2025-09-11T21:32:14,828 Created temporary directory: /tmp/pip-build-tracker-5_o6gt8b 2025-09-11T21:32:14,829 Initialized build tracking at /tmp/pip-build-tracker-5_o6gt8b 2025-09-11T21:32:14,830 Created build tracker: /tmp/pip-build-tracker-5_o6gt8b 2025-09-11T21:32:14,830 Entered build tracker: /tmp/pip-build-tracker-5_o6gt8b 2025-09-11T21:32:14,830 Created temporary directory: /tmp/pip-wheel-sts4h7gg 2025-09-11T21:32:14,835 Created temporary directory: /tmp/pip-ephem-wheel-cache-x7yfgdcw 2025-09-11T21:32:14,902 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-11T21:32:14,905 2 location(s) to search for versions of tf-comb: 2025-09-11T21:32:14,905 * https://pypi.org/simple/tf-comb/ 2025-09-11T21:32:14,905 * https://www.piwheels.org/simple/tf-comb/ 2025-09-11T21:32:14,906 Fetching project page and analyzing links: https://pypi.org/simple/tf-comb/ 2025-09-11T21:32:14,906 Getting page https://pypi.org/simple/tf-comb/ 2025-09-11T21:32:14,908 Found index url https://pypi.org/simple/ 2025-09-11T21:32:14,995 Fetched page https://pypi.org/simple/tf-comb/ as application/vnd.pypi.simple.v1+json 2025-09-11T21:32:14,997 Found link https://files.pythonhosted.org/packages/49/f0/0e6d20e01c9263deca6e3aab61c0171757ce6a03e8fe58f4f1b5bbcfb3f6/TF-COMB-1.0.0.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3), version: 1.0.0 2025-09-11T21:32:14,998 Found link https://files.pythonhosted.org/packages/fd/3e/a35a0b018aeafa5c675dc8a6f4315655657ee8e6564cc4846382557778a1/TF-COMB-1.0.1.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3), version: 1.0.1 2025-09-11T21:32:14,998 Found link https://files.pythonhosted.org/packages/a3/a2/999f5a0c5d56b93c7bb009dacd210ea5bd7403ec28a0698a01cc79cd169b/TF-COMB-1.0.2.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3), version: 1.0.2 2025-09-11T21:32:14,999 Link requires a different Python (3.13.5 not in: '>=3,<3.11'): https://files.pythonhosted.org/packages/99/b7/c4db663c1b0de4543274fad7375d08a40f402515253e86036a75fcbe8433/TF-COMB-1.0.3.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:14,999 Skipping link: 1.0.3 Requires-Python >=3,<3.11: https://files.pythonhosted.org/packages/99/b7/c4db663c1b0de4543274fad7375d08a40f402515253e86036a75fcbe8433/TF-COMB-1.0.3.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:14,999 Link requires a different Python (3.13.5 not in: '>=3,<3.11'): https://files.pythonhosted.org/packages/8d/66/74eea16db76245a22c549095e00a98fc6f49b2c8b291491a0a91d724ef29/TF-COMB-1.1.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:14,999 Skipping link: 1.1 Requires-Python >=3,<3.11: https://files.pythonhosted.org/packages/8d/66/74eea16db76245a22c549095e00a98fc6f49b2c8b291491a0a91d724ef29/TF-COMB-1.1.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:14,999 Found link https://files.pythonhosted.org/packages/70/56/79a8adfc98f5ffd7a0628af7e607787d67164720ed417c8519a18b42546e/tf_comb-1.1.1.tar.gz (from https://pypi.org/simple/tf-comb/) (requires-python:>=3), version: 1.1.1 2025-09-11T21:32:15,000 Fetching project page and analyzing links: https://www.piwheels.org/simple/tf-comb/ 2025-09-11T21:32:15,000 Getting page https://www.piwheels.org/simple/tf-comb/ 2025-09-11T21:32:15,001 Found index url https://www.piwheels.org/simple/ 2025-09-11T21:32:15,105 Fetched page https://www.piwheels.org/simple/tf-comb/ as text/html 2025-09-11T21:32:15,111 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.1-cp37-cp37m-linux_armv6l.whl#sha256=f783dbf7f48386ee423c7b3b44151c056199a8d1dec5dfd839b62217f46fd3a7 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,111 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.1-cp37-cp37m-linux_armv7l.whl#sha256=f783dbf7f48386ee423c7b3b44151c056199a8d1dec5dfd839b62217f46fd3a7 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,111 