle.py -> build/lib/oncoref
2026-06-29T19:49:25,859   copying oncoref/cta_tissues.py -> build/lib/oncoref
2026-06-29T19:49:25,861   copying oncoref/reference_data.py -> build/lib/oncoref
2026-06-29T19:49:25,864   copying oncoref/ici.py -> build/lib/oncoref
2026-06-29T19:49:25,867   copying oncoref/expression_builders.py -> build/lib/oncoref
2026-06-29T19:49:25,869   copying oncoref/cohorts.py -> build/lib/oncoref
2026-06-29T19:49:25,871   copying oncoref/cli.py -> build/lib/oncoref
2026-06-29T19:49:25,874   copying oncoref/load_dataset.py -> build/lib/oncoref
2026-06-29T19:49:25,876   copying oncoref/antigen_coverage.py -> build/lib/oncoref
2026-06-29T19:49:25,878   copying oncoref/response_signatures.py -> build/lib/oncoref
2026-06-29T19:49:25,880   copying oncoref/coverage.py -> build/lib/oncoref
2026-06-29T19:49:25,883   copying oncoref/cancer_ontology.py -> build/lib/oncoref
2026-06-29T19:49:25,885   copying oncoref/cancer_types.py -> build/lib/oncoref
2026-06-29T19:49:25,888   copying oncoref/hpa.py -> build/lib/oncoref
2026-06-29T19:49:25,890   copying oncoref/peptides.py -> build/lib/oncoref
2026-06-29T19:49:25,892   copying oncoref/samples.py -> build/lib/oncoref
2026-06-29T19:49:25,894   copying oncoref/__init__.py -> build/lib/oncoref
2026-06-29T19:49:25,897   copying oncoref/genome.py -> build/lib/oncoref
2026-06-29T19:49:25,899   copying oncoref/ici_response.py -> build/lib/oncoref
2026-06-29T19:49:25,901   copying oncoref/catalog.py -> build/lib/oncoref
2026-06-29T19:49:25,904   copying oncoref/fusions.py -> build/lib/oncoref
2026-06-29T19:49:25,906   copying oncoref/cta_peptides.py -> build/lib/oncoref
2026-06-29T19:49:25,907   copying oncoref/gene_qc.py -> build/lib/oncoref
2026-06-29T19:49:25,910   copying oncoref/incidence.py -> build/lib/oncoref
2026-06-29T19:49:25,912   copying oncoref/apd1.py -> build/lib/oncoref
2026-06-29T19:49:25,914   copying oncoref/tmb.py -> build/lib/oncoref
2026-06-29T19:49:25,916   copying oncoref/expression_registry.py -> build/lib/oncoref
2026-06-29T19:49:25,918   copying oncoref/gene_families.py -> build/lib/oncoref
2026-06-29T19:49:25,920   copying oncoref/cancer_genes.py -> build/lib/oncoref
2026-06-29T19:49:25,922   copying oncoref/data_manifest.py -> build/lib/oncoref
2026-06-29T19:49:25,925   copying oncoref/cta_coverage.py -> build/lib/oncoref
2026-06-29T19:49:25,926   copying oncoref/cta_curation_plots.py -> build/lib/oncoref
2026-06-29T19:49:25,928   copying oncoref/version.py -> build/lib/oncoref
2026-06-29T19:49:25,930   copying oncoref/normalization.py -> build/lib/oncoref
2026-06-29T19:49:25,933   copying oncoref/plots.py -> build/lib/oncoref
2026-06-29T19:49:25,947   creating build/lib/oncoref/data
2026-06-29T19:49:25,948   copying oncoref/data/ensembl-id-aliases.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,956   copying oncoref/data/family-burden-map.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,958   copying oncoref/data/cancer-lineage-groups.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,960   copying oncoref/data/cta-ihc-unreliable.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,962   copying oncoref/data/cancer-lineage-group-overrides.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,964   copying oncoref/data/proteoform-groups.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,966   copying oncoref/data/cancer-normal-tissue-map.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,969   copying oncoref/data/cancer-expression-source-candidates.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,972   copying oncoref/data/histone-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,974   copying oncoref/data/cancer-subtype-groupings.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,976   copying oncoref/data/cancer-driver-variants.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,979   copying oncoref/data/fusion-expression-effects.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,981   copying oncoref/data/cancer-frameshift-burden.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,984   copying oncoref/data/hemoglobin-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,986   copying oncoref/data/degenerate-subtype-pairs.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,988   copying oncoref/data/cancer-incidence-mortality.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,990   copying oncoref/data/cancer-testis-antigens.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,994   copying oncoref/data/numt-pseudogenes.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,997   copying oncoref/data/source-matrices.csv -> build/lib/oncoref/data
