2025-09-11T12:08:49,825 Created temporary directory: /tmp/pip-build-tracker-i7wca2hu 2025-09-11T12:08:49,826 Initialized build tracking at /tmp/pip-build-tracker-i7wca2hu 2025-09-11T12:08:49,826 Created build tracker: /tmp/pip-build-tracker-i7wca2hu 2025-09-11T12:08:49,827 Entered build tracker: /tmp/pip-build-tracker-i7wca2hu 2025-09-11T12:08:49,827 Created temporary directory: /tmp/pip-wheel-u156ya7d 2025-09-11T12:08:49,830 Created temporary directory: /tmp/pip-ephem-wheel-cache-av8i59rl 2025-09-11T12:08:49,892 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-11T12:08:49,895 2 location(s) to search for versions of wwpdb-utils-align: 2025-09-11T12:08:49,895 * https://pypi.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:49,895 * https://www.piwheels.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:49,895 Fetching project page and analyzing links: https://pypi.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:49,895 Getting page 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Skipping link: No binaries permitted for wwpdb-utils-align: https://files.pythonhosted.org/packages/82/47/3499f7b34613164ea04d251cd3a7585bb90b8e10992d5286cba6212d5ef0/wwpdb_utils_align-0.12.0-cp38-cp38-macosx_10_9_x86_64.whl (from https://pypi.org/simple/wwpdb-utils-align/) (requires-python:>=3.8) 2025-09-11T12:08:49,992 Skipping link: No binaries permitted for wwpdb-utils-align: https://files.pythonhosted.org/packages/e0/61/dc57428cc9efabaec80fe6785b61ba1070cdf8b622be0ac32ee1d2e87c66/wwpdb_utils_align-0.12.0-cp38-cp38-macosx_11_0_arm64.whl (from https://pypi.org/simple/wwpdb-utils-align/) (requires-python:>=3.8) 2025-09-11T12:08:49,992 Skipping link: No binaries permitted for wwpdb-utils-align: https://files.pythonhosted.org/packages/f2/8e/dd63a82fffdb19e44d658bb3db9a3f5a64fb49b36ffd2c0a61f81f03a8cd/wwpdb_utils_align-0.12.0-cp38-cp38-manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/wwpdb-utils-align/) (requires-python:>=3.8) 2025-09-11T12:08:49,992 Skipping 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binaries permitted for wwpdb-utils-align: https://files.pythonhosted.org/packages/d9/08/0ced2b87c63f9de50db297f5f08c496e69e84292b79f0e071dd00cd0dfb5/wwpdb_utils_align-0.12.0-cp39-cp39-manylinux_2_17_i686.manylinux2014_i686.whl (from https://pypi.org/simple/wwpdb-utils-align/) (requires-python:>=3.8) 2025-09-11T12:08:49,992 Skipping link: No binaries permitted for wwpdb-utils-align: https://files.pythonhosted.org/packages/11/b1/918bdcd7b72076bfb10ebd397ea0e74331b76ca46843849c9f22e66ce168/wwpdb_utils_align-0.12.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/wwpdb-utils-align/) (requires-python:>=3.8) 2025-09-11T12:08:49,993 Found link https://files.pythonhosted.org/packages/80/2d/34f040d635d0a6701f3f483816d1da05b8218ccbdf84fc6799e00526dadd/wwpdb_utils_align-0.12.0.tar.gz (from https://pypi.org/simple/wwpdb-utils-align/) (requires-python:>=3.8), version: 0.12.0 2025-09-11T12:08:49,994 Fetching project page and analyzing links: https://www.piwheels.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:49,994 Getting page https://www.piwheels.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:49,995 Found index url https://www.piwheels.org/simple/ 2025-09-11T12:08:50,082 Fetched page https://www.piwheels.org/simple/wwpdb-utils-align/ as text/html 2025-09-11T12:08:50,093 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb_utils_align-0.12.0-cp311-cp311-linux_armv6l.whl#sha256=080bc5e2404f1a8a996797dbd0150e91912fe9bb01ec2e615a85503d3486d27e (from https://www.piwheels.org/simple/wwpdb-utils-align/) (requires-python:>=3.8) 2025-09-11T12:08:50,094 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb_utils_align-0.12.0-cp311-cp311-linux_armv7l.whl#sha256=080bc5e2404f1a8a996797dbd0150e91912fe9bb01ec2e615a85503d3486d27e (from https://www.piwheels.org/simple/wwpdb-utils-align/) 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https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.11-cp37-cp37m-linux_armv7l.whl#sha256=e65ad4a6ad82d1e4905c284608c9732a727fcab01c38466a346e7c12dbc918d8 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,100 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.11-cp39-cp39-linux_armv6l.whl#sha256=f7ddeb0afcfb089397aec18e9140691d3e575467e2a29f5e49bf1946143ea414 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,100 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.11-cp39-cp39-linux_armv7l.whl#sha256=f7ddeb0afcfb089397aec18e9140691d3e575467e2a29f5e49bf1946143ea414 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,100 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp39-cp39-linux_armv6l.whl#sha256=81c22f07ee157ac44dcbc45396a046cfe4bee4e9b83fe896db81a44207ac3652 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,101 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp39-cp39-linux_armv7l.whl#sha256=81c22f07ee157ac44dcbc45396a046cfe4bee4e9b83fe896db81a44207ac3652 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,101 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp34-cp34m-linux_armv7l.whl#sha256=187aa2cc62cb9fc33666664df45110a8a9ea22bbb45ae35aa7dab2c181846c3e (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,101 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp34-cp34m-linux_armv6l.whl#sha256=187aa2cc62cb9fc33666664df45110a8a9ea22bbb45ae35aa7dab2c181846c3e (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,101 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp35-cp35m-linux_armv6l.whl#sha256=f1b32225cb7d430e9fea4c6247fbe4fecf95a881104e4b4039b6ff343b28269c (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,101 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp35-cp35m-linux_armv7l.whl#sha256=f1b32225cb7d430e9fea4c6247fbe4fecf95a881104e4b4039b6ff343b28269c (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,101 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp37-cp37m-linux_armv6l.whl#sha256=dacd2265ff97e73728f1e856657fb1099e938b0a1ae4759ae0c7ba189b52f540 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,102 Skipping link: No binaries permitted for wwpdb-utils-align: https://archive1.piwheels.org/simple/wwpdb-utils-align/wwpdb.utils.align-0.10-cp37-cp37m-linux_armv7l.whl#sha256=dacd2265ff97e73728f1e856657fb1099e938b0a1ae4759ae0c7ba189b52f540 (from https://www.piwheels.org/simple/wwpdb-utils-align/) 2025-09-11T12:08:50,102 Skipping link: not a file: https://www.piwheels.