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.1-cp39-cp39-linux_armv6l.whl#sha256=2929692abecda233d86ba8cb5f2350581ca8555c623914fd330474b6c481b227 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,111 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.1-cp39-cp39-linux_armv7l.whl#sha256=2929692abecda233d86ba8cb5f2350581ca8555c623914fd330474b6c481b227 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,111 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.3-cp37-cp37m-linux_armv6l.whl#sha256=496745e574038d21aa119579802144b1545aebe449ee697b8dadc3cc02f90998 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.3-cp37-cp37m-linux_armv7l.whl#sha256=496745e574038d21aa119579802144b1545aebe449ee697b8dadc3cc02f90998 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.3-cp39-cp39-linux_armv6l.whl#sha256=f36f8a9a80ff91bc5465b36928a66d5771a4b72241c82eae4e4ae811c5b7d681 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.3-cp39-cp39-linux_armv7l.whl#sha256=f36f8a9a80ff91bc5465b36928a66d5771a4b72241c82eae4e4ae811c5b7d681 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3,<3.11) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.2-cp37-cp37m-linux_armv6l.whl#sha256=1609ab0915d0c1e90470d77a9148b350b2d15c5d1e8acc44dedcb1c369aab192 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.2-cp37-cp37m-linux_armv7l.whl#sha256=1609ab0915d0c1e90470d77a9148b350b2d15c5d1e8acc44dedcb1c369aab192 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.2-cp39-cp39-linux_armv6l.whl#sha256=597f0e43f3fedceb75bbf7bedf23201b5ec62637a4662d5ade1669ad765f739d (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,112 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.2-cp39-cp39-linux_armv7l.whl#sha256=597f0e43f3fedceb75bbf7bedf23201b5ec62637a4662d5ade1669ad765f739d (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,113 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.1-cp37-cp37m-linux_armv6l.whl#sha256=4ce657cf3213f8cddb0bdd25036ddbd394cf899291fd994b51860009ab33208a (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,113 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.1-cp37-cp37m-linux_armv7l.whl#sha256=4ce657cf3213f8cddb0bdd25036ddbd394cf899291fd994b51860009ab33208a (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,113 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.1-cp39-cp39-linux_armv6l.whl#sha256=1e04ad37824043a284e994475dd3e72d1ceeafb05aea2170683ec9cbdaba2abd (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,113 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.1-cp39-cp39-linux_armv7l.whl#sha256=1e04ad37824043a284e994475dd3e72d1ceeafb05aea2170683ec9cbdaba2abd (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,113 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.0-cp37-cp37m-linux_armv6l.whl#sha256=1b5ab430e980ec633b57309315e0af43f8e75f7ca5785099a89e6e9bbb3b171e (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,113 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.0-cp37-cp37m-linux_armv7l.whl#sha256=1b5ab430e980ec633b57309315e0af43f8e75f7ca5785099a89e6e9bbb3b171e (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,114 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.0-cp39-cp39-linux_armv6l.whl#sha256=d55f049f7c212430921021fd961cb7bdeeb82c0133524afb16e44c68e2b3e317 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,114 Skipping link: No binaries permitted for tf-comb: https://archive1.piwheels.org/simple/tf-comb/TF_COMB-1.0.0-cp39-cp39-linux_armv7l.whl#sha256=d55f049f7c212430921021fd961cb7bdeeb82c0133524afb16e44c68e2b3e317 (from https://www.piwheels.org/simple/tf-comb/) (requires-python:>=3) 2025-09-11T21:32:15,114 Skipping link: not a file: https://www.piwheels.org/simple/tf-comb/ 2025-09-11T21:32:15,114 Skipping link: not a file: https://pypi.org/simple/tf-comb/ 