2025-06-01T15:36:13,082 Created temporary directory: /tmp/pip-build-tracker-6c2zhev0 2025-06-01T15:36:13,083 Initialized build tracking at /tmp/pip-build-tracker-6c2zhev0 2025-06-01T15:36:13,084 Created build tracker: /tmp/pip-build-tracker-6c2zhev0 2025-06-01T15:36:13,084 Entered build tracker: /tmp/pip-build-tracker-6c2zhev0 2025-06-01T15:36:13,085 Created temporary directory: /tmp/pip-wheel-ue8lg22c 2025-06-01T15:36:13,089 Created temporary directory: /tmp/pip-ephem-wheel-cache-rwsju3oh 2025-06-01T15:36:13,145 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-06-01T15:36:13,148 2 location(s) to search for versions of cellmaps-coembedding: 2025-06-01T15:36:13,148 * https://pypi.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:13,148 * https://www.piwheels.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:13,149 Fetching project page and analyzing links: https://pypi.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:13,150 Getting page 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2025-06-01T15:36:13,518 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/7e/1d/924043f620f4457997fab4541a2e034ce79b96a6eddb69aec51025874a6f/cellmaps_coembedding-1.2.1a1-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,519 Found link https://files.pythonhosted.org/packages/e1/54/d98116c0ba8271390dfc804d2a4dadc45be11537ac73a8fd5d8ec8e0a306/cellmaps_coembedding-1.2.1a1.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.2.1a1 2025-06-01T15:36:13,520 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/00/2c/e35196716f94ec243790db29cb059749f2743f201f297fe12cd53ad40798/cellmaps_coembedding-1.2.1-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,521 Found link 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(from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,523 Found link https://files.pythonhosted.org/packages/81/3e/0e993b84bf191b31b388da40d4e8faec29a8aa7e20d795631efb6d8e6e42/cellmaps_coembedding-1.2.2a2.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.2.2a2 2025-06-01T15:36:13,524 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/6b/e5/f4884a8522f4b1c9ec965cd56f55335f247713b8105a2576bf06555c91e5/cellmaps_coembedding-1.2.2-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,525 Found link https://files.pythonhosted.org/packages/4c/ee/2ac12d7f47c597a12cbbd53720191824322985b4765a1fe30d77c131b0b5/cellmaps_coembedding-1.2.2.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.2.2 2025-06-01T15:36:13,526 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/94/2d/4c6928c940b3a3a000dccca4ec0600639c58392ad5fc78086f4aca44d71d/cellmaps_coembedding-1.3.0a1-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,526 Found link https://files.pythonhosted.org/packages/a3/1a/3b8336ed311f63a6b8270701a0869135baca647a1af2392ce2d80275a010/cellmaps_coembedding-1.3.0a1.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.3.0a1 2025-06-01T15:36:13,527 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/85/cc/76ef817e016f894e5f7a4b16355c86a460802bfcddd5c13d670084a6ab8a/cellmaps_coembedding-1.3.0-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,528 Found link https://files.pythonhosted.org/packages/eb/76/a534790ee751fedcf845a08bf718496939abafc76c6f54634f97297e0afd/cellmaps_coembedding-1.3.0.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.3.0 2025-06-01T15:36:13,529 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/c0/d4/6a458fd5e17b31b8b3eb84c78e960a9dc29b5bbb4d0b93e2b23548f45a4e/cellmaps_coembedding-1.3.1a1-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,529 Found link https://files.pythonhosted.org/packages/04/76/489f181141e90e033b5c4bcae6b5d4bf3b730b9eb3527da3fc3677eb4ca5/cellmaps_coembedding-1.3.1a1.