2026-01-12T03:25:59,852 Created temporary directory: /tmp/pip-ephem-wheel-cache-nhb2y6e_ 2026-01-12T03:25:59,854 Created temporary directory: /tmp/pip-build-tracker-9nvx_yl9 2026-01-12T03:25:59,854 Initialized build tracking at /tmp/pip-build-tracker-9nvx_yl9 2026-01-12T03:25:59,855 Created build tracker: /tmp/pip-build-tracker-9nvx_yl9 2026-01-12T03:25:59,855 Entered build tracker: /tmp/pip-build-tracker-9nvx_yl9 2026-01-12T03:25:59,856 Created temporary directory: /tmp/pip-wheel-6pvhlzdz 2026-01-12T03:25:59,859 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 2026-01-12T03:25:59,861 Created temporary directory: /tmp/pip-ephem-wheel-cache-bv32bk6p 2026-01-12T03:25:59,884 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-12T03:25:59,888 2 location(s) to search for versions of tcrpmhcdataset: 2026-01-12T03:25:59,888 * https://pypi.org/simple/tcrpmhcdataset/ 2026-01-12T03:25:59,888 * https://www.piwheels.org/simple/tcrpmhcdataset/ 2026-01-12T03:25:59,889 Fetching project page and analyzing links: https://pypi.org/simple/tcrpmhcdataset/ 2026-01-12T03:25:59,889 Getting page https://pypi.org/simple/tcrpmhcdataset/ 2026-01-12T03:25:59,891 Found index url https://pypi.org/simple 2026-01-12T03:26:00,101 Fetched page https://pypi.org/simple/tcrpmhcdataset/ as application/vnd.pypi.simple.v1+json 2026-01-12T03:26:00,103 Skipping link: No binaries permitted for tcrpmhcdataset: https://files.pythonhosted.org/packages/54/0a/c2b7d95ca3fd62b133e5f328ec84aa06d2820fdf672031b9755e3648f21b/tcrpmhcdataset-0.1.0-py3-none-any.whl (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,105 Found link https://files.pythonhosted.org/packages/4b/86/e3d2ca683fd3b5963b3a2a52dc147c5798b8142b903d4520a9bea167dfde/tcrpmhcdataset-0.1.0.tar.gz (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7), version: 0.1.0 2026-01-12T03:26:00,105 Skipping link: No binaries permitted for tcrpmhcdataset: https://files.pythonhosted.org/packages/98/53/7fc9de23c3836c0f9caa47fe51d28a6c027eab1c003e08db366d9bb32ae8/tcrpmhcdataset-0.1.1-py3-none-any.whl (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,106 Found link https://files.pythonhosted.org/packages/c3/65/e81da4c6516786f035deee96f79460470d6f293e4616d0f7428663965788/tcrpmhcdataset-0.1.1.tar.gz (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7), version: 0.1.1 2026-01-12T03:26:00,107 Skipping link: No binaries permitted for tcrpmhcdataset: https://files.pythonhosted.org/packages/d0/d0/144631d73e128024599468dc5c2aa30a01b2f3e8ba308ba395598f871818/tcrpmhcdataset-0.1.2-py3-none-any.whl (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,108 Found link https://files.pythonhosted.org/packages/5e/ad/7a1d3597cb809b811e45440a80742393a8b42392402a4e218b266454ce3b/tcrpmhcdataset-0.1.2.tar.gz (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7), version: 0.1.2 2026-01-12T03:26:00,109 Skipping link: No binaries permitted for tcrpmhcdataset: https://files.pythonhosted.org/packages/36/f1/8707f904709c76faf4000178657a601006344318debde18882490eccdd74/tcrpmhcdataset-0.2.0-py3-none-any.whl (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,111 Found link https://files.pythonhosted.org/packages/41/fe/51ca63d31686dc81dbcdfacaf84fb1e8093107b6bb5af61c0c6e38789b73/tcrpmhcdataset-0.2.0.tar.gz (from https://pypi.org/simple/tcrpmhcdataset/) (requires-python:>=3.7), version: 0.2.0 2026-01-12T03:26:00,112 