2025-09-11T21:32:15,140 Given no hashes to check 1 links for project 'tf-comb': discarding no candidates 2025-09-11T21:32:15,141 Collecting tf-comb==1.0.2 2025-09-11T21:32:15,142 Created temporary directory: /tmp/pip-unpack-lcsyvbrg 2025-09-11T21:32:15,439 Downloading TF-COMB-1.0.2.tar.gz (1.4 MB) 2025-09-11T21:32:15,780 Added tf-comb==1.0.2 from https://files.pythonhosted.org/packages/a3/a2/999f5a0c5d56b93c7bb009dacd210ea5bd7403ec28a0698a01cc79cd169b/TF-COMB-1.0.2.tar.gz to build tracker '/tmp/pip-build-tracker-5_o6gt8b' 2025-09-11T21:32:15,782 Running setup.py (path:/tmp/pip-wheel-sts4h7gg/tf-comb_34d0ed16ce8046038a4429ee9e718abc/setup.py) egg_info for package tf-comb 2025-09-11T21:32:15,782 Created temporary directory: /tmp/pip-pip-egg-info-kerjl4t3 2025-09-11T21:32:15,782 Preparing metadata (setup.py): started 2025-09-11T21:32:15,783 Running command python setup.py egg_info 2025-09-11T21:32:16,810 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-11T21:32:16,811 !! 2025-09-11T21:32:16,811 ******************************************************************************** 2025-09-11T21:32:16,811 Requirements should be satisfied by a PEP 517 installer. 2025-09-11T21:32:16,811 If you are using pip, you can try `pip install --use-pep517`. 2025-09-11T21:32:16,811 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-11T21:32:16,811 or your builds will no longer be supported. 2025-09-11T21:32:16,811 ******************************************************************************** 2025-09-11T21:32:16,812 !! 2025-09-11T21:32:16,812 dist.fetch_build_eggs(dist.setup_requires) 2025-09-11T21:32:17,371 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-11T21:32:17,371 !! 2025-09-11T21:32:17,371 ******************************************************************************** 2025-09-11T21:32:17,371 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-11T21:32:17,371 License :: OSI Approved :: MIT License 2025-09-11T21:32:17,371 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-11T21:32:17,372 ******************************************************************************** 2025-09-11T21:32:17,372 !! 2025-09-11T21:32:17,372 self._finalize_license_expression() 2025-09-11T21:32:17,455 running egg_info 2025-09-11T21:32:17,544 creating /tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info 2025-09-11T21:32:17,545 writing /tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/PKG-INFO 2025-09-11T21:32:17,546 writing dependency_links to /tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/dependency_links.txt 2025-09-11T21:32:17,547 writing requirements to /tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/requires.txt 2025-09-11T21:32:17,548 writing top-level names to /tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/top_level.txt 2025-09-11T21:32:17,548 writing manifest file '/tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/SOURCES.txt' 2025-09-11T21:32:17,807 reading manifest file '/tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/SOURCES.txt' 2025-09-11T21:32:17,808 reading manifest template 'MANIFEST.in' 2025-09-11T21:32:17,810 warning: no previously-included files found matching 'data/*' 2025-09-11T21:32:17,810 warning: no previously-included files found matching 'examples/*' 2025-09-11T21:32:17,810 adding license file 'LICENSE' 2025-09-11T21:32:17,813 writing manifest file '/tmp/pip-pip-egg-info-kerjl4t3/TF_COMB.egg-info/SOURCES.txt' 2025-09-11T21:32:17,972 Preparing metadata (setup.py): finished with status 'done' 2025-09-11T21:32:17,978 Source in /tmp/pip-wheel-sts4h7gg/tf-comb_34d0ed16ce8046038a4429ee9e718abc has version 1.0.2, which satisfies requirement tf-comb==1.0.2 from https://files.pythonhosted.org/packages/a3/a2/999f5a0c5d56b93c7bb009dacd210ea5bd7403ec28a0698a01cc79cd169b/TF-COMB-1.0.2.tar.gz 