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.3.1a1 2025-06-01T15:36:13,530 Skipping link: No binaries permitted for cellmaps-coembedding: https://files.pythonhosted.org/packages/01/eb/b65a2f41d906ac749aa45516804a4f12c9ea3a23a7f42c113241e44f98cd/cellmaps_coembedding-1.3.1-py2.py3-none-any.whl (from https://pypi.org/simple/cellmaps-coembedding/) 2025-06-01T15:36:13,531 Found link https://files.pythonhosted.org/packages/68/a9/14e3cfcfc81006e348ecdc170e49fe272923ed44a41bf389cb593d7dd614/cellmaps_coembedding-1.3.1.tar.gz (from https://pypi.org/simple/cellmaps-coembedding/), version: 1.3.1 2025-06-01T15:36:13,532 Fetching project page and analyzing links: https://www.piwheels.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:13,533 Getting page https://www.piwheels.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:13,534 Found index url https://www.piwheels.org/simple/ 2025-06-01T15:36:13,692 WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/cellmaps-coembedding/ 2025-06-01T15:36:14,366 WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/cellmaps-coembedding/ 2025-06-01T15:36:15,536 WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/cellmaps-coembedding/ 2025-06-01T15:36:17,716 WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/cellmaps-coembedding/ 2025-06-01T15:36:21,893 WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/cellmaps-coembedding/ 2025-06-01T15:36:22,062 Could not fetch URL https://www.piwheels.org/simple/cellmaps-coembedding/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/cellmaps-coembedding/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping 2025-06-01T15:36:22,064 Skipping link: not a file: https://www.piwheels.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:22,065 Skipping link: not a file: https://pypi.org/simple/cellmaps-coembedding/ 2025-06-01T15:36:22,092 Given no hashes to check 1 links for project 'cellmaps-coembedding': discarding no candidates 2025-06-01T15:36:22,094 Collecting cellmaps-coembedding==1.2.1a1 2025-06-01T15:36:22,096 Created temporary directory: /tmp/pip-unpack-lnyj9xc8 2025-06-01T15:36:22,328 Downloading cellmaps_coembedding-1.2.1a1.tar.gz (227 kB) 2025-06-01T15:36:23,882 Added cellmaps-coembedding==1.2.1a1 from https://files.pythonhosted.org/packages/e1/54/d98116c0ba8271390dfc804d2a4dadc45be11537ac73a8fd5d8ec8e0a306/cellmaps_coembedding-1.2.1a1.tar.gz to build tracker '/tmp/pip-build-tracker-6c2zhev0' 2025-06-01T15:36:23,884 Running setup.py (path:/tmp/pip-wheel-ue8lg22c/cellmaps-coembedding_f778ba5e618c44739d6630329cc44f7d/setup.py) egg_info for package cellmaps-coembedding 2025-06-01T15:36:23,886 Created temporary directory: /tmp/pip-pip-egg-info-uni9xmzi 2025-06-01T15:36:23,886 Preparing metadata (setup.py): started 2025-06-01T15:36:23,888 Running command python setup.py egg_info 2025-06-01T15:36:24,791 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-01T15:36:24,791 !! 2025-06-01T15:36:24,792 ******************************************************************************** 2025-06-01T15:36:24,793 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-01T15:36:24,794 License :: OSI Approved :: MIT License 2025-06-01T15:36:24,795 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-01T15:36:24,795 ******************************************************************************** 2025-06-01T15:36:24,796 !! 