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:50,102 Skipping link: not a file: https://pypi.org/simple/wwpdb-utils-align/ 2025-09-11T12:08:50,127 Given no hashes to check 1 links for project 'wwpdb-utils-align': discarding no candidates 2025-09-11T12:08:50,128 Collecting wwpdb-utils-align==0.11.5 2025-09-11T12:08:50,129 Created temporary directory: /tmp/pip-unpack-z_glg0zg 2025-09-11T12:08:50,495 Downloading wwpdb.utils.align-0.11.5.tar.gz (610 kB) 2025-09-11T12:08:50,809 Added wwpdb-utils-align==0.11.5 from https://files.pythonhosted.org/packages/9d/36/1f149c592a06771cbbc5d4771652c846779fcf24505a368eb515e95a80d3/wwpdb.utils.align-0.11.5.tar.gz to build tracker '/tmp/pip-build-tracker-i7wca2hu' 2025-09-11T12:08:50,811 Running setup.py (path:/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/setup.py) egg_info for package wwpdb-utils-align 2025-09-11T12:08:50,811 Created temporary directory: /tmp/pip-pip-egg-info-7se7ffbm 2025-09-11T12:08:50,812 Preparing metadata (setup.py): started 2025-09-11T12:08:50,813 Running command python setup.py egg_info 2025-09-11T12:08:51,787 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-11T12:08:51,787 warnings.warn(msg) 2025-09-11T12:08:51,787 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-09-11T12:08:51,787 warnings.warn(msg) 2025-09-11T12:08:52,028 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-11T12:08:52,028 !! 2025-09-11T12:08:52,029 ******************************************************************************** 2025-09-11T12:08:52,029 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-11T12:08:52,029 License :: OSI Approved :: Apache Software License 2025-09-11T12:08:52,029 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-11T12:08:52,029 ******************************************************************************** 2025-09-11T12:08:52,030 !! 2025-09-11T12:08:52,030 self._finalize_license_expression() 2025-09-11T12:08:52,116 running egg_info 2025-09-11T12:08:52,201 creating /tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info 2025-09-11T12:08:52,201 writing /tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/PKG-INFO 2025-09-11T12:08:52,204 writing dependency_links to /tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/dependency_links.txt 2025-09-11T12:08:52,205 writing requirements to /tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/requires.txt 2025-09-11T12:08:52,205 writing top-level names to /tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/top_level.txt 2025-09-11T12:08:52,206 writing manifest file '/tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/SOURCES.txt' 2025-09-11T12:08:52,471 reading manifest file '/tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/SOURCES.txt' 2025-09-11T12:08:52,472 reading manifest template 'MANIFEST.in' 2025-09-11T12:08:52,480 adding license file 'LICENSE' 2025-09-11T12:08:52,487 writing manifest file '/tmp/pip-pip-egg-info-7se7ffbm/wwpdb.utils.align.egg-info/SOURCES.txt' 2025-09-11T12:08:52,621 Preparing metadata (setup.py): finished with status 'done' 2025-09-11T12:08:52,625 Source in /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1 has version 0.11.5, which satisfies requirement wwpdb-utils-align==0.11.5 from https://files.pythonhosted.org/packages/9d/36/1f149c592a06771cbbc5d4771652c846779fcf24505a368eb515e95a80d3/wwpdb.utils.align-0.11.5.tar.gz 2025-09-11T12:08:52,626 Removed wwpdb-utils-align==0.11.5 from https://files.pythonhosted.org/packages/9d/36/1f149c592a06771cbbc5d4771652c846779fcf24505a368eb515e95a80d3/wwpdb.utils.align-0.11.5.tar.gz from build tracker '/tmp/pip-build-tracker-i7wca2hu' 2025-09-11T12:08:52,631 Created temporary directory: /tmp/pip-unpack-eqpbpvw0 2025-09-11T12:08:52,631 Created temporary directory: /tmp/pip-unpack-r5ttjt21 2025-09-11T12:08:52,631 Building wheels for collected packages: wwpdb-utils-align 2025-09-11T12:08:52,633 Created temporary directory: /tmp/pip-wheel-u7eqf1df 2025-09-11T12:08:52,633 DEPRECATION: Building 'wwpdb-utils-align' 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 'wwpdb-utils-align'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-11T12:08:52,634 Building wheel for wwpdb-utils-align (setup.py): started 2025-09-11T12:08:52,635 Destination directory: /tmp/pip-wheel-u7eqf1df 2025-09-11T12:08:52,635 Running command python setup.py bdist_wheel 2025-09-11T12:08:53,584 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-11T12:08:53,584 warnings.warn(msg) 2025-09-11T12:08:53,585 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-09-11T12:08:53,585 warnings.warn(msg) 2025-09-11T12:08:53,813 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-11T12:08:53,813 !! 2025-09-11T12:08:53,813 ******************************************************************************** 2025-09-11T12:08:53,813 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-11T12:08:53,814 License :: OSI Approved :: Apache Software License 2025-09-11T12:08:53,814 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-11T12:08:53,814 ******************************************************************************** 2025-09-11T12:08:53,814 !! 