2025-09-11T21:32:17,978 Removed tf-comb==1.0.2 from https://files.pythonhosted.org/packages/a3/a2/999f5a0c5d56b93c7bb009dacd210ea5bd7403ec28a0698a01cc79cd169b/TF-COMB-1.0.2.tar.gz from build tracker '/tmp/pip-build-tracker-5_o6gt8b' 2025-09-11T21:32:17,986 Created temporary directory: /tmp/pip-unpack-hc4dpe6k 2025-09-11T21:32:17,986 Created temporary directory: /tmp/pip-unpack-nix3hm4w 2025-09-11T21:32:17,986 Building wheels for collected packages: tf-comb 2025-09-11T21:32:17,988 Created temporary directory: /tmp/pip-wheel-01f3rkqq 2025-09-11T21:32:17,988 DEPRECATION: Building 'tf-comb' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'tf-comb'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-11T21:32:17,990 Building wheel for tf-comb (setup.py): started 2025-09-11T21:32:17,990 Destination directory: /tmp/pip-wheel-01f3rkqq 2025-09-11T21:32:17,991 Running command python setup.py bdist_wheel 2025-09-11T21:32:18,975 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-11T21:32:18,975 !! 2025-09-11T21:32:18,975 ******************************************************************************** 2025-09-11T21:32:18,975 Requirements should be satisfied by a PEP 517 installer. 2025-09-11T21:32:18,975 If you are using pip, you can try `pip install --use-pep517`. 2025-09-11T21:32:18,975 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-11T21:32:18,976 or your builds will no longer be supported. 2025-09-11T21:32:18,976 ******************************************************************************** 2025-09-11T21:32:18,976 !! 2025-09-11T21:32:18,976 dist.fetch_build_eggs(dist.setup_requires) 2025-09-11T21:32:19,596 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-11T21:32:19,596 !! 2025-09-11T21:32:19,597 ******************************************************************************** 2025-09-11T21:32:19,597 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-11T21:32:19,597 License :: OSI Approved :: MIT License 2025-09-11T21:32:19,597 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-11T21:32:19,597 ******************************************************************************** 2025-09-11T21:32:19,598 !! 2025-09-11T21:32:19,598 self._finalize_license_expression() 2025-09-11T21:32:19,598 running bdist_wheel 2025-09-11T21:32:20,015 running build 2025-09-11T21:32:20,015 running build_py 2025-09-11T21:32:20,124 creating build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,125 copying tfcomb/utils.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,126 copying tfcomb/plotting.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,127 copying tfcomb/objects.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,129 copying tfcomb/network.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,130 copying tfcomb/logging.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,130 copying tfcomb/annotation.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,131 copying tfcomb/analysis.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,132 copying tfcomb/__init__.py -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,132 running egg_info 2025-09-11T21:32:20,240 writing TF_COMB.egg-info/PKG-INFO 2025-09-11T21:32:20,242 writing dependency_links to TF_COMB.egg-info/dependency_links.txt 2025-09-11T21:32:20,243 writing requirements to TF_COMB.egg-info/requires.txt 2025-09-11T21:32:20,244 writing top-level names to TF_COMB.egg-info/top_level.txt 2025-09-11T21:32:20,356 reading manifest file 'TF_COMB.egg-info/SOURCES.txt' 2025-09-11T21:32:20,359 reading manifest template 'MANIFEST.in' 2025-09-11T21:32:20,361 warning: no previously-included files found matching 'data/*' 2025-09-11T21:32:20,361 warning: no previously-included files found matching 'examples/*' 2025-09-11T21:32:20,362 adding license file 'LICENSE' 2025-09-11T21:32:20,365 writing manifest file 'TF_COMB.egg-info/SOURCES.txt' 2025-09-11T21:32:20,367 /usr/local/lib/python3.13/dist-packages/setuptools/command/build_py.py:212: _Warning: Package 'tfcomb.data' is absent from the `packages` configuration. 