2025-06-01T15:36:24,797 self._finalize_license_expression() 2025-06-01T15:36:24,820 running egg_info 2025-06-01T15:36:24,849 creating /tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info 2025-06-01T15:36:24,849 writing /tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/PKG-INFO 2025-06-01T15:36:24,854 writing dependency_links to /tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/dependency_links.txt 2025-06-01T15:36:24,856 writing requirements to /tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/requires.txt 2025-06-01T15:36:24,857 writing top-level names to /tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/top_level.txt 2025-06-01T15:36:24,858 writing manifest file '/tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/SOURCES.txt' 2025-06-01T15:36:25,368 reading manifest file '/tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/SOURCES.txt' 2025-06-01T15:36:25,370 reading manifest template 'MANIFEST.in' 2025-06-01T15:36:25,376 warning: no previously-included files matching '__pycache__' found under directory '*' 2025-06-01T15:36:25,377 warning: no previously-included files matching '*.py[co]' found under directory '*' 2025-06-01T15:36:25,417 warning: no files found matching '*.jpg' under directory 'docs' 2025-06-01T15:36:25,438 warning: no files found matching '*.gif' under directory 'docs' 2025-06-01T15:36:25,439 adding license file 'LICENSE' 2025-06-01T15:36:25,439 adding license file 'AUTHORS.rst' 2025-06-01T15:36:25,871 writing manifest file '/tmp/pip-pip-egg-info-uni9xmzi/cellmaps_coembedding.egg-info/SOURCES.txt' 2025-06-01T15:36:25,978 Preparing metadata (setup.py): finished with status 'done' 2025-06-01T15:36:25,983 Source in /tmp/pip-wheel-ue8lg22c/cellmaps-coembedding_f778ba5e618c44739d6630329cc44f7d has version 1.2.1a1, which satisfies requirement cellmaps-coembedding==1.2.1a1 from https://files.pythonhosted.org/packages/e1/54/d98116c0ba8271390dfc804d2a4dadc45be11537ac73a8fd5d8ec8e0a306/cellmaps_coembedding-1.2.1a1.tar.gz 2025-06-01T15:36:25,984 Removed cellmaps-coembedding==1.2.1a1 from https://files.pythonhosted.org/packages/e1/54/d98116c0ba8271390dfc804d2a4dadc45be11537ac73a8fd5d8ec8e0a306/cellmaps_coembedding-1.2.1a1.tar.gz from build tracker '/tmp/pip-build-tracker-6c2zhev0' 2025-06-01T15:36:25,993 Created temporary directory: /tmp/pip-unpack-tk57o0hr 2025-06-01T15:36:25,994 Created temporary directory: /tmp/pip-unpack-0u03sv7m 2025-06-01T15:36:25,994 Building wheels for collected packages: cellmaps-coembedding 2025-06-01T15:36:25,999 Created temporary directory: /tmp/pip-wheel-k83qtjwb 2025-06-01T15:36:26,000 DEPRECATION: Building 'cellmaps-coembedding' 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 'cellmaps-coembedding'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-06-01T15:36:26,001 Building wheel for cellmaps-coembedding (setup.py): started 2025-06-01T15:36:26,002 Destination directory: /tmp/pip-wheel-k83qtjwb 2025-06-01T15:36:26,003 Running command python setup.py bdist_wheel 2025-06-01T15:36:26,861 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-01T15:36:26,862 !! 2025-06-01T15:36:26,863 ******************************************************************************** 2025-06-01T15:36:26,863 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-01T15:36:26,864 License :: OSI Approved :: MIT License 2025-06-01T15:36:26,865 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-01T15:36:26,866 ******************************************************************************** 2025-06-01T15:36:26,867 !! 2025-06-01T15:36:26,867 self._finalize_license_expression() 2025-06-01T15:36:26,868 running bdist_wheel 2025-06-01T15:36:26,947 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:135: SetuptoolsDeprecationWarning: bdist_wheel.universal is deprecated 2025-06-01T15:36:26,948 !! 2025-06-01T15:36:26,949 ******************************************************************************** 2025-06-01T15:36:26,950 With Python 2.7 end-of-life, support for building universal wheels 2025-06-01T15:36:26,950 (i.e., wheels that support both Python 2 and Python 3) 2025-06-01T15:36:26,951 is being obviated. 