2026-06-29T19:49:25,999   copying oncoref/data/rare-cancer-fusion-rules.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,002   copying oncoref/data/small-noncoding-rnas.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,007   copying oncoref/data/cancer-fusions.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,010   copying oncoref/data/cancer-code-burden-map.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,012   copying oncoref/data/cta-candidate-references.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,014   copying oncoref/data/cancer-tmb.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,017   copying oncoref/data/cancer-cohort-aggregates.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,019   copying oncoref/data/ribosomal-protein-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,021   copying oncoref/data/cancer-ici-response.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,024   copying oncoref/data/cancer-apd1-response.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,027   copying oncoref/data/clean-tpm-censored-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,031   copying oncoref/data/cohort-registry.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,034   copying oncoref/data/cancer-type-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,037   copying oncoref/data/disease-state-rules.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,039   copying oncoref/data/cancer-key-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,045   copying oncoref/data/fusion-surrogate-expression.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,047   copying oncoref/data/extra-tx-mappings.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,050   copying oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,053   copying oncoref/data/tissue-burden-map.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,055   copying oncoref/data/mitochondrial-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,057   copying oncoref/data/nuclear-retained-lncrnas.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,059   copying oncoref/data/cancer-driver-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,063   copying oncoref/data/housekeeping-genes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,065   copying oncoref/data/cdna-identical-gene-groups.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,068   copying oncoref/data/narrative-gene-sets.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,070   copying oncoref/data/proteoform-collapse-overrides.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,073   copying oncoref/data/cancer-type-registry.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,076   copying oncoref/data/cancer-viral-antigens.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,078   copying oncoref/data/rrna-and-pseudogenes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,081   copying oncoref/data/proteoform-groups-genome.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,085   copying oncoref/data/censored-gene-reference-tpm.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,088   copying oncoref/data/cancer-ici-response-estimates.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,094   copying oncoref/data/ribosomal-protein-pseudogenes.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,097   copying oncoref/data/cancer-response-signatures.csv -> build/lib/oncoref/data
2026-06-29T19:49:26,099   copying oncoref/data/canonical-gene-space.csv.gz -> build/lib/oncoref/data
2026-06-29T19:49:26,109   copying oncoref/data/cancer-reference-expression-samples.csv.gz -> build/lib/oncoref/data
2026-06-29T19:49:26,116   copying oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/lib/oncoref/data
2026-06-29T19:49:26,124   copying oncoref/data/expression_sources.yaml -> build/lib/oncoref/data
2026-06-29T19:49:26,138   installing to build/bdist.linux-armv7l/wheel
2026-06-29T19:49:26,138   running install
2026-06-29T19:49:26,160   running install_lib
2026-06-29T19:49:26,166   creating build/bdist.linux-armv7l/wheel
2026-06-29T19:49:26,169   creating build/bdist.linux-armv7l/wheel/oncoref
2026-06-29T19:49:26,170   copying build/lib/oncoref/proteoforms.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,173   copying build/lib/oncoref/cta_regen.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,176   copying build/lib/oncoref/expression_engine.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,178   copying build/lib/oncoref/expression.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,182   copying build/lib/oncoref/gene_ids.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,184   copying build/lib/oncoref/cta.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,187   copying build/lib/oncoref/source_matrices.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,189   copying build/lib/oncoref/data_bundle.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,192   copying build/lib/oncoref/cta_tissues.