2025-09-11T21:32:20,367 !! 2025-09-11T21:32:20,368 ******************************************************************************** 2025-09-11T21:32:20,368 ############################ 2025-09-11T21:32:20,368 # Package would be ignored # 2025-09-11T21:32:20,368 ############################ 2025-09-11T21:32:20,368 Python recognizes 'tfcomb.data' as an importable package[^1], 2025-09-11T21:32:20,368 but it is absent from setuptools' `packages` configuration. 2025-09-11T21:32:20,368 This leads to an ambiguous overall configuration. If you want to distribute this 2025-09-11T21:32:20,368 package, please make sure that 'tfcomb.data' is explicitly added 2025-09-11T21:32:20,368 to the `packages` configuration field. 2025-09-11T21:32:20,369 Alternatively, you can also rely on setuptools' discovery methods 2025-09-11T21:32:20,369 (for example by using `find_namespace_packages(...)`/`find_namespace:` 2025-09-11T21:32:20,369 instead of `find_packages(...)`/`find:`). 2025-09-11T21:32:20,369 You can read more about "package discovery" on setuptools documentation page: 2025-09-11T21:32:20,369 - https://setuptools.pypa.io/en/latest/userguide/package_discovery.html 2025-09-11T21:32:20,369 If you don't want 'tfcomb.data' to be distributed and are 2025-09-11T21:32:20,369 already explicitly excluding 'tfcomb.data' via 2025-09-11T21:32:20,370 `find_namespace_packages(...)/find_namespace` or `find_packages(...)/find`, 2025-09-11T21:32:20,370 you can try to use `exclude_package_data`, or `include-package-data=False` in 2025-09-11T21:32:20,370 combination with a more fine grained `package-data` configuration. 2025-09-11T21:32:20,370 You can read more about "package data files" on setuptools documentation page: 2025-09-11T21:32:20,370 - https://setuptools.pypa.io/en/latest/userguide/datafiles.html 2025-09-11T21:32:20,370 [^1]: For Python, any directory (with suitable naming) can be imported, 2025-09-11T21:32:20,371 even if it does not contain any `.py` files. 2025-09-11T21:32:20,371 On the other hand, currently there is no concept of package data 2025-09-11T21:32:20,371 directory, all directories are treated like packages. 2025-09-11T21:32:20,371 ******************************************************************************** 2025-09-11T21:32:20,371 !! 2025-09-11T21:32:20,371 check.warn(importable) 2025-09-11T21:32:20,371 copying tfcomb/counting.pyx -> build/lib.linux-armv7l-cpython-313/tfcomb 2025-09-11T21:32:20,371 creating build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,371 copying tfcomb/data/HOCOMOCOv11_HUMAN.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,372 copying tfcomb/data/JASPAR2020_CORE_vertebrates.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,373 copying tfcomb/data/dmelanogaster_genes.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,380 copying tfcomb/data/drerio_genes.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,384 copying tfcomb/data/hsapiens_genes.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,388 copying tfcomb/data/mmusculus_genes.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,392 copying tfcomb/data/scerevisiae_genes.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,394 copying tfcomb/data/tax_ids.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,394 copying tfcomb/data/xtropicalis_genes.txt -> build/lib.linux-armv7l-cpython-313/tfcomb/data 2025-09-11T21:32:20,398 running build_ext 2025-09-11T21:32:20,951 Compiling tfcomb/counting.pyx because it changed. 