2025-06-01T15:36:26,951 Please discontinue using this option, or if you still need it, 2025-06-01T15:36:26,952 file an issue with pypa/setuptools describing your use case. 2025-06-01T15:36:26,953 By 2025-Aug-30, you need to update your project and remove deprecated calls 2025-06-01T15:36:26,953 or your builds will no longer be supported. 2025-06-01T15:36:26,954 ******************************************************************************** 2025-06-01T15:36:26,955 !! 2025-06-01T15:36:26,956 self.finalize_options() 2025-06-01T15:36:27,004 running build 2025-06-01T15:36:27,005 running build_py 2025-06-01T15:36:27,036 creating build/lib/cellmaps_coembedding 2025-06-01T15:36:27,038 copying cellmaps_coembedding/exceptions.py -> build/lib/cellmaps_coembedding 2025-06-01T15:36:27,040 copying cellmaps_coembedding/runner.py -> build/lib/cellmaps_coembedding 2025-06-01T15:36:27,044 copying cellmaps_coembedding/__init__.py -> build/lib/cellmaps_coembedding 2025-06-01T15:36:27,045 copying cellmaps_coembedding/cellmaps_coembeddingcmd.py -> build/lib/cellmaps_coembedding 2025-06-01T15:36:27,048 copying cellmaps_coembedding/utils.py -> build/lib/cellmaps_coembedding 2025-06-01T15:36:27,052 creating build/lib/cellmaps_coembedding/muse_sc 2025-06-01T15:36:27,053 copying cellmaps_coembedding/muse_sc/file_utils.py -> build/lib/cellmaps_coembedding/muse_sc 2025-06-01T15:36:27,055 copying cellmaps_coembedding/muse_sc/triplet_loss.py -> build/lib/cellmaps_coembedding/muse_sc 2025-06-01T15:36:27,058 copying cellmaps_coembedding/muse_sc/__init__.py -> build/lib/cellmaps_coembedding/muse_sc 2025-06-01T15:36:27,061 copying cellmaps_coembedding/muse_sc/df_utils.py -> build/lib/cellmaps_coembedding/muse_sc 2025-06-01T15:36:27,063 copying cellmaps_coembedding/muse_sc/architecture.py -> build/lib/cellmaps_coembedding/muse_sc 2025-06-01T15:36:27,066 creating build/lib/cellmaps_coembedding/protein_gps 2025-06-01T15:36:27,067 copying cellmaps_coembedding/protein_gps/__init__.py -> build/lib/cellmaps_coembedding/protein_gps 2025-06-01T15:36:27,070 copying cellmaps_coembedding/protein_gps/architecture.py -> build/lib/cellmaps_coembedding/protein_gps 2025-06-01T15:36:27,072 running egg_info 2025-06-01T15:36:27,104 writing cellmaps_coembedding.egg-info/PKG-INFO 2025-06-01T15:36:27,107 writing dependency_links to cellmaps_coembedding.egg-info/dependency_links.txt 2025-06-01T15:36:27,109 writing requirements to cellmaps_coembedding.egg-info/requires.txt 2025-06-01T15:36:27,111 writing top-level names to cellmaps_coembedding.egg-info/top_level.txt 2025-06-01T15:36:27,490 reading manifest file 'cellmaps_coembedding.egg-info/SOURCES.txt' 2025-06-01T15:36:27,815 reading manifest template 'MANIFEST.in' 2025-06-01T15:36:27,822 warning: no previously-included files matching '__pycache__' found under directory '*' 2025-06-01T15:36:27,824 warning: no previously-included files matching '*.py[co]' found under directory '*' 2025-06-01T15:36:27,864 warning: no files found matching '*.jpg' under directory 'docs' 2025-06-01T15:36:27,888 warning: no files found matching '*.gif' under directory 'docs' 2025-06-01T15:36:27,888 adding license file 'LICENSE' 2025-06-01T15:36:27,889 adding license file 'AUTHORS.rst' 2025-06-01T15:36:28,143 writing manifest file 'cellmaps_coembedding.egg-info/SOURCES.txt' 2025-06-01T15:36:28,536 copying cellmaps_coembedding/corum_M.tsv -> build/lib/cellmaps_coembedding 2025-06-01T15:36:30,217 copying cellmaps_coembedding/readme_outputs.txt -> build/lib/cellmaps_coembedding 2025-06-01T15:36:30,220 running build_scripts 2025-06-01T15:36:30,221 creating build/scripts-3.11 2025-06-01T15:36:30,222 copying and adjusting cellmaps_coembedding/cellmaps_coembeddingcmd.py -> build/scripts-3.11 2025-06-01T15:36:30,224 changing mode of build/scripts-3.11/cellmaps_coembeddingcmd.py from 644 to 755 2025-06-01T15:36:30,252 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-06-01T15:36:30,253 !! 