2025-09-11T12:08:53,814 self._finalize_license_expression() 2025-09-11T12:08:53,815 running bdist_wheel 2025-09-11T12:08:54,155 running build 2025-09-11T12:08:54,155 running build_py 2025-09-11T12:08:54,243 creating build/lib.linux-armv7l-cpython-313/wwpdb 2025-09-11T12:08:54,243 copying wwpdb/__init__.py -> build/lib.linux-armv7l-cpython-313/wwpdb 2025-09-11T12:08:54,244 creating build/lib.linux-armv7l-cpython-313/wwpdb/utils 2025-09-11T12:08:54,245 copying wwpdb/utils/__init__.py -> build/lib.linux-armv7l-cpython-313/wwpdb/utils 2025-09-11T12:08:54,245 creating build/lib.linux-armv7l-cpython-313/wwpdb/utils/align 2025-09-11T12:08:54,246 copying wwpdb/utils/align/__init__.py -> build/lib.linux-armv7l-cpython-313/wwpdb/utils/align 2025-09-11T12:08:54,246 copying wwpdb/utils/align/SequenceReferenceData.py -> build/lib.linux-armv7l-cpython-313/wwpdb/utils/align 2025-09-11T12:08:54,247 copying wwpdb/utils/align/SequenceExamples.py -> build/lib.linux-armv7l-cpython-313/wwpdb/utils/align 2025-09-11T12:08:54,254 running build_ext 2025-09-11T12:08:54,312 ------ WARNING could not locate python library 2025-09-11T12:08:54,314 ------------- setup.py ----------------- 2025-09-11T12:08:54,315 Extension source path /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1 2025-09-11T12:08:54,315 CMAKE_ARGS ['-DCMAKE_LIBRARY_OUTPUT_DIRECTORY=/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/build/lib.linux-armv7l-cpython-313/wwpdb/utils/align', '-DPYTHON_EXECUTABLE=/usr/bin/python3', '-DPYTHON_INCLUDE_DIR=/usr/include/python3.13', '-DCMAKE_BUILD_TYPE=Release'] 2025-09-11T12:08:54,315 self.build_temp build/temp.linux-armv7l-cpython-313 2025-09-11T12:08:54,315 extdir /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/build/lib.linux-armv7l-cpython-313/wwpdb/utils/align 2025-09-11T12:08:54,315 ext.name wwpdb.utils.align.alignlib 2025-09-11T12:08:54,315 sys.executable /usr/bin/python3 2025-09-11T12:08:54,315 sys.exec_prefix /usr 2025-09-11T12:08:54,315 CXXFLAGS -DVERSION_INFO=\"0.11.5\" 2025-09-11T12:08:54,364 CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required): 2025-09-11T12:08:54,364 Compatibility with CMake < 3.10 will be removed from a future version of 2025-09-11T12:08:54,364 CMake. 2025-09-11T12:08:54,364 Update the VERSION argument value. Or, use the ... syntax 2025-09-11T12:08:54,364 to tell CMake that the project requires at least but has been updated 2025-09-11T12:08:54,365 to work with policies introduced by or earlier. 2025-09-11T12:08:54,674 -- The C compiler identification is GNU 14.2.0 2025-09-11T12:08:55,037 -- The CXX compiler identification is GNU 14.2.0 2025-09-11T12:08:55,088 -- Detecting C compiler ABI info 2025-09-11T12:08:55,528 -- Detecting C compiler ABI info - done 2025-09-11T12:08:55,611 -- Check for working C compiler: /usr/bin/cc - skipped 2025-09-11T12:08:55,613 -- Detecting C compile features 2025-09-11T12:08:55,616 -- Detecting C compile features - done 2025-09-11T12:08:55,680 -- Detecting CXX compiler ABI info 2025-09-11T12:08:56,167 -- Detecting CXX compiler ABI info - done 2025-09-11T12:08:56,247 -- Check for working CXX compiler: /usr/bin/c++ - skipped 2025-09-11T12:08:56,249 -- Detecting CXX compile features 2025-09-11T12:08:56,252 -- Detecting CXX compile features - done 2025-09-11T12:08:56,286 CMake Warning (dev) at CMakeLists.txt:17 (find_package): 2025-09-11T12:08:56,286 Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules 2025-09-11T12:08:56,286 are removed. Run "cmake --help-policy CMP0148" for policy details. Use 2025-09-11T12:08:56,286 the cmake_policy command to set the policy and suppress this warning. 2025-09-11T12:08:56,286 This warning is for project developers. Use -Wno-dev to suppress it. 2025-09-11T12:08:56,358 -- Found PythonInterp: /usr/bin/python3 (found version "3.13.5") 2025-09-11T12:08:56,360 CMake Warning (dev) at CMakeLists.txt:18 (find_package): 2025-09-11T12:08:56,360 Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules 2025-09-11T12:08:56,360 are removed. Run "cmake --help-policy CMP0148" for policy details. Use 2025-09-11T12:08:56,360 the cmake_policy command to set the policy and suppress this warning. 2025-09-11T12:08:56,360 This warning is for project developers. Use -Wno-dev to suppress it. 2025-09-11T12:08:56,385 -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.13.so (found version "3.13.5") 2025-09-11T12:08:56,386 -- Python include path set to /usr/include/python3.13 2025-09-11T12:08:56,388 CMake Deprecation Warning at modules/pybind11/CMakeLists.txt:8 (cmake_minimum_required): 2025-09-11T12:08:56,389 Compatibility with CMake < 3.10 will be removed from a future version of 2025-09-11T12:08:56,389 CMake. 2025-09-11T12:08:56,389 Update the VERSION argument value. Or, use the ... syntax 2025-09-11T12:08:56,389 to tell CMake that the project requires at least but has been updated 2025-09-11T12:08:56,389 to work with policies introduced by or earlier. 2025-09-11T12:08:56,391 CMake Deprecation Warning at modules/pybind11/tools/pybind11Tools.cmake:8 (cmake_minimum_required): 2025-09-11T12:08:56,391 Compatibility with CMake < 3.10 will be removed from a future version of 2025-09-11T12:08:56,391 CMake. 2025-09-11T12:08:56,391 Update the VERSION argument value. Or, use the ... syntax 2025-09-11T12:08:56,391 to tell CMake that the project requires at least but has been updated 2025-09-11T12:08:56,392 to work with policies introduced by or earlier. 2025-09-11T12:08:56,392 Call Stack (most recent call first): 2025-09-11T12:08:56,392 modules/pybind11/CMakeLists.txt:33 (include) 2025-09-11T12:08:56,392 CMake Warning (dev) at modules/pybind11/tools/FindPythonLibsNew.cmake:60 (find_package): 2025-09-11T12:08:56,393 Policy CMP0148 is not set: The FindPythonInterp and FindPythonLibs modules 2025-09-11T12:08:56,393 are removed. Run "cmake --help-policy CMP0148" for policy details. Use 2025-09-11T12:08:56,393 the cmake_policy command to set the policy and suppress this warning. 