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,194   copying build/lib/oncoref/reference_data.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,196   copying build/lib/oncoref/ici.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,199   copying build/lib/oncoref/expression_builders.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,201   copying build/lib/oncoref/cohorts.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,203   copying build/lib/oncoref/cli.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,205   copying build/lib/oncoref/load_dataset.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,208   copying build/lib/oncoref/antigen_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,209   copying build/lib/oncoref/response_signatures.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,211   copying build/lib/oncoref/coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,214   copying build/lib/oncoref/cancer_ontology.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,216   copying build/lib/oncoref/cancer_types.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,220   copying build/lib/oncoref/hpa.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,222   copying build/lib/oncoref/peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,224   copying build/lib/oncoref/samples.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,226   copying build/lib/oncoref/__init__.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,228   copying build/lib/oncoref/genome.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,231   copying build/lib/oncoref/ici_response.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,233   copying build/lib/oncoref/catalog.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,235   copying build/lib/oncoref/fusions.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,238   copying build/lib/oncoref/cta_peptides.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,239   copying build/lib/oncoref/gene_qc.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,242   copying build/lib/oncoref/incidence.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,244   copying build/lib/oncoref/apd1.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,246   copying build/lib/oncoref/tmb.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,248   copying build/lib/oncoref/expression_registry.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,250   copying build/lib/oncoref/gene_families.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,253   copying build/lib/oncoref/cancer_genes.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,255   copying build/lib/oncoref/data_manifest.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,257   copying build/lib/oncoref/cta_coverage.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,261   creating build/bdist.linux-armv7l/wheel/oncoref/data
2026-06-29T19:49:26,262   copying build/lib/oncoref/data/ensembl-id-aliases.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,270   copying build/lib/oncoref/data/family-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,272   copying build/lib/oncoref/data/cancer-lineage-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,274   copying build/lib/oncoref/data/canonical-gene-space.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,283   copying build/lib/oncoref/data/cta-ihc-unreliable.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,284   copying build/lib/oncoref/data/cancer-lineage-group-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,286   copying build/lib/oncoref/data/proteoform-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,288   copying build/lib/oncoref/data/cancer-normal-tissue-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,290   copying build/lib/oncoref/data/cancer-expression-source-candidates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,292   copying build/lib/oncoref/data/histone-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,295   copying build/lib/oncoref/data/cancer-subtype-groupings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,296   copying build/lib/oncoref/data/cancer-driver-variants.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,299   copying build/lib/oncoref/data/fusion-expression-effects.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,301   copying build/lib/oncoref/data/cancer-frameshift-burden.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,303   copying build/lib/oncoref/data/hemoglobin-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,305   copying build/lib/oncoref/data/degenerate-subtype-pairs.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,307   copying build/lib/oncoref/data/cancer-incidence-mortality.