Fetching project page and analyzing links: https://www.piwheels.org/simple/tcrpmhcdataset/ 2026-01-12T03:26:00,113 Getting page https://www.piwheels.org/simple/tcrpmhcdataset/ 2026-01-12T03:26:00,114 Found index url https://www.piwheels.org/simple 2026-01-12T03:26:00,270 Fetched page https://www.piwheels.org/simple/tcrpmhcdataset/ as text/html 2026-01-12T03:26:00,272 Skipping link: No binaries permitted for tcrpmhcdataset: https://archive1.piwheels.org/simple/tcrpmhcdataset/tcrpmhcdataset-0.1.2-py3-none-any.whl#sha256=e4cd2e81b378e7451e2d6de07aa404ea0a31a2b52f42b9cd9bfec88fb8c0ebb9 (from https://www.piwheels.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,273 Skipping link: No binaries permitted for tcrpmhcdataset: https://archive1.piwheels.org/simple/tcrpmhcdataset/tcrpmhcdataset-0.1.1-py3-none-any.whl#sha256=eeb80b70893428ac27147c6bff18caf0b1551a6325a4b2551281213f48732657 (from https://www.piwheels.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,273 Skipping link: No binaries permitted for tcrpmhcdataset: https://archive1.piwheels.org/simple/tcrpmhcdataset/tcrpmhcdataset-0.1.0-py3-none-any.whl#sha256=4d3114025d957634f18cbdb9df46183070faa34743e29c689a0d58dafa075cf7 (from https://www.piwheels.org/simple/tcrpmhcdataset/) (requires-python:>=3.7) 2026-01-12T03:26:00,274 Skipping link: not a file: https://www.piwheels.org/simple/tcrpmhcdataset/ 2026-01-12T03:26:00,274 Skipping link: not a file: https://pypi.org/simple/tcrpmhcdataset/ 2026-01-12T03:26:00,295 Given no hashes to check 1 links for project 'tcrpmhcdataset': discarding no candidates 2026-01-12T03:26:00,314 Collecting tcrpmhcdataset==0.2.0 2026-01-12T03:26:00,317 Created temporary directory: /tmp/pip-unpack-lwyvvzfz 2026-01-12T03:26:00,525 Downloading tcrpmhcdataset-0.2.0.tar.gz (156 kB) 2026-01-12T03:26:00,748 Added tcrpmhcdataset==0.2.0 from https://files.pythonhosted.org/packages/41/fe/51ca63d31686dc81dbcdfacaf84fb1e8093107b6bb5af61c0c6e38789b73/tcrpmhcdataset-0.2.0.tar.gz to build tracker '/tmp/pip-build-tracker-9nvx_yl9' 2026-01-12T03:26:00,753 Created temporary directory: /tmp/pip-build-env-u9aph0nk 2026-01-12T03:26:00,757 Installing build dependencies: started 2026-01-12T03:26:00,759 Running command pip subprocess to install build dependencies 2026-01-12T03:26:01,899 Using pip 23.0.1 from /usr/lib/python3/dist-packages/pip (python 3.11) 2026-01-12T03:26:02,548 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 2026-01-12T03:26:02,571 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-01-12T03:26:04,336 Collecting setuptools<77,>=61.0 2026-01-12T03:26:04,445 Using cached https://www.piwheels.org/simple/setuptools/setuptools-76.1.0-py3-none-any.whl (1.2 MB) 2026-01-12T03:26:07,471 Installing collected packages: setuptools 2026-01-12T03:26:11,405 Successfully installed setuptools-76.1.0 2026-01-12T03:26:11,670 Installing build dependencies: finished with status 'done' 2026-01-12T03:26:11,677 Getting requirements to build wheel: started 2026-01-12T03:26:11,678 Running command Getting requirements to build wheel 2026-01-12T03:26:12,437 running egg_info 2026-01-12T03:26:12,444 writing tcrpmhcdataset.egg-info/PKG-INFO 2026-01-12T03:26:12,448 writing dependency_links to tcrpmhcdataset.egg-info/dependency_links.txt 2026-01-12T03:26:12,450 writing requirements to tcrpmhcdataset.egg-info/requires.txt 2026-01-12T03:26:12,451 writing top-level