2025-09-11T12:08:56,393 Call Stack (most recent call first): 2025-09-11T12:08:56,393 modules/pybind11/tools/pybind11Tools.cmake:16 (find_package) 2025-09-11T12:08:56,393 modules/pybind11/CMakeLists.txt:33 (include) 2025-09-11T12:08:56,393 This warning is for project developers. Use -Wno-dev to suppress it. 2025-09-11T12:08:57,130 -- Found PythonLibs: /usr/lib/arm-linux-gnueabihf/libpython3.13.so 2025-09-11T12:08:57,140 -- Performing Test HAS_CPP14_FLAG 2025-09-11T12:08:57,650 -- Performing Test HAS_CPP14_FLAG - Success 2025-09-11T12:08:57,672 -- pybind11 v2.3.dev0 2025-09-11T12:08:57,674 -- Compiler flags -Wall -Wno-unused-variable -Wno-unused-value -Wno-unused-but-set-variable -Wno-deprecated-declarations -DBIG_ENDIAN_PLATFORM -DHAVE_STRCASECMP -DINCL_TEMPLATE_SRC -DHAVE_PLACEMENT_NEW -fno-common -fvisibility=hidden -fvisibility-inlines-hidden -std=c++11 -flto 2025-09-11T12:08:57,674 -- ---CMAKE MODULE PATH - 2025-09-11T12:08:57,675 -- ---CMAKE SOURCE DIR - /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1 2025-09-11T12:08:57,675 -- ---CMAKE PROJECT DIR - /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1 2025-09-11T12:08:57,688 -- Performing Test HAS_FLTO 2025-09-11T12:08:58,391 -- Performing Test HAS_FLTO - Success 2025-09-11T12:08:58,391 -- LTO enabled 2025-09-11T12:08:58,392 STATUS,---ALL DONE WITH CMAKE 2025-09-11T12:08:58,393 -- Configuring done (4.0s) 2025-09-11T12:08:58,439 -- Generating done (0.0s) 2025-09-11T12:08:58,440 -- Build files have been written to: /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/build/temp.linux-armv7l-cpython-313 2025-09-11T12:08:58,724 [ 12%] Building CXX object CMakeFiles/align.dir/modules/PairwiseAlign/src/PairwiseAlign.C.o 2025-09-11T12:08:58,724 [ 12%] Building CXX object CMakeFiles/align.dir/modules/PairwiseAlign/src/AlignUtil.C.o 2025-09-11T12:09:00,149 [ 18%] Building CXX object CMakeFiles/align.dir/modules/PairwiseAlign/src/PseudoMultiAlign.C.o 2025-09-11T12:09:04,340 [ 18%] Built target align 2025-09-11T12:09:04,447 [ 25%] Linking CXX static library lib/libalign-all.a 2025-09-11T12:09:04,622 [ 25%] Built target align-all 2025-09-11T12:09:04,741 [ 37%] Building CXX object CMakeFiles/align_test_2.dir/modules/PairwiseAlign/test/testPairwiseAlignZF.C.o 2025-09-11T12:09:04,741 [ 37%] Building CXX object CMakeFiles/align_test_1.dir/modules/PairwiseAlign/test/testPairwiseAlign.C.o 2025-09-11T12:09:07,427 [ 43%] Linking CXX executable bin/align_test_2 2025-09-11T12:09:07,476 [ 50%] Linking CXX executable bin/align_test_1 2025-09-11T12:09:13,432 [ 50%] Built target align_test_2 2025-09-11T12:09:13,568 [ 56%] Building CXX object CMakeFiles/align_test_3.dir/modules/PairwiseAlign/test/testPseudoMultiAlign.C.o 2025-09-11T12:09:15,391 [ 62%] Linking CXX executable bin/align_test_3 2025-09-11T12:09:16,132 [ 62%] Built target align_test_1 2025-09-11T12:09:16,256 [ 68%] Building CXX object CMakeFiles/align_test_4.dir/modules/PairwiseAlign/test/testRefSeqAlign.C.o 2025-09-11T12:09:18,355 [ 75%] Linking CXX executable bin/align_test_4 2025-09-11T12:09:22,595 [ 75%] Built target align_test_3 2025-09-11T12:09:22,723 [ 81%] Building CXX object CMakeFiles/alignlib.dir/modules/cpp-alignlib-wrapper/src/wrapPairwiseAlign.cpp.o 2025-09-11T12:09:25,176 [ 81%] Built target align_test_4 2025-09-11T12:09:25,233 [ 87%] Building CXX object CMakeFiles/alignlib.dir/modules/cpp-alignlib-wrapper/src/wrapPseudoMultiAlign.cpp.o 2025-09-11T12:09:25,811 In file included from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:13, 2025-09-11T12:09:25,811 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:43, 2025-09-11T12:09:25,811 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/cpp-alignlib-wrapper/src/wrapPairwiseAlign.cpp:5: 2025-09-11T12:09:25,811 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h: In function ‘std::string pybind11::detail::error_string()’: 2025-09-11T12:09:25,811 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:442:36: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:25,812 442 | " " + handle(frame->f_code->co_filename).cast() + 2025-09-11T12:09:25,812 | ^~ 2025-09-11T12:09:25,812 In file included from /usr/include/python3.13/Python.h:67, 2025-09-11T12:09:25,812 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/detail/common.h:112, 2025-09-11T12:09:25,812 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pytypes.h:12, 2025-09-11T12:09:25,812 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:13: 2025-09-11T12:09:25,812 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:25,812 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:25,813 | ^~~~~~ 2025-09-11T12:09:25,813 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:442:75: error: expected primary-expression before ‘>’ token 2025-09-11T12:09:25,813 442 | " " + handle(frame->f_code->co_filename).cast() + 2025-09-11T12:09:25,813 | ^ 2025-09-11T12:09:25,813 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:442:77: error: expected primary-expression before ‘)’ token 2025-09-11T12:09:25,813 442 | " " + handle(frame->f_code->co_filename).cast() + 2025-09-11T12:09:25,813 | ^ 2025-09-11T12:09:25,813 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:444:29: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:25,814 444 | handle(frame->f_code->co_name).cast() + "\n"; 2025-09-11T12:09:25,814 | ^~ 2025-09-11T12:09:25,814 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:25,814 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:25,814 | ^~~~~~ 2025-09-11T12:09:25,814 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:444:64: error: expected primary-expression before ‘>’ token 2025-09-11T12:09:25,814 444 | handle(frame->f_code->co_name).cast() + "\n"; 2025-09-11T12:09:25,814 | ^ 2025-09-11T12:09:25,814 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:444:66: error: expected primary-expression before ‘)’ token 2025-09-11T12:09:25,815 444 | handle(frame->f_code->co_name).cast() + "\n"; 2025-09-11T12:09:25,815 | ^ 2025-09-11T12:09:25,815 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:445:26: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:25,815 445 | frame = frame->f_back; 2025-09-11T12:09:25,815 | ^~ 2025-09-11T12:09:25,815 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:25,815 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:25,815 | ^~~~~~ 2025-09-11T12:09:26,016 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h: At global scope: 2025-09-11T12:09:26,016 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:185:10: error: ‘uint16_t’ in namespace ‘std’ does not name a type; did you mean ‘wint_t’? 