2025-09-11T21:32:20,951 [1/1] Cythonizing tfcomb/counting.pyx 2025-09-11T21:32:22,734 Error compiling Cython file: 2025-09-11T21:32:22,734 ------------------------------------------------------------ 2025-09-11T21:32:22,734 ... 2025-09-11T21:32:22,734 #---------------------------------------------------------------------------------------# 2025-09-11T21:32:22,734 @cython.cdivision(True) #no check for zero division 2025-09-11T21:32:22,734 @cython.boundscheck(False) #dont check boundaries 2025-09-11T21:32:22,734 @cython.wraparound(False) #dont deal with negative indices 2025-09-11T21:32:22,734 @cython.nonecheck(False) 2025-09-11T21:32:22,735 def count_co_occurrence(np.ndarray[np.int_t, ndim=2] sites, 2025-09-11T21:32:22,735 ^ 2025-09-11T21:32:22,735 ------------------------------------------------------------ 2025-09-11T21:32:22,735 tfcomb/counting.pyx:47:38: Invalid type. 2025-09-11T21:32:22,745 Traceback (most recent call last): 2025-09-11T21:32:22,757 File "", line 2, in 2025-09-11T21:32:22,757 exec(compile(''' 2025-09-11T21:32:22,757 ~~~~^^^^^^^^^^^^ 2025-09-11T21:32:22,757 # This is -- a caller that pip uses to run setup.py 2025-09-11T21:32:22,757 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,757 ...<32 lines>... 2025-09-11T21:32:22,757 exec(compile(setup_py_code, filename, "exec")) 2025-09-11T21:32:22,758 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,758 ''' % ('/tmp/pip-wheel-sts4h7gg/tf-comb_34d0ed16ce8046038a4429ee9e718abc/setup.py',), "", "exec")) 2025-09-11T21:32:22,758 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,758 File "", line 35, in 2025-09-11T21:32:22,758 File "/tmp/pip-wheel-sts4h7gg/tf-comb_34d0ed16ce8046038a4429ee9e718abc/setup.py", line 51, in 2025-09-11T21:32:22,759 setup(name='TF-COMB', 2025-09-11T21:32:22,759 ~~~~~^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,759 version=find_version(os.path.join(setupdir, "tfcomb", "__init__.py")), # get version from __init__.py 2025-09-11T21:32:22,759 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,759 ...<38 lines>... 2025-09-11T21:32:22,759 include_package_data=True 2025-09-11T21:32:22,759 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,760 ) 2025-09-11T21:32:22,760 ^ 2025-09-11T21:32:22,760 File "/usr/local/lib/python3.13/dist-packages/setuptools/__init__.py", line 115, in setup 2025-09-11T21:32:22,760 return distutils.core.setup(**attrs) 2025-09-11T21:32:22,760 ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,760 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 186, in setup 2025-09-11T21:32:22,761 return run_commands(dist) 2025-09-11T21:32:22,761 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 202, in run_commands 2025-09-11T21:32:22,761 dist.run_commands() 2025-09-11T21:32:22,761 ~~~~~~~~~~~~~~~~~^^ 2025-09-11T21:32:22,761 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1002, in run_commands 2025-09-11T21:32:22,761 self.run_command(cmd) 2025-09-11T21:32:22,761 ~~~~~~~~~~~~~~~~^^^^^ 2025-09-11T21:32:22,762 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-11T21:32:22,762 super().run_command(command) 2025-09-11T21:32:22,762 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,762 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-11T21:32:22,762 cmd_obj.run() 2025-09-11T21:32:22,762 ~~~~~~~~~~~^^ 2025-09-11T21:32:22,762 File "/usr/local/lib/python3.13/dist-packages/setuptools/command/bdist_wheel.py", line 370, in run 2025-09-11T21:32:22,763 self.run_command("build") 2025-09-11T21:32:22,763 ~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,763 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-11T21:32:22,763 self.distribution.run_command(command) 2025-09-11T21:32:22,763 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,763 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-11T21:32:22,764 super().run_command(command) 2025-09-11T21:32:22,764 