names to tcrpmhcdataset.egg-info/top_level.txt 2026-01-12T03:26:12,474 reading manifest file 'tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:12,477 reading manifest template 'MANIFEST.in' 2026-01-12T03:26:12,480 adding license file 'LICENSE' 2026-01-12T03:26:12,483 writing manifest file 'tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:12,591 Getting requirements to build wheel: finished with status 'done' 2026-01-12T03:26:12,594 Created temporary directory: /tmp/pip-modern-metadata-220z63zu 2026-01-12T03:26:12,596 Preparing metadata (pyproject.toml): started 2026-01-12T03:26:12,597 Running command Preparing metadata (pyproject.toml) 2026-01-12T03:26:13,320 running dist_info 2026-01-12T03:26:13,332 creating /tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info 2026-01-12T03:26:13,333 writing /tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/PKG-INFO 2026-01-12T03:26:13,337 writing dependency_links to /tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/dependency_links.txt 2026-01-12T03:26:13,339 writing requirements to /tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/requires.txt 2026-01-12T03:26:13,340 writing top-level names to /tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/top_level.txt 2026-01-12T03:26:13,341 writing manifest file '/tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:13,361 reading manifest file '/tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:13,364 reading manifest template 'MANIFEST.in' 2026-01-12T03:26:13,367 adding license file 'LICENSE' 2026-01-12T03:26:13,370 writing manifest file '/tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:13,371 creating '/tmp/pip-modern-metadata-220z63zu/tcrpmhcdataset-0.2.0.dist-info' 2026-01-12T03:26:13,503 Preparing metadata (pyproject.toml): finished with status 'done' 2026-01-12T03:26:13,508 Source in /tmp/pip-wheel-6pvhlzdz/tcrpmhcdataset_ea6c1d6c3e7e4ff7ad11e73a83817db1 has version 0.2.0, which satisfies requirement tcrpmhcdataset==0.2.0 from https://files.pythonhosted.org/packages/41/fe/51ca63d31686dc81dbcdfacaf84fb1e8093107b6bb5af61c0c6e38789b73/tcrpmhcdataset-0.2.0.tar.gz 2026-01-12T03:26:13,509 Removed tcrpmhcdataset==0.2.0 from https://files.pythonhosted.org/packages/41/fe/51ca63d31686dc81dbcdfacaf84fb1e8093107b6bb5af61c0c6e38789b73/tcrpmhcdataset-0.2.0.tar.gz from build tracker '/tmp/pip-build-tracker-9nvx_yl9' 2026-01-12T03:26:13,515 Created temporary directory: /tmp/pip-unpack-1dw6y34_ 2026-01-12T03:26:13,515 Building wheels for collected packages: tcrpmhcdataset 2026-01-12T03:26:13,520 Created temporary directory: /tmp/pip-wheel-h8ey1bv9 2026-01-12T03:26:13,520 Destination directory: /tmp/pip-wheel-h8ey1bv9 2026-01-12T03:26:13,523 Building wheel for tcrpmhcdataset (pyproject.toml): started 2026-01-12T03:26:13,524 Running command Building wheel for tcrpmhcdataset (pyproject.toml) 2026-01-12T03:26:14,224 running bdist_wheel 2026-01-12T03:26:14,245 running build 2026-01-12T03:26:14,246 running build_py 2026-01-12T03:26:14,253 creating build/lib/tcrpmhcdataset 2026-01-12T03:26:14,255 copying tcrpmhcdataset/pMHC.py -> build/lib/tcrpmhcdataset 2026-01-12T03:26:14,258 copying tcrpmhcdataset/__init__.py -> build/lib/tcrpmhcdataset 2026-01-12T03:26:14,260 copying tcrpmhcdataset/dataset.py -> build/lib/tcrpmhcdataset 2026-01-12T03:26:14,263 copying tcrpmhcdataset/constants.py -> build/lib/tcrpmhcdataset 2026-01-12T03:26:14,265 copying tcrpmhcdataset/TCR.py -> build/lib/tcrpmhcdataset 2026-01-12T03:26:14,267 running egg_info 2026-01-12T03:26:14,278 writing tcrpmhcdataset.egg-info/PKG-INFO 2026-01-12T03:26:14,281 writing dependency_links to tcrpmhcdataset.egg-info/dependency_links.txt 2026-01-12T03:26:14,283 writing requirements to tcrpmhcdataset.egg-info/requires.txt 2026-01-12T03:26:14,284 writing top-level names to tcrpmhcdataset.egg-info/top_level.txt 2026-01-12T03:26:14,294 reading manifest file 'tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:14,297 reading manifest template 'MANIFEST.in' 2026-01-12T03:26:14,300 adding license file 'LICENSE' 2026-01-12T03:26:14,303 writing manifest file 'tcrpmhcdataset.egg-info/SOURCES.txt' 2026-01-12T03:26:14,305 /tmp/pip-build-env-u9aph0nk/overlay/local/lib/python3.11/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'tcrpmhcdataset.refs' is absent from the `packages` configuration. 2026-01-12T03:26:14,306 !! 2026-01-12T03:26:14,307 ******************************************************************************** 2026-01-12T03:26:14,307 ############################ 2026-01-12T03:26:14,308 # Package would be ignored # 2026-01-12T03:26:14,308 ############################ 2026-01-12T03:26:14,309 Python recognizes 'tcrpmhcdataset.refs' as an importable package[^1], 2026-01-12T03:26:14,309 but it is absent from setuptools' `packages` configuration. 2026-01-12T03:26:14,310 This leads to an ambiguous overall configuration. If you want to distribute this 2026-01-12T03:26:14,311 package, please make sure that 'tcrpmhcdataset.refs' is explicitly added 2026-01-12T03:26:14,311 to the `packages` configuration field. 2026-01-12T03:26:14,312 Alternatively, you can also rely on setuptools' discovery methods 2026-01-12T03:26:14,312 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2026-01-12T03:26:14,313 instead of `find_packages(...)`/`find:`). 2026-01-12T03:26:14,314 You can read more about "package discovery" on setuptools documentation page: 2026-01-12T03:26:14,315 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2026-01-12T03:26:14,316 If you don't want 'tcrpmhcdataset.refs' to be distributed and are 2026-01-12T03:26:14,316 already explicitly excluding 'tcrpmhcdataset.refs' via 2026-01-12T03:26:14,317 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2026-01-12T03:26:14,317 you can try to use `exclude_package_data`, or `include-package-data=False` in 2026-01-12T03:26:14,318 combination with a more fine grained `package-data` configuration. 2026-01-12T03:26:14,319 You can read more about "package data files" on setuptools documentation page: 2026-01-12T03:26:14,321 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2026-01-12T03:26:14,323 [^1]: For Python, any directory (with suitable naming) can be imported, 2026-01-12T03:26:14,323 even if it does not contain any `.py` files. 2026-01-12T03:26:14,324 On the other hand, currently there is no concept of package data 2026-01-12T03:26:14,325 directory, all directories are treated like packages. 2026-01-12T03:26:14,325 ******************************************************************************** 2026-01-12T03:26:14,327 !! 