2025-06-01T15:36:30,254 ******************************************************************************** 2025-06-01T15:36:30,255 Please avoid running ``setup.py`` directly. 2025-06-01T15:36:30,255 Instead, use pypa/build, pypa/installer or other 2025-06-01T15:36:30,256 standards-based tools. 2025-06-01T15:36:30,257 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-01T15:36:30,258 or your builds will no longer be supported. 2025-06-01T15:36:30,259 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-06-01T15:36:30,260 ******************************************************************************** 2025-06-01T15:36:30,261 !! 2025-06-01T15:36:30,261 self.initialize_options() 2025-06-01T15:36:30,281 installing to build/bdist.linux-armv7l/wheel 2025-06-01T15:36:30,282 running install 2025-06-01T15:36:30,307 running install_lib 2025-06-01T15:36:30,334 creating build/bdist.linux-armv7l/wheel 2025-06-01T15:36:30,336 creating build/bdist.linux-armv7l/wheel/cellmaps_coembedding 2025-06-01T15:36:30,337 copying build/lib/cellmaps_coembedding/exceptions.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:30,423 copying build/lib/cellmaps_coembedding/corum_M.tsv -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:31,596 creating build/bdist.linux-armv7l/wheel/cellmaps_coembedding/muse_sc 2025-06-01T15:36:31,597 copying build/lib/cellmaps_coembedding/muse_sc/file_utils.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/muse_sc 2025-06-01T15:36:31,599 copying build/lib/cellmaps_coembedding/muse_sc/triplet_loss.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/muse_sc 2025-06-01T15:36:31,601 copying build/lib/cellmaps_coembedding/muse_sc/__init__.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/muse_sc 2025-06-01T15:36:31,603 copying build/lib/cellmaps_coembedding/muse_sc/df_utils.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/muse_sc 2025-06-01T15:36:31,605 copying build/lib/cellmaps_coembedding/muse_sc/architecture.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/muse_sc 2025-06-01T15:36:31,607 copying build/lib/cellmaps_coembedding/runner.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:31,611 copying build/lib/cellmaps_coembedding/__init__.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:31,613 copying build/lib/cellmaps_coembedding/cellmaps_coembeddingcmd.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:31,616 copying build/lib/cellmaps_coembedding/readme_outputs.txt -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:31,619 copying build/lib/cellmaps_coembedding/utils.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding 2025-06-01T15:36:31,622 creating build/bdist.linux-armv7l/wheel/cellmaps_coembedding/protein_gps 2025-06-01T15:36:31,624 copying build/lib/cellmaps_coembedding/protein_gps/__init__.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/protein_gps 2025-06-01T15:36:31,626 copying build/lib/cellmaps_coembedding/protein_gps/architecture.py -> build/bdist.linux-armv7l/wheel/./cellmaps_coembedding/protein_gps 2025-06-01T15:36:31,629 running install_egg_info 2025-06-01T15:36:31,668 Copying cellmaps_coembedding.egg-info to build/bdist.linux-armv7l/wheel/./cellmaps_coembedding-1.2.1a1-py3.11.egg-info 2025-06-01T15:36:31,680 running install_scripts 2025-06-01T15:36:31,681 creating build/bdist.linux-armv7l/wheel/cellmaps_coembedding-1.2.1a1.data/scripts 2025-06-01T15:36:31,683 copying build/scripts-3.11/cellmaps_coembeddingcmd.py -> build/bdist.linux-armv7l/wheel/cellmaps_coembedding-1.2.1a1.data/scripts 2025-06-01T15:36:31,686 changing mode of build/bdist.linux-armv7l/wheel/cellmaps_coembedding-1.2.1a1.data/scripts/cellmaps_coembeddingcmd.py to 755 2025-06-01T15:36:31,701 creating build/bdist.linux-armv7l/wheel/cellmaps_coembedding-1.2.1a1.dist-info/WHEEL 2025-06-01T15:36:31,704 creating '/tmp/pip-wheel-k83qtjwb/cellmaps_coembedding-1.2.1a1-py2.py3-none-any.