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,309   copying build/lib/oncoref/data/cancer-testis-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,314   copying build/lib/oncoref/data/numt-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,317   copying build/lib/oncoref/data/source-matrices.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,319   copying build/lib/oncoref/data/rare-cancer-fusion-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,321   copying build/lib/oncoref/data/small-noncoding-rnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,326   copying build/lib/oncoref/data/cancer-fusions.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,329   copying build/lib/oncoref/data/cancer-code-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,331   copying build/lib/oncoref/data/cta-candidate-references.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,333   copying build/lib/oncoref/data/cancer-tmb.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,336   copying build/lib/oncoref/data/cancer-cohort-aggregates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,338   copying build/lib/oncoref/data/ribosomal-protein-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,341   copying build/lib/oncoref/data/cancer-ici-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,344   copying build/lib/oncoref/data/cancer-apd1-response.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,348   copying build/lib/oncoref/data/clean-tpm-censored-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,352   copying build/lib/oncoref/data/cohort-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,355   copying build/lib/oncoref/data/cancer-reference-expression-samples.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,362   copying build/lib/oncoref/data/cancer-type-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,365   copying build/lib/oncoref/data/disease-state-rules.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,366   copying build/lib/oncoref/data/cancer-key-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,370   copying build/lib/oncoref/data/fusion-surrogate-expression.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,373   copying build/lib/oncoref/data/expression_sources.yaml -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,375   copying build/lib/oncoref/data/ncbi-symbol-synonyms.csv.gz -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,383   copying build/lib/oncoref/data/extra-tx-mappings.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,386   copying build/lib/oncoref/data/clean-tpm-biological-housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,388   copying build/lib/oncoref/data/tissue-burden-map.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,390   copying build/lib/oncoref/data/mitochondrial-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,392   copying build/lib/oncoref/data/nuclear-retained-lncrnas.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,394   copying build/lib/oncoref/data/cancer-driver-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,397   copying build/lib/oncoref/data/housekeeping-genes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,399   copying build/lib/oncoref/data/cdna-identical-gene-groups.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,402   copying build/lib/oncoref/data/narrative-gene-sets.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,403   copying build/lib/oncoref/data/proteoform-collapse-overrides.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,405   copying build/lib/oncoref/data/cancer-type-registry.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,408   copying build/lib/oncoref/data/cancer-viral-antigens.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,410   copying build/lib/oncoref/data/rrna-and-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,413   copying build/lib/oncoref/data/proteoform-groups-genome.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,417   copying build/lib/oncoref/data/censored-gene-reference-tpm.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,420   copying build/lib/oncoref/data/cancer-ici-response-estimates.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,429   copying build/lib/oncoref/data/ribosomal-protein-pseudogenes.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,432   copying build/lib/oncoref/data/cancer-response-signatures.csv -> build/bdist.linux-armv7l/wheel/./oncoref/data
2026-06-29T19:49:26,435   copying build/lib/oncoref/cta_curation_plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,438   copying build/lib/oncoref/version.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,440   copying build/lib/oncoref/normalization.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,444   copying build/lib/oncoref/plots.py -> build/bdist.linux-armv7l/wheel/./oncoref