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,764 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-11T21:32:22,764 cmd_obj.run() 2025-09-11T21:32:22,764 ~~~~~~~~~~~^^ 2025-09-11T21:32:22,764 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build.py", line 135, in run 2025-09-11T21:32:22,765 self.run_command(cmd_name) 2025-09-11T21:32:22,765 ~~~~~~~~~~~~~~~~^^^^^^^^^^ 2025-09-11T21:32:22,765 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-11T21:32:22,765 self.distribution.run_command(command) 2025-09-11T21:32:22,765 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,765 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-11T21:32:22,766 super().run_command(command) 2025-09-11T21:32:22,766 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T21:32:22,766 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-11T21:32:22,766 cmd_obj.run() 2025-09-11T21:32:22,766 ~~~~~~~~~~~^^ 2025-09-11T21:32:22,767 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 368, in run 2025-09-11T21:32:22,767 self.build_extensions() 2025-09-11T21:32:22,767 ~~~~~~~~~~~~~~~~~~~~~^^ 2025-09-11T21:32:22,767 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 484, in build_extensions 2025-09-11T21:32:22,767 self._build_extensions_serial() 2025-09-11T21:32:22,767 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^ 2025-09-11T21:32:22,767 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build_ext.py", line 510, in _build_extensions_serial 2025-09-11T21:32:22,768 self.build_extension(ext) 2025-09-11T21:32:22,768 ~~~~~~~~~~~~~~~~~~~~^^^^^ 2025-09-11T21:32:22,768 File "/usr/local/lib/python3.13/dist-packages/Cython/Distutils/build_ext.py", line 131, in build_extension 2025-09-11T21:32:22,768 new_ext = cythonize( 2025-09-11T21:32:22,768 ~~~~~~~~~^ 2025-09-11T21:32:22,768 ext,force=self.force, quiet=self.verbose == 0, **options 2025-09-11T21:32:22,768 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T21:32:22,769 )[0] 2025-09-11T21:32:22,769 ^ 2025-09-11T21:32:22,769 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1154, in cythonize 2025-09-11T21:32:22,769 cythonize_one(*args) 2025-09-11T21:32:22,769 ~~~~~~~~~~~~~^^^^^^^ 2025-09-11T21:32:22,769 File "/usr/local/lib/python3.13/dist-packages/Cython/Build/Dependencies.py", line 1298, in cythonize_one 2025-09-11T21:32:22,769 raise CompileError(None, pyx_file) 2025-09-11T21:32:22,770 Cython.Compiler.Errors.CompileError: tfcomb/counting.pyx 2025-09-11T21:32:23,190 ERROR: python setup.py bdist_wheel exited with 1 2025-09-11T21:32:23,204 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-11T21:32:23,204 exec(compile('"'"''"'"''"'"' 2025-09-11T21:32:23,204 # This is -- a caller that pip uses to run setup.py 2025-09-11T21:32:23,204 # 2025-09-11T21:32:23,204 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-11T21:32:23,204 # import from `distutils.core` to work with newer packaging standards. 2025-09-11T21:32:23,204 # - It provides a clear error message when setuptools is not installed. 2025-09-11T21:32:23,204 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-11T21:32:23,204 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-11T21:32:23,204 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-11T21:32:23,204 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-11T21:32:23,204 import os, sys, tokenize, traceback 2025-09-11T21:32:23,204 2025-09-11T21:32:23,204 try: 2025-09-11T21:32:23,204 import setuptools 2025-09-11T21:32:23,204 except ImportError: 2025-09-11T21:32:23,204 print( 2025-09-11T21:32:23,204 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-11T21:32:23,204 "the build environment with exception:", 2025-09-11T21:32:23,204 file=sys.stderr, 2025-09-11T21:32:23,204 ) 2025-09-11T21:32:23,204 traceback.print_exc() 2025-09-11T21:32:23,204 sys.exit(1) 