2025-09-11T12:09:26,016 185 | std::uint16_t nargs; 2025-09-11T12:09:26,017 | ^~~~~~~~ 2025-09-11T12:09:26,017 | wint_t 2025-09-11T12:09:26,033 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h: In constructor ‘pybind11::detail::function_call::function_call(const pybind11::detail::function_record&, pybind11::handle)’: 2025-09-11T12:09:26,033 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:283:20: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:26,033 283 | args.reserve(f.nargs); 2025-09-11T12:09:26,033 | ^~~~~ 2025-09-11T12:09:26,034 | args 2025-09-11T12:09:26,034 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:284:28: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:26,034 284 | args_convert.reserve(f.nargs); 2025-09-11T12:09:26,034 | ^~~~~ 2025-09-11T12:09:26,034 | args 2025-09-11T12:09:26,138 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h: In member function ‘void pybind11::cpp_function::initialize_generic(pybind11::detail::function_record*, const char*, const std::type_info* const*, pybind11::size_t)’: 2025-09-11T12:09:26,139 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:283:14: error: ‘struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:26,139 283 | rec->nargs = (std::uint16_t) args; 2025-09-11T12:09:26,139 | ^~~~~ 2025-09-11T12:09:26,139 | args 2025-09-11T12:09:26,140 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:283:28: error: ‘uint16_t’ is not a member of ‘std’; did you mean ‘wint_t’? 2025-09-11T12:09:26,141 283 | rec->nargs = (std::uint16_t) args; 2025-09-11T12:09:26,141 | ^~~~~~~~ 2025-09-11T12:09:26,141 | wint_t 2025-09-11T12:09:26,167 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h: In static member function ‘static PyObject* pybind11::cpp_function::dispatcher(PyObject*, PyObject*, PyObject*)’: 2025-09-11T12:09:26,167 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:481:40: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:26,168 481 | size_t pos_args = func.nargs; // Number of positional arguments that we need 2025-09-11T12:09:26,168 | ^~~~~ 2025-09-11T12:09:26,168 | args 2025-09-11T12:09:26,176 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:612:53: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:26,176 612 | second_pass_convert.resize(func.nargs, false); 2025-09-11T12:09:26,177 | ^~~~~ 2025-09-11T12:09:26,177 | args 2025-09-11T12:09:26,436 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h: In function ‘pybind11::function pybind11::get_type_overload(const void*, const detail::type_info*, const char*)’: 2025-09-11T12:09:26,436 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1994:49: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-11T12:09:26,437 1994 | PyFrameObject *frame = PyThreadState_Get()->frame; 2025-09-11T12:09:26,437 | ^~~~~ 2025-09-11T12:09:26,437 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1995:41: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,437 1995 | if (frame && (std::string) str(frame->f_code->co_name) == name && 2025-09-11T12:09:26,438 | ^~ 2025-09-11T12:09:26,438 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,438 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:26,438 | ^~~~~~ 2025-09-11T12:09:26,439 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1996:14: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,439 1996 | frame->f_code->co_argcount > 0) { 2025-09-11T12:09:26,439 | ^~ 2025-09-11T12:09:26,439 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,439 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:26,439 | ^~~~~~ 2025-09-11T12:09:26,439 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1999:18: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,440 1999 | frame->f_locals, PyTuple_GET_ITEM(frame->f_code->co_varnames, 0)); 2025-09-11T12:09:26,440 | ^~ 2025-09-11T12:09:26,440 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,440 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:26,441 | ^~~~~~ 2025-09-11T12:09:26,441 In file included from /usr/include/python3.13/Python.h:63: 2025-09-11T12:09:26,441 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1999:52: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,441 1999 | frame->f_locals, PyTuple_GET_ITEM(frame->f_code->co_varnames, 0)); 2025-09-11T12:09:26,442 | ^~ 2025-09-11T12:09:26,442 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-11T12:09:26,442 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-11T12:09:26,442 | ^~~~ 2025-09-11T12:09:26,443 /usr/include/python3.13/cpython/tupleobject.h:27:38: note: in expansion of macro ‘_PyTuple_CAST’ 2025-09-11T12:09:26,443 27 | #define PyTuple_GET_ITEM(op, index) (_PyTuple_CAST(op)->ob_item[(index)]) 2025-09-11T12:09:26,443 | ^~~~~~~~~~~~~ 2025-09-11T12:09:26,444 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1999:30: note: in expansion of macro ‘PyTuple_GET_ITEM’ 2025-09-11T12:09:26,444 1999 | frame->f_locals, PyTuple_GET_ITEM(frame->f_code->co_varnames, 0)); 2025-09-11T12:09:26,445 | ^~~~~~~~~~~~~~~~ 2025-09-11T12:09:26,445 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:26,445 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:26,446 | ^~~~~~ 2025-09-11T12:09:28,177 In file included from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:13, 2025-09-11T12:09:28,177 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:43, 2025-09-11T12:09:28,177 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/cpp-alignlib-wrapper/src/wrapPseudoMultiAlign.cpp:5: 2025-09-11T12:09:28,177 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h: In function ‘std::string pybind11::detail::error_string()’: 2025-09-11T12:09:28,177 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:442:36: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,177 442 | " " + handle(frame->f_code->co_filename).cast() + 