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-06-01T15:36:31,708 adding 'cellmaps_coembedding/__init__.py' 2025-06-01T15:36:31,710 adding 'cellmaps_coembedding/cellmaps_coembeddingcmd.py' 2025-06-01T15:36:32,775 adding 'cellmaps_coembedding/corum_M.tsv' 2025-06-01T15:36:33,015 adding 'cellmaps_coembedding/exceptions.py' 2025-06-01T15:36:33,016 adding 'cellmaps_coembedding/readme_outputs.txt' 2025-06-01T15:36:33,020 adding 'cellmaps_coembedding/runner.py' 2025-06-01T15:36:33,022 adding 'cellmaps_coembedding/utils.py' 2025-06-01T15:36:33,025 adding 'cellmaps_coembedding/muse_sc/__init__.py' 2025-06-01T15:36:33,027 adding 'cellmaps_coembedding/muse_sc/architecture.py' 2025-06-01T15:36:33,028 adding 'cellmaps_coembedding/muse_sc/df_utils.py' 2025-06-01T15:36:33,029 adding 'cellmaps_coembedding/muse_sc/file_utils.py' 2025-06-01T15:36:33,031 adding 'cellmaps_coembedding/muse_sc/triplet_loss.py' 2025-06-01T15:36:33,034 adding 'cellmaps_coembedding/protein_gps/__init__.py' 2025-06-01T15:36:33,036 adding 'cellmaps_coembedding/protein_gps/architecture.py' 2025-06-01T15:36:33,039 adding 'cellmaps_coembedding-1.2.1a1.data/scripts/cellmaps_coembeddingcmd.py' 2025-06-01T15:36:33,041 adding 'cellmaps_coembedding-1.2.1a1.dist-info/licenses/AUTHORS.rst' 2025-06-01T15:36:33,043 adding 'cellmaps_coembedding-1.2.1a1.dist-info/licenses/LICENSE' 2025-06-01T15:36:33,044 adding 'cellmaps_coembedding-1.2.1a1.dist-info/METADATA' 2025-06-01T15:36:33,046 adding 'cellmaps_coembedding-1.2.1a1.dist-info/WHEEL' 2025-06-01T15:36:33,047 adding 'cellmaps_coembedding-1.2.1a1.dist-info/top_level.txt' 2025-06-01T15:36:33,048 adding 'cellmaps_coembedding-1.2.1a1.dist-info/RECORD' 2025-06-01T15:36:33,052 removing build/bdist.linux-armv7l/wheel 2025-06-01T15:36:33,217 error: [Errno 39] Directory not empty: 'cellmaps_coembedding' 2025-06-01T15:36:33,324 ERROR: python setup.py bdist_wheel exited with 1 2025-06-01T15:36:33,338 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-06-01T15:36:33,338 exec(compile('"'"''"'"''"'"' 2025-06-01T15:36:33,338 # This is -- a caller that pip uses to run setup.py 2025-06-01T15:36:33,338 # 2025-06-01T15:36:33,338 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-06-01T15:36:33,338 # import from `distutils.core` to work with newer packaging standards. 2025-06-01T15:36:33,338 # - It provides a clear error message when setuptools is not installed. 2025-06-01T15:36:33,338 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-06-01T15:36:33,338 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-06-01T15:36:33,338 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-06-01T15:36:33,338 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-06-01T15:36:33,338 import os, sys, tokenize, traceback 2025-06-01T15:36:33,338 2025-06-01T15:36:33,338 try: 2025-06-01T15:36:33,338 import setuptools 2025-06-01T15:36:33,338 except ImportError: 2025-06-01T15:36:33,338 print( 2025-06-01T15:36:33,338 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-06-01T15:36:33,338 "the build environment with exception:", 2025-06-01T15:36:33,338 file=sys.stderr, 2025-06-01T15:36:33,338 ) 2025-06-01T15:36:33,338 traceback.print_exc() 2025-06-01T15:36:33,338 sys.exit(1) 2025-06-01T15:36:33,338 2025-06-01T15:36:33,338 __file__ = %r 2025-06-01T15:36:33,338 sys.argv[0] = __file__ 2025-06-01T15:36:33,338 2025-06-01T15:36:33,338 if os.path.exists(__file__): 2025-06-01T15:36:33,338 filename = __file__ 