2025-09-11T21:32:23,204 2025-09-11T21:32:23,204 __file__ = %r 2025-09-11T21:32:23,204 sys.argv[0] = __file__ 2025-09-11T21:32:23,204 2025-09-11T21:32:23,204 if os.path.exists(__file__): 2025-09-11T21:32:23,204 filename = __file__ 2025-09-11T21:32:23,204 with tokenize.open(__file__) as f: 2025-09-11T21:32:23,204 setup_py_code = f.read() 2025-09-11T21:32:23,204 else: 2025-09-11T21:32:23,204 filename = "" 2025-09-11T21:32:23,204 setup_py_code = "from setuptools import setup; setup()" 2025-09-11T21:32:23,204 2025-09-11T21:32:23,204 exec(compile(setup_py_code, filename, "exec")) 2025-09-11T21:32:23,204 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-sts4h7gg/tf-comb_34d0ed16ce8046038a4429ee9e718abc/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-01f3rkqq[/] 2025-09-11T21:32:23,204 [bold magenta]cwd[/]: /tmp/pip-wheel-sts4h7gg/tf-comb_34d0ed16ce8046038a4429ee9e718abc/ 2025-09-11T21:32:23,204 Building wheel for tf-comb (setup.py): finished with status 'error' 2025-09-11T21:32:23,205 ERROR: Failed building wheel for tf-comb 2025-09-11T21:32:23,206 Running setup.py clean for tf-comb 2025-09-11T21:32:23,207 Running command python setup.py clean 2025-09-11T21:32:24,134 /usr/local/lib/python3.13/dist-packages/setuptools/__init__.py:92: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. 2025-09-11T21:32:24,134 !! 2025-09-11T21:32:24,134 ******************************************************************************** 2025-09-11T21:32:24,135 Requirements should be satisfied by a PEP 517 installer. 2025-09-11T21:32:24,135 If you are using pip, you can try `pip install --use-pep517`. 2025-09-11T21:32:24,135 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-11T21:32:24,135 or your builds will no longer be supported. 2025-09-11T21:32:24,135 ******************************************************************************** 2025-09-11T21:32:24,135 !! 2025-09-11T21:32:24,135 dist.fetch_build_eggs(dist.setup_requires) 2025-09-11T21:32:24,726 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-11T21:32:24,726 !! 2025-09-11T21:32:24,726 ******************************************************************************** 2025-09-11T21:32:24,727 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-11T21:32:24,727 License :: OSI Approved :: MIT License 2025-09-11T21:32:24,727 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-11T21:32:24,727 ******************************************************************************** 2025-09-11T21:32:24,727 !! 2025-09-11T21:32:24,727 self._finalize_license_expression() 2025-09-11T21:32:24,816 running clean 2025-09-11T21:32:24,987 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-11T21:32:24,989 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-11T21:32:24,990 'build/scripts-3.13' does not exist -- can't clean it 2025-09-11T21:32:24,990 removing 'build' 2025-09-11T21:32:25,149 Failed to build tf-comb 2025-09-11T21:32:25,150 ERROR: Failed to build one or more wheels 2025-09-11T21:32:25,151 Exception information: 2025-09-11T21:32:25,151 Traceback (most recent call last): 2025-09-11T21:32:25,151 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-11T21:32:25,151 status = _inner_run() 2025-09-11T21:32:25,151 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-11T21:32:25,151 return self.run(options, args) 2025-09-11T21:32:25,151 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-11T21:32:25,151 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-11T21:32:25,151 return func(self, options, args) 2025-09-11T21:32:25,151 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-11T21:32:25,151 raise CommandError("Failed to build one or more wheels") 2025-09-11T21:32:25,151 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-11T21:32:25,155 Removed build tracker: '/tmp/pip-build-tracker-5_o6gt8b'