2025-09-11T12:09:28,177 | ^~ 2025-09-11T12:09:28,178 In file included from /usr/include/python3.13/Python.h:67, 2025-09-11T12:09:28,178 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/detail/common.h:112, 2025-09-11T12:09:28,178 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pytypes.h:12, 2025-09-11T12:09:28,178 from /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:13: 2025-09-11T12:09:28,179 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,179 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,179 | ^~~~~~ 2025-09-11T12:09:28,179 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:442:75: error: expected primary-expression before ‘>’ token 2025-09-11T12:09:28,179 442 | " " + handle(frame->f_code->co_filename).cast() + 2025-09-11T12:09:28,179 | ^ 2025-09-11T12:09:28,180 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:442:77: error: expected primary-expression before ‘)’ token 2025-09-11T12:09:28,180 442 | " " + handle(frame->f_code->co_filename).cast() + 2025-09-11T12:09:28,180 | ^ 2025-09-11T12:09:28,180 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:444:29: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,180 444 | handle(frame->f_code->co_name).cast() + "\n"; 2025-09-11T12:09:28,180 | ^~ 2025-09-11T12:09:28,180 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,181 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,181 | ^~~~~~ 2025-09-11T12:09:28,181 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:444:64: error: expected primary-expression before ‘>’ token 2025-09-11T12:09:28,181 444 | handle(frame->f_code->co_name).cast() + "\n"; 2025-09-11T12:09:28,181 | ^ 2025-09-11T12:09:28,181 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:444:66: error: expected primary-expression before ‘)’ token 2025-09-11T12:09:28,181 444 | handle(frame->f_code->co_name).cast() + "\n"; 2025-09-11T12:09:28,182 | ^ 2025-09-11T12:09:28,182 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/cast.h:445:26: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,182 445 | frame = frame->f_back; 2025-09-11T12:09:28,182 | ^~ 2025-09-11T12:09:28,182 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,182 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,182 | ^~~~~~ 2025-09-11T12:09:28,381 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h: At global scope: 2025-09-11T12:09:28,381 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:185:10: error: ‘uint16_t’ in namespace ‘std’ does not name a type; did you mean ‘wint_t’? 2025-09-11T12:09:28,381 185 | std::uint16_t nargs; 2025-09-11T12:09:28,382 | ^~~~~~~~ 2025-09-11T12:09:28,382 | wint_t 2025-09-11T12:09:28,398 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h: In constructor ‘pybind11::detail::function_call::function_call(const pybind11::detail::function_record&, pybind11::handle)’: 2025-09-11T12:09:28,398 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:283:20: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:28,399 283 | args.reserve(f.nargs); 2025-09-11T12:09:28,399 | ^~~~~ 2025-09-11T12:09:28,399 | args 2025-09-11T12:09:28,400 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/attr.h:284:28: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:28,400 284 | args_convert.reserve(f.nargs); 2025-09-11T12:09:28,400 | ^~~~~ 2025-09-11T12:09:28,400 | args 2025-09-11T12:09:28,504 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h: In member function ‘void pybind11::cpp_function::initialize_generic(pybind11::detail::function_record*, const char*, const std::type_info* const*, pybind11::size_t)’: 2025-09-11T12:09:28,504 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:283:14: error: ‘struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:28,505 283 | rec->nargs = (std::uint16_t) args; 2025-09-11T12:09:28,505 | ^~~~~ 2025-09-11T12:09:28,505 | args 2025-09-11T12:09:28,506 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:283:28: error: ‘uint16_t’ is not a member of ‘std’; did you mean ‘wint_t’? 2025-09-11T12:09:28,507 283 | rec->nargs = (std::uint16_t) args; 2025-09-11T12:09:28,507 | ^~~~~~~~ 2025-09-11T12:09:28,507 | wint_t 2025-09-11T12:09:28,534 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h: In static member function ‘static PyObject* pybind11::cpp_function::dispatcher(PyObject*, PyObject*, PyObject*)’: 2025-09-11T12:09:28,534 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:481:40: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:28,535 481 | size_t pos_args = func.nargs; // Number of positional arguments that we need 2025-09-11T12:09:28,535 | ^~~~~ 2025-09-11T12:09:28,535 | args 2025-09-11T12:09:28,544 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:612:53: error: ‘const struct pybind11::detail::function_record’ has no member named ‘nargs’; did you mean ‘args’? 2025-09-11T12:09:28,544 612 | second_pass_convert.resize(func.nargs, false); 2025-09-11T12:09:28,544 | ^~~~~ 2025-09-11T12:09:28,544 | args 2025-09-11T12:09:28,793 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h: In function ‘pybind11::function pybind11::get_type_overload(const void*, const detail::type_info*, const char*)’: 2025-09-11T12:09:28,793 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1994:49: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘frame’ 2025-09-11T12:09:28,793 1994 | PyFrameObject *frame = PyThreadState_Get()->frame; 2025-09-11T12:09:28,794 | ^~~~~ 2025-09-11T12:09:28,794 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1995:41: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,794 1995 | if (frame && (std::string) str(frame->f_code->co_name) == name && 2025-09-11T12:09:28,795 | ^~ 2025-09-11T12:09:28,795 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,795 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,795 | ^~~~~~ 2025-09-11T12:09:28,796 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1996:14: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,796 1996 | frame->f_code->co_argcount > 0) { 2025-09-11T12:09:28,796 | ^~ 2025-09-11T12:09:28,796 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,797 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,797 | ^~~~~~ 2025-09-11T12:09:28,797 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1999:18: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,797 1999 | frame->f_locals, PyTuple_GET_ITEM(frame->f_code->co_varnames, 0)); 2025-09-11T12:09:28,798 | ^~ 2025-09-11T12:09:28,798 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,798 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,798 | ^~~~~~ 2025-09-11T12:09:28,799 In file included from /usr/include/python3.13/Python.h:63: 2025-09-11T12:09:28,799 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1999:52: error: invalid use of incomplete type ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,799 1999 | frame->f_locals, PyTuple_GET_ITEM(frame->f_code->co_varnames, 0)); 2025-09-11T12:09:28,799 | ^~ 2025-09-11T12:09:28,800 /usr/include/python3.13/pyport.h:19:38: note: in definition of macro ‘_Py_CAST’ 2025-09-11T12:09:28,800 19 | #define _Py_CAST(type, expr) ((type)(expr)) 2025-09-11T12:09:28,801 | ^~~~ 2025-09-11T12:09:28,801 /usr/include/python3.13/cpython/tupleobject.h:27:38: note: in expansion of macro ‘_PyTuple_CAST’ 2025-09-11T12:09:28,801 27 | #define PyTuple_GET_ITEM(op, index) (_PyTuple_CAST(op)->ob_item[(index)]) 2025-09-11T12:09:28,802 | ^~~~~~~~~~~~~ 2025-09-11T12:09:28,802 /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/modules/pybind11/include/pybind11/pybind11.h:1999:30: note: in expansion of macro ‘PyTuple_GET_ITEM’ 2025-09-11T12:09:28,802 1999 | frame->f_locals, PyTuple_GET_ITEM(frame->f_code->co_varnames, 0)); 2025-09-11T12:09:28,802 | ^~~~~~~~~~~~~~~~ 2025-09-11T12:09:28,803 /usr/include/python3.13/pytypedefs.h:22:16: note: forward declaration of ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-11T12:09:28,803 22 | typedef struct _frame PyFrameObject; 2025-09-11T12:09:28,803 | ^~~~~~ 2025-09-11T12:09:31,015 gmake[2]: *** [CMakeFiles/alignlib.dir/build.make:79: CMakeFiles/alignlib.dir/modules/cpp-alignlib-wrapper/src/wrapPairwiseAlign.cpp.o] Error 1 2025-09-11T12:09:31,015 gmake[2]: *** Waiting for unfinished jobs.... 2025-09-11T12:09:32,723 gmake[2]: *** [CMakeFiles/alignlib.dir/build.make:93: CMakeFiles/alignlib.dir/modules/cpp-alignlib-wrapper/src/wrapPseudoMultiAlign.cpp.o] Error 1 2025-09-11T12:09:32,723 gmake[1]: *** [CMakeFiles/Makefile2:319: CMakeFiles/alignlib.dir/all] Error 2 2025-09-11T12:09:32,724 gmake: *** [Makefile:136: all] Error 2 2025-09-11T12:09:32,736 Traceback (most recent call last): 2025-09-11T12:09:32,745 File "", line 2, in 2025-09-11T12:09:32,745 exec(compile(''' 2025-09-11T12:09:32,746 ~~~~^^^^^^^^^^^^ 2025-09-11T12:09:32,746 # This is -- a caller that pip uses to run setup.py 2025-09-11T12:09:32,746 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T12:09:32,746 ...<32 lines>... 2025-09-11T12:09:32,746 exec(compile(setup_py_code, filename, "exec")) 2025-09-11T12:09:32,746 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T12:09:32,746 ''' % ('/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/setup.py',), "", "exec")) 2025-09-11T12:09:32,746 ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T12:09:32,747 File "", line 35, in 2025-09-11T12:09:32,747 File "/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/setup.py", line 126, in 2025-09-11T12:09:32,747 setup( 2025-09-11T12:09:32,747 ~~~~~^ 2025-09-11T12:09:32,747 name=thisPackage, 2025-09-11T12:09:32,747 ^^^^^^^^^^^^^^^^^ 2025-09-11T12:09:32,747 ...<47 lines>... 2025-09-11T12:09:32,748 zip_safe=False, 2025-09-11T12:09:32,748 ^^^^^^^^^^^^^^^ 2025-09-11T12:09:32,748 ) 2025-09-11T12:09:32,748 ^ 2025-09-11T12:09:32,748 File "/usr/local/lib/python3.13/dist-packages/setuptools/__init__.py", line 115, in setup 2025-09-11T12:09:32,748 return distutils.core.setup(**attrs) 2025-09-11T12:09:32,748 ~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,748 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 186, in setup 2025-09-11T12:09:32,749 return run_commands(dist) 2025-09-11T12:09:32,749 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/core.py", line 202, in run_commands 2025-09-11T12:09:32,749 dist.run_commands() 2025-09-11T12:09:32,749 ~~~~~~~~~~~~~~~~~^^ 2025-09-11T12:09:32,749 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1002, in run_commands 2025-09-11T12:09:32,749 self.run_command(cmd) 2025-09-11T12:09:32,750 ~~~~~~~~~~~~~~~~^^^^^ 2025-09-11T12:09:32,750 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-11T12:09:32,750 super().run_command(command) 2025-09-11T12:09:32,750 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,751 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-11T12:09:32,751 cmd_obj.run() 2025-09-11T12:09:32,751 ~~~~~~~~~~~^^ 2025-09-11T12:09:32,751 File "/usr/local/lib/python3.13/dist-packages/setuptools/command/bdist_wheel.py", line 370, in run 2025-09-11T12:09:32,752 self.run_command("build") 2025-09-11T12:09:32,752 ~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,752 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-11T12:09:32,752 self.distribution.run_command(command) 2025-09-11T12:09:32,753 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,753 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-11T12:09:32,753 super().run_command(command) 2025-09-11T12:09:32,753 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,753 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-11T12:09:32,754 cmd_obj.run() 2025-09-11T12:09:32,754 ~~~~~~~~~~~^^ 2025-09-11T12:09:32,754 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/command/build.py", line 135, in run 2025-09-11T12:09:32,754 self.run_command(cmd_name) 2025-09-11T12:09:32,755 ~~~~~~~~~~~~~~~~^^^^^^^^^^ 2025-09-11T12:09:32,755 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/cmd.py", line 357, in run_command 2025-09-11T12:09:32,755 self.distribution.run_command(command) 