2026-01-12T03:26:14,327 check.warn(importable) 2026-01-12T03:26:14,342 creating build/lib/tcrpmhcdataset/refs 2026-01-12T03:26:14,346 copying tcrpmhcdataset/refs/2field_hla_consensus_seqs.csv -> build/lib/tcrpmhcdataset/refs 2026-01-12T03:26:14,373 copying tcrpmhcdataset/refs/hla_pseudo_seqs.csv -> build/lib/tcrpmhcdataset/refs 2026-01-12T03:26:14,388 installing to build/bdist.linux-armv7l/wheel 2026-01-12T03:26:14,389 running install 2026-01-12T03:26:14,412 running install_lib 2026-01-12T03:26:14,418 creating build/bdist.linux-armv7l/wheel 2026-01-12T03:26:14,420 creating build/bdist.linux-armv7l/wheel/tcrpmhcdataset 2026-01-12T03:26:14,422 copying build/lib/tcrpmhcdataset/pMHC.py -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset 2026-01-12T03:26:14,424 copying build/lib/tcrpmhcdataset/__init__.py -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset 2026-01-12T03:26:14,426 copying build/lib/tcrpmhcdataset/dataset.py -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset 2026-01-12T03:26:14,429 copying build/lib/tcrpmhcdataset/constants.py -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset 2026-01-12T03:26:14,431 copying build/lib/tcrpmhcdataset/TCR.py -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset 2026-01-12T03:26:14,433 creating build/bdist.linux-armv7l/wheel/tcrpmhcdataset/refs 2026-01-12T03:26:14,435 copying build/lib/tcrpmhcdataset/refs/hla_pseudo_seqs.csv -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset/refs 2026-01-12T03:26:14,440 copying build/lib/tcrpmhcdataset/refs/2field_hla_consensus_seqs.csv -> build/bdist.linux-armv7l/wheel/./tcrpmhcdataset/refs 2026-01-12T03:26:14,544 running install_egg_info 2026-01-12T03:26:14,550 Copying tcrpmhcdataset.egg-info to build/bdist.linux-armv7l/wheel/./tcrpmhcdataset-0.2.0-py3.11.egg-info 2026-01-12T03:26:14,561 running install_scripts 2026-01-12T03:26:14,573 creating build/bdist.linux-armv7l/wheel/tcrpmhcdataset-0.2.0.dist-info/WHEEL 2026-01-12T03:26:14,576 creating '/tmp/pip-wheel-h8ey1bv9/.tmp-qfrsl2l5/tcrpmhcdataset-0.2.0-py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-01-12T03:26:14,579 adding 'tcrpmhcdataset/TCR.py' 2026-01-12T03:26:14,581 adding 'tcrpmhcdataset/__init__.py' 2026-01-12T03:26:14,583 adding 'tcrpmhcdataset/constants.py' 2026-01-12T03:26:14,586 adding 'tcrpmhcdataset/dataset.py' 2026-01-12T03:26:14,589 adding 'tcrpmhcdataset/pMHC.py' 2026-01-12T03:26:14,757 adding 'tcrpmhcdataset/refs/2field_hla_consensus_seqs.csv' 2026-01-12T03:26:14,795 adding 'tcrpmhcdataset/refs/hla_pseudo_seqs.csv' 2026-01-12T03:26:14,799 adding 'tcrpmhcdataset-0.2.0.dist-info/LICENSE' 2026-01-12T03:26:14,801 adding 'tcrpmhcdataset-0.2.0.dist-info/METADATA' 2026-01-12T03:26:14,802 adding 'tcrpmhcdataset-0.2.0.dist-info/WHEEL' 2026-01-12T03:26:14,803 adding 'tcrpmhcdataset-0.2.0.dist-info/top_level.txt' 2026-01-12T03:26:14,804 adding 'tcrpmhcdataset-0.2.0.dist-info/RECORD' 2026-01-12T03:26:14,807 removing build/bdist.linux-armv7l/wheel 2026-01-12T03:26:14,920 Building wheel for tcrpmhcdataset (pyproject.toml): finished with status 'done' 2026-01-12T03:26:14,928 Created wheel for tcrpmhcdataset: filename=tcrpmhcdataset-0.2.0-py3-none-any.whl size=159204 sha256=c8ac5d0b07710a39b150c71b944b529b45e3fa0c8378f0f8016cf252c0faf0e1 2026-01-12T03:26:14,929 Stored in directory: /tmp/pip-ephem-wheel-cache-bv32bk6p/wheels/02/f6/42/aebebdbc96ffd6512250ef29bbcb9c57db65d0b2cad34ea044 2026-01-12T03:26:14,940 Successfully built tcrpmhcdataset 2026-01-12T03:26:14,949 Removed build tracker: '/tmp/pip-build-tracker-9nvx_yl9'