2026-06-29T19:49:26,448   running install_egg_info
2026-06-29T19:49:26,458   running egg_info
2026-06-29T19:49:26,464   writing oncoref.egg-info/PKG-INFO
2026-06-29T19:49:26,470   writing dependency_links to oncoref.egg-info/dependency_links.txt
2026-06-29T19:49:26,472   writing entry points to oncoref.egg-info/entry_points.txt
2026-06-29T19:49:26,475   writing requirements to oncoref.egg-info/requires.txt
2026-06-29T19:49:26,476   writing top-level names to oncoref.egg-info/top_level.txt
2026-06-29T19:49:26,495   reading manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:26,505   reading manifest template 'MANIFEST.in'
2026-06-29T19:49:26,507   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression'
2026-06-29T19:49:26,508   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-percentiles'
2026-06-29T19:49:26,510   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-representatives'
2026-06-29T19:49:26,512   warning: no previously-included files matching '*' found under directory 'oncoref/data/cancer-reference-expression-within-sample-top5'
2026-06-29T19:49:26,513   warning: no previously-included files found matching 'oncoref/data/pan-cancer-expression.csv'
2026-06-29T19:49:26,515   warning: no previously-included files found matching 'oncoref/data/hpa-cell-type-expression.csv'
2026-06-29T19:49:26,515   adding license file 'LICENSE'
2026-06-29T19:49:26,524   writing manifest file 'oncoref.egg-info/SOURCES.txt'
2026-06-29T19:49:26,526   Copying oncoref.egg-info to build/bdist.linux-armv7l/wheel/./oncoref-1.8.27-py3.11.egg-info
2026-06-29T19:49:26,539   running install_scripts
2026-06-29T19:49:26,553   creating build/bdist.linux-armv7l/wheel/oncoref-1.8.27.dist-info/WHEEL
2026-06-29T19:49:26,556   creating '/tmp/pip-wheel-gxs7_4sh/.tmp-3hz7gv5c/oncoref-1.8.27-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it
2026-06-29T19:49:26,560   adding 'oncoref/__init__.py'
2026-06-29T19:49:26,563   adding 'oncoref/antigen_coverage.py'
2026-06-29T19:49:26,565   adding 'oncoref/apd1.py'
2026-06-29T19:49:26,567   adding 'oncoref/cancer_genes.py'
2026-06-29T19:49:26,568   adding 'oncoref/cancer_ontology.py'
2026-06-29T19:49:26,576   adding 'oncoref/cancer_types.py'
2026-06-29T19:49:26,579   adding 'oncoref/catalog.py'
2026-06-29T19:49:26,583   adding 'oncoref/cli.py'
2026-06-29T19:49:26,585   adding 'oncoref/cohorts.py'
2026-06-29T19:49:26,588   adding 'oncoref/coverage.py'
2026-06-29T19:49:26,592   adding 'oncoref/cta.py'
2026-06-29T19:49:26,594   adding 'oncoref/cta_coverage.py'
2026-06-29T19:49:26,596   adding 'oncoref/cta_curation_plots.py'
2026-06-29T19:49:26,598   adding 'oncoref/cta_peptides.py'
2026-06-29T19:49:26,602   adding 'oncoref/cta_regen.py'
2026-06-29T19:49:26,604   adding 'oncoref/cta_tissues.py'
2026-06-29T19:49:26,609   adding 'oncoref/data_bundle.py'
2026-06-29T19:49:26,611   adding 'oncoref/data_manifest.py'
2026-06-29T19:49:26,624   adding 'oncoref/expression.py'
2026-06-29T19:49:26,627   adding 'oncoref/expression_builders.py'
2026-06-29T19:49:26,630   adding 'oncoref/expression_engine.py'
2026-06-29T19:49:26,632   adding 'oncoref/expression_registry.py'
2026-06-29T19:49:26,634   adding 'oncoref/fusions.py'
2026-06-29T19:49:26,637   adding 'oncoref/gene_families.py'
2026-06-29T19:49:26,639   adding 'oncoref/gene_ids.py'
2026-06-29T19:49:26,641   adding 'oncoref/gene_qc.py'
2026-06-29T19:49:26,643   adding 'oncoref/genome.py'
2026-06-29T19:49:26,645   adding 'oncoref/hpa.py'
2026-06-29T19:49:26,649   adding 'oncoref/ici.py'
2026-06-29T19:49:26,651   adding 'oncoref/ici_response.py'
2026-06-29T19:49:26,653   adding 'oncoref/incidence.py'
2026-06-29T19:49:26,655   adding 'oncoref/load_dataset.py'
2026-06-29T19:49:26,659   adding 'oncoref/normalization.py'
2026-06-29T19:49:26,661   adding 'oncoref/peptides.py'
2026-06-29T19:49:26,668   adding 'oncoref/plots.py'
2026-06-29T19:49:26,671   adding 'oncoref/proteoforms.py'
2026-06-29T19:49:26,673   adding 'oncoref/reference_data.py'
2026-06-29T19:49:26,675   adding 'oncoref/response_signatures.py'
2026-06-29T19:49:26,676   adding 'oncoref/samples.py'
2026-06-29T19:49:26,678   adding 'oncoref/source_matrices.py'
2026-06-29T19:49:26,679   adding 'oncoref/tmb.py'
2026-06-29T19:49:26,681   adding 'oncoref/version.py'
2026-06-29T19:49:26,684   adding 'oncoref/data/cancer-apd1-response.csv'
2026-06-29T19:49:26,686   adding 'oncoref/data/cancer-code-burden-map.csv'
2026-06-29T19:49:26,687   adding 'oncoref/data/cancer-cohort-aggregates.csv'
2026-06-29T19:49:26,692   adding 'oncoref/data/cancer-driver-genes.csv'
2026-06-29T19:49:26,694   adding 'oncoref/data/cancer-driver-variants.csv'
2026-06-29T19:49:26,696   adding 'oncoref/data/cancer-expression-source-candidates.csv'
2026-06-29T19:49:26,698   adding 'oncoref/data/cancer-frameshift-burden.csv'