2025-09-11T12:09:32,755 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,755 File "/usr/local/lib/python3.13/dist-packages/setuptools/dist.py", line 1102, in run_command 2025-09-11T12:09:32,755 super().run_command(command) 2025-09-11T12:09:32,756 ~~~~~~~~~~~~~~~~~~~^^^^^^^^^ 2025-09-11T12:09:32,756 File "/usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py", line 1021, in run_command 2025-09-11T12:09:32,756 cmd_obj.run() 2025-09-11T12:09:32,756 ~~~~~~~~~~~^^ 2025-09-11T12:09:32,756 File "/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/setup.py", line 39, in run 2025-09-11T12:09:32,756 self.build_extension(ext) 2025-09-11T12:09:32,756 ~~~~~~~~~~~~~~~~~~~~^^^^^ 2025-09-11T12:09:32,757 File "/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/setup.py", line 112, in build_extension 2025-09-11T12:09:32,757 subprocess.check_call(["cmake", "--build", "."] + buildArgs, cwd=self.build_temp) 2025-09-11T12:09:32,757 ~~~~~~~~~~~~~~~~~~~~~^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^ 2025-09-11T12:09:32,757 File "/usr/lib/python3.13/subprocess.py", line 419, in check_call 2025-09-11T12:09:32,757 raise CalledProcessError(retcode, cmd) 2025-09-11T12:09:32,757 subprocess.CalledProcessError: Command '['cmake', '--build', '.', '--config', 'Release', '--', '-j2']' returned non-zero exit status 2. 2025-09-11T12:09:32,881 ERROR: python setup.py bdist_wheel exited with 1 2025-09-11T12:09:32,895 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-11T12:09:32,895 exec(compile('"'"''"'"''"'"' 2025-09-11T12:09:32,895 # This is -- a caller that pip uses to run setup.py 2025-09-11T12:09:32,895 # 2025-09-11T12:09:32,895 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-11T12:09:32,895 # import from `distutils.core` to work with newer packaging standards. 2025-09-11T12:09:32,895 # - It provides a clear error message when setuptools is not installed. 2025-09-11T12:09:32,895 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-11T12:09:32,895 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-11T12:09:32,895 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-11T12:09:32,895 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-11T12:09:32,895 import os, sys, tokenize, traceback 2025-09-11T12:09:32,895 2025-09-11T12:09:32,895 try: 2025-09-11T12:09:32,895 import setuptools 2025-09-11T12:09:32,895 except ImportError: 2025-09-11T12:09:32,895 print( 2025-09-11T12:09:32,895 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-11T12:09:32,895 "the build environment with exception:", 2025-09-11T12:09:32,895 file=sys.stderr, 2025-09-11T12:09:32,895 ) 2025-09-11T12:09:32,895 traceback.print_exc() 2025-09-11T12:09:32,895 sys.exit(1) 2025-09-11T12:09:32,895 2025-09-11T12:09:32,895 __file__ = %r 2025-09-11T12:09:32,895 sys.argv[0] = __file__ 2025-09-11T12:09:32,895 2025-09-11T12:09:32,895 if os.path.exists(__file__): 2025-09-11T12:09:32,895 filename = __file__ 2025-09-11T12:09:32,895 with tokenize.open(__file__) as f: 2025-09-11T12:09:32,895 setup_py_code = f.read() 2025-09-11T12:09:32,895 else: 2025-09-11T12:09:32,895 filename = "" 2025-09-11T12:09:32,895 setup_py_code = "from setuptools import setup; setup()" 2025-09-11T12:09:32,895 2025-09-11T12:09:32,895 exec(compile(setup_py_code, filename, "exec")) 2025-09-11T12:09:32,895 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-u7eqf1df[/] 2025-09-11T12:09:32,895 [bold magenta]cwd[/]: /tmp/pip-wheel-u156ya7d/wwpdb-utils-align_fd14ad8c39004b3e9a78427922a57cb1/ 2025-09-11T12:09:32,895 Building wheel for wwpdb-utils-align (setup.py): finished with status 'error' 2025-09-11T12:09:32,896 ERROR: Failed building wheel for wwpdb-utils-align 2025-09-11T12:09:32,897 Running setup.py clean for wwpdb-utils-align 2025-09-11T12:09:32,898 Running command python setup.py clean 2025-09-11T12:09:33,850 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-11T12:09:33,850 warnings.warn(msg) 2025-09-11T12:09:33,850 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'tests_require' 2025-09-11T12:09:33,850 warnings.warn(msg) 2025-09-11T12:09:34,085 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-11T12:09:34,086 !! 2025-09-11T12:09:34,086 ******************************************************************************** 2025-09-11T12:09:34,086 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-11T12:09:34,086 License :: OSI Approved :: Apache Software License 2025-09-11T12:09:34,086 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-11T12:09:34,087 ******************************************************************************** 2025-09-11T12:09:34,087 !! 2025-09-11T12:09:34,087 self._finalize_license_expression() 2025-09-11T12:09:34,175 running clean 2025-09-11T12:09:34,346 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-11T12:09:34,353 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-11T12:09:34,354 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-11T12:09:34,354 'build/scripts-3.13' does not exist -- can't clean it 2025-09-11T12:09:34,354 removing 'build' 2025-09-11T12:09:34,487 Failed to build wwpdb-utils-align 2025-09-11T12:09:34,488 ERROR: Failed to build one or more wheels 2025-09-11T12:09:34,489 Exception information: 2025-09-11T12:09:34,489 Traceback (most recent call last): 2025-09-11T12:09:34,489 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-11T12:09:34,489 status = _inner_run() 2025-09-11T12:09:34,489 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-11T12:09:34,489 return self.run(options, args) 2025-09-11T12:09:34,489 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-11T12:09:34,489 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-11T12:09:34,489 return func(self, options, args) 2025-09-11T12:09:34,489 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-11T12:09:34,489 raise CommandError("Failed to build one or more wheels") 2025-09-11T12:09:34,489 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-11T12:09:34,494 Removed build tracker: '/tmp/pip-build-tracker-i7wca2hu'