2025-06-01T15:36:33,338 with tokenize.open(__file__) as f: 2025-06-01T15:36:33,338 setup_py_code = f.read() 2025-06-01T15:36:33,338 else: 2025-06-01T15:36:33,338 filename = "" 2025-06-01T15:36:33,338 setup_py_code = "from setuptools import setup; setup()" 2025-06-01T15:36:33,338 2025-06-01T15:36:33,338 exec(compile(setup_py_code, filename, "exec")) 2025-06-01T15:36:33,338 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-ue8lg22c/cellmaps-coembedding_f778ba5e618c44739d6630329cc44f7d/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-k83qtjwb[/] 2025-06-01T15:36:33,339 [bold magenta]cwd[/]: /tmp/pip-wheel-ue8lg22c/cellmaps-coembedding_f778ba5e618c44739d6630329cc44f7d/ 2025-06-01T15:36:33,340 Building wheel for cellmaps-coembedding (setup.py): finished with status 'error' 2025-06-01T15:36:33,341 ERROR: Failed building wheel for cellmaps-coembedding 2025-06-01T15:36:33,343 Running setup.py clean for cellmaps-coembedding 2025-06-01T15:36:33,344 Running command python setup.py clean 2025-06-01T15:36:34,204 /usr/local/lib/python3.11/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-06-01T15:36:34,205 !! 2025-06-01T15:36:34,206 ******************************************************************************** 2025-06-01T15:36:34,206 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-06-01T15:36:34,208 License :: OSI Approved :: MIT License 2025-06-01T15:36:34,209 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-06-01T15:36:34,209 ******************************************************************************** 2025-06-01T15:36:34,210 !! 2025-06-01T15:36:34,211 self._finalize_license_expression() 2025-06-01T15:36:34,236 running clean 2025-06-01T15:36:34,292 removing 'build/lib' (and everything under it) 2025-06-01T15:36:34,320 removing 'build/bdist.linux-armv7l' (and everything under it) 2025-06-01T15:36:34,470 error removing build/bdist.linux-armv7l: [Errno 16] Device or resource busy: 'build/bdist.linux-armv7l/wheel/cellmaps_coembedding/.nfs000000000006040400007b1c' 2025-06-01T15:36:34,471 error removing build/bdist.linux-armv7l: [Errno 39] Directory not empty: 'build/bdist.linux-armv7l/wheel/cellmaps_coembedding' 2025-06-01T15:36:34,475 error removing build/bdist.linux-armv7l: [Errno 39] Directory not empty: 'build/bdist.linux-armv7l/wheel' 2025-06-01T15:36:34,476 error removing build/bdist.linux-armv7l: [Errno 39] Directory not empty: 'build/bdist.linux-armv7l' 2025-06-01T15:36:34,476 removing 'build/scripts-3.11' (and everything under it) 2025-06-01T15:36:34,583 Failed to build cellmaps-coembedding 2025-06-01T15:36:34,585 ERROR: Failed to build one or more wheels 2025-06-01T15:36:34,586 Exception information: 2025-06-01T15:36:34,586 Traceback (most recent call last): 2025-06-01T15:36:34,586 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 107, in _run_wrapper 2025-06-01T15:36:34,586 status = _inner_run() 2025-06-01T15:36:34,586 ^^^^^^^^^^^^ 2025-06-01T15:36:34,586 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/base_command.py", line 98, in _inner_run 2025-06-01T15:36:34,586 return self.run(options, args) 2025-06-01T15:36:34,586 ^^^^^^^^^^^^^^^^^^^^^^^ 2025-06-01T15:36:34,586 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/cli/req_command.py", line 71, in wrapper 2025-06-01T15:36:34,586 return func(self, options, args) 2025-06-01T15:36:34,586 ^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-06-01T15:36:34,586 File "/usr/local/lib/python3.11/dist-packages/pip/_internal/commands/wheel.py", line 179, in run 2025-06-01T15:36:34,586 raise CommandError("Failed to build one or more wheels") 2025-06-01T15:36:34,586 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-06-01T15:36:34,589 Removed build tracker: '/tmp/pip-build-tracker-6c2zhev0'