2026-06-29T19:49:26,701   adding 'oncoref/data/cancer-fusions.csv'
2026-06-29T19:49:26,718   adding 'oncoref/data/cancer-ici-response-estimates.csv'
2026-06-29T19:49:26,723   adding 'oncoref/data/cancer-ici-response.csv'
2026-06-29T19:49:26,724   adding 'oncoref/data/cancer-incidence-mortality.csv'
2026-06-29T19:49:26,739   adding 'oncoref/data/cancer-key-genes.csv'
2026-06-29T19:49:26,741   adding 'oncoref/data/cancer-lineage-group-overrides.csv'
2026-06-29T19:49:26,742   adding 'oncoref/data/cancer-lineage-groups.csv'
2026-06-29T19:49:26,744   adding 'oncoref/data/cancer-normal-tissue-map.csv'
2026-06-29T19:49:26,772   adding 'oncoref/data/cancer-reference-expression-samples.csv.gz'
2026-06-29T19:49:26,776   adding 'oncoref/data/cancer-response-signatures.csv'
2026-06-29T19:49:26,777   adding 'oncoref/data/cancer-subtype-groupings.csv'
2026-06-29T19:49:26,789   adding 'oncoref/data/cancer-testis-antigens.csv'
2026-06-29T19:49:26,792   adding 'oncoref/data/cancer-tmb.csv'
2026-06-29T19:49:26,794   adding 'oncoref/data/cancer-type-genes.csv'
2026-06-29T19:49:26,798   adding 'oncoref/data/cancer-type-registry.csv'
2026-06-29T19:49:26,800   adding 'oncoref/data/cancer-viral-antigens.csv'
2026-06-29T19:49:26,853   adding 'oncoref/data/canonical-gene-space.csv.gz'
2026-06-29T19:49:26,859   adding 'oncoref/data/cdna-identical-gene-groups.csv'
2026-06-29T19:49:26,863   adding 'oncoref/data/censored-gene-reference-tpm.csv'
2026-06-29T19:49:26,865   adding 'oncoref/data/clean-tpm-biological-housekeeping-genes.csv'
2026-06-29T19:49:26,875   adding 'oncoref/data/clean-tpm-censored-genes.csv'
2026-06-29T19:49:26,878   adding 'oncoref/data/cohort-registry.csv'
2026-06-29T19:49:26,879   adding 'oncoref/data/cta-candidate-references.csv'
2026-06-29T19:49:26,880   adding 'oncoref/data/cta-ihc-unreliable.csv'
2026-06-29T19:49:26,882   adding 'oncoref/data/degenerate-subtype-pairs.csv'
2026-06-29T19:49:26,883   adding 'oncoref/data/disease-state-rules.csv'
2026-06-29T19:49:26,910   adding 'oncoref/data/ensembl-id-aliases.csv'
2026-06-29T19:49:26,917   adding 'oncoref/data/expression_sources.yaml'
2026-06-29T19:49:26,919   adding 'oncoref/data/extra-tx-mappings.csv'
2026-06-29T19:49:26,920   adding 'oncoref/data/family-burden-map.csv'
2026-06-29T19:49:26,921   adding 'oncoref/data/fusion-expression-effects.csv'
2026-06-29T19:49:26,923   adding 'oncoref/data/fusion-surrogate-expression.csv'
2026-06-29T19:49:26,924   adding 'oncoref/data/hemoglobin-genes.csv'
2026-06-29T19:49:26,926   adding 'oncoref/data/histone-genes.csv'
2026-06-29T19:49:26,927   adding 'oncoref/data/housekeeping-genes.csv'
2026-06-29T19:49:26,928   adding 'oncoref/data/mitochondrial-genes.csv'
2026-06-29T19:49:26,930   adding 'oncoref/data/narrative-gene-sets.csv'
2026-06-29T19:49:26,970   adding 'oncoref/data/ncbi-symbol-synonyms.csv.gz'
2026-06-29T19:49:26,974   adding 'oncoref/data/nuclear-retained-lncrnas.csv'
2026-06-29T19:49:26,976   adding 'oncoref/data/numt-pseudogenes.csv'
2026-06-29T19:49:26,977   adding 'oncoref/data/proteoform-collapse-overrides.csv'
2026-06-29T19:49:26,980   adding 'oncoref/data/proteoform-groups-genome.csv'
2026-06-29T19:49:26,982   adding 'oncoref/data/proteoform-groups.csv'
2026-06-29T19:49:26,984   adding 'oncoref/data/rare-cancer-fusion-rules.csv'
2026-06-29T19:49:26,985   adding 'oncoref/data/ribosomal-protein-genes.csv'
2026-06-29T19:49:26,991   adding 'oncoref/data/ribosomal-protein-pseudogenes.csv'
2026-06-29T19:49:26,994   adding 'oncoref/data/rrna-and-pseudogenes.csv'
2026-06-29T19:49:27,013   adding 'oncoref/data/small-noncoding-rnas.csv'
2026-06-29T19:49:27,015   adding 'oncoref/data/source-matrices.csv'
2026-06-29T19:49:27,017   adding 'oncoref/data/tissue-burden-map.csv'
2026-06-29T19:49:27,020   adding 'oncoref-1.8.27.dist-info/licenses/LICENSE'
2026-06-29T19:49:27,022   adding 'oncoref-1.8.27.dist-info/METADATA'
2026-06-29T19:49:27,023   adding 'oncoref-1.8.27.dist-info/WHEEL'
2026-06-29T19:49:27,024   adding 'oncoref-1.8.27.dist-info/entry_points.txt'
2026-06-29T19:49:27,025   adding 'oncoref-1.8.27.dist-info/top_level.txt'
2026-06-29T19:49:27,027   adding 'oncoref-1.8.27.dist-info/RECORD'
2026-06-29T19:49:27,049   removing build/bdist.linux-armv7l/wheel
2026-06-29T19:49:27,170   Building wheel for oncoref (pyproject.toml): finished with status 'done'
2026-06-29T19:49:27,212   Created wheel for oncoref: filename=oncoref-1.8.27-py3-none-any.whl size=1676750 sha256=8a003ee62f52d11477b06f1b57b7380ac5407521c557a7c6e3d454d64654d473
2026-06-29T19:49:27,213   Stored in directory: /tmp/pip-ephem-wheel-cache-ujlu49ma/wheels/f3/a7/be/acc03c8e7178c99a5a20bf466b48db466ec0ff30d320688869
2026-06-29T19:49:27,228 Successfully built oncoref
2026-06-29T19:49:27,274 Removed build tracker: '/tmp/pip-build-tracker-03oc4tnv'