2025-09-07T20:29:02,481 Created temporary directory: /tmp/pip-build-tracker-7wlyi__e 2025-09-07T20:29:02,482 Initialized build tracking at /tmp/pip-build-tracker-7wlyi__e 2025-09-07T20:29:02,482 Created build tracker: /tmp/pip-build-tracker-7wlyi__e 2025-09-07T20:29:02,482 Entered build tracker: /tmp/pip-build-tracker-7wlyi__e 2025-09-07T20:29:02,482 Created temporary directory: /tmp/pip-wheel-yh9pywyf 2025-09-07T20:29:02,486 Created temporary directory: /tmp/pip-ephem-wheel-cache-g1l9dzso 2025-09-07T20:29:02,543 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-07T20:29:02,545 2 location(s) to search for versions of nwalign: 2025-09-07T20:29:02,545 * https://pypi.org/simple/nwalign/ 2025-09-07T20:29:02,545 * https://www.piwheels.org/simple/nwalign/ 2025-09-07T20:29:02,546 Fetching project page and analyzing links: https://pypi.org/simple/nwalign/ 2025-09-07T20:29:02,546 Getting page https://pypi.org/simple/nwalign/ 2025-09-07T20:29:02,547 Found index url https://pypi.org/simple/ 2025-09-07T20:29:02,618 Fetched page https://pypi.org/simple/nwalign/ as application/vnd.pypi.simple.v1+json 2025-09-07T20:29:02,620 Found link https://files.pythonhosted.org/packages/c8/26/9ca7ef2ddd1680a8a56c8b9c04f0b97f6c5a4b1fdd32f4795022317823a8/nwalign-0.1.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.1 2025-09-07T20:29:02,620 Found link https://files.pythonhosted.org/packages/a1/c8/1e9a68782c95d700d695c8b1f3a8934e1072e8ed60491e430896b834f961/nwalign-0.1.1.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.1.1 2025-09-07T20:29:02,620 Found link https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.1.2 2025-09-07T20:29:02,620 Found link https://files.pythonhosted.org/packages/e4/56/1e74d542efb45570042356a81bbad81cc6adc23bb4d5fcf6fd642ec2658b/nwalign-0.1.3.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.1.3 2025-09-07T20:29:02,621 Found link https://files.pythonhosted.org/packages/5d/35/f962c0a6d870ea7ff96ba2465b276054192d36597cee2832972a0736bbb1/nwalign-0.2.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.2 2025-09-07T20:29:02,621 Found link https://files.pythonhosted.org/packages/d1/2e/44355ba45f5a7ae0f0e1dcce833952470a95353669307a9a90affcbb757e/nwalign-0.3.0.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.3.0 2025-09-07T20:29:02,621 Found link https://files.pythonhosted.org/packages/33/f9/96fdb624719c4122d559af37275c9af258ca9b1b93411e16ef0ec4899c3f/nwalign-0.3.1.tar.gz (from https://pypi.org/simple/nwalign/), version: 0.3.1 2025-09-07T20:29:02,621 Fetching project page and analyzing links: https://www.piwheels.org/simple/nwalign/ 2025-09-07T20:29:02,622 Getting page https://www.piwheels.org/simple/nwalign/ 2025-09-07T20:29:02,622 Found index url https://www.piwheels.org/simple/ 2025-09-07T20:29:02,734 Fetched page https://www.piwheels.org/simple/nwalign/ as text/html 2025-09-07T20:29:02,742 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.3.1-cp35-cp35m-linux_armv7l.whl#sha256=0e50aba5718a22fcc30c7d356e6cbca9f721c91d12ab32e7778624dca0940847 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,742 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.3.1-cp35-cp35m-linux_armv6l.whl#sha256=0e50aba5718a22fcc30c7d356e6cbca9f721c91d12ab32e7778624dca0940847 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,742 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.3.1-cp34-cp34m-linux_armv7l.whl#sha256=ae6113c797139e0f35a03f3ff8af1b2ff22e983e866116804cdb2e04fcf66cf2 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,743 Skipping link: No binaries permitted for nwalign: 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(from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,743 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.3.1-cp39-cp39-linux_armv7l.whl#sha256=08fb1551c85e0ecfdd72b0c2f3e03b9a0de96b8531202e5ff0b2b6fa1a560e43 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,743 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.3.0-cp34-cp34m-linux_armv7l.whl#sha256=0f9707e25f4cca1595233e0e171c833a750fad16671b0c75c995f09e74df93fe (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,744 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.3.0-cp34-cp34m-linux_armv6l.whl#sha256=0f9707e25f4cca1595233e0e171c833a750fad16671b0c75c995f09e74df93fe (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,744 Skipping link: No binaries permitted for nwalign: 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(from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,745 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp35-cp35m-linux_armv6l.whl#sha256=51218ba0b2cac7da2369f816741091a1ca6655f6803e0ee1cb1cb78d1433f306 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,745 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp34-cp34m-linux_armv7l.whl#sha256=f87e3ddff26114d9035b65a473f6c962e80a383b56607581149c97e329b3160a (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,745 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp34-cp34m-linux_armv6l.whl#sha256=f87e3ddff26114d9035b65a473f6c962e80a383b56607581149c97e329b3160a (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,745 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp37-cp37m-linux_armv7l.whl#sha256=f8cf67c435c305698af9aaea9170c1a6e255630b6589b6409d2c2b633939c01e (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,745 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp37-cp37m-linux_armv6l.whl#sha256=f8cf67c435c305698af9aaea9170c1a6e255630b6589b6409d2c2b633939c01e (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,746 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp39-cp39-linux_armv6l.whl#sha256=631f718358e76db5bc00a55370722902bb2031198826fbaf7a18f644c9a9e35f (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,746 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.2-cp39-cp39-linux_armv7l.whl#sha256=631f718358e76db5bc00a55370722902bb2031198826fbaf7a18f644c9a9e35f (from 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https://archive1.piwheels.org/simple/nwalign/nwalign-0.1.2-cp34-cp34m-linux_armv7l.whl#sha256=43be14b0f5dfcd08d82b07636ce240399e1daaff6888cef7d9a902d38cfec888 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,747 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1.2-cp34-cp34m-linux_armv6l.whl#sha256=43be14b0f5dfcd08d82b07636ce240399e1daaff6888cef7d9a902d38cfec888 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,747 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1.1-cp34-cp34m-linux_armv7l.whl#sha256=0c8103577d0ab325258569e3f899576b2aa71d77af8cb6f3bee13aaa92370e63 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,747 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1.1-cp34-cp34m-linux_armv6l.whl#sha256=0c8103577d0ab325258569e3f899576b2aa71d77af8cb6f3bee13aaa92370e63 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,747 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1.1-cp35-cp35m-linux_armv6l.whl#sha256=05231f91c31665fc5a1c4039f2e36013fd1b49b5f38108f750af1aaf8858179b (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,747 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1.1-cp35-cp35m-linux_armv7l.whl#sha256=05231f91c31665fc5a1c4039f2e36013fd1b49b5f38108f750af1aaf8858179b (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,748 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1-cp35-cp35m-linux_armv7l.whl#sha256=6d0d1ff20e0a0cf071f3edb683e564e5795b6f14f356bde26acdd74fc0eb9d30 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,748 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1-cp35-cp35m-linux_armv6l.whl#sha256=6d0d1ff20e0a0cf071f3edb683e564e5795b6f14f356bde26acdd74fc0eb9d30 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,748 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1-cp34-cp34m-linux_armv7l.whl#sha256=33f737806954650dec90b3e358b6ef762bb5757b3184c24e8769b0feb3d4f5e1 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,748 Skipping link: No binaries permitted for nwalign: https://archive1.piwheels.org/simple/nwalign/nwalign-0.1-cp34-cp34m-linux_armv6l.whl#sha256=33f737806954650dec90b3e358b6ef762bb5757b3184c24e8769b0feb3d4f5e1 (from https://www.piwheels.org/simple/nwalign/) 2025-09-07T20:29:02,748 Skipping link: not a file: https://www.piwheels.org/simple/nwalign/ 2025-09-07T20:29:02,748 Skipping link: not a file: https://pypi.org/simple/nwalign/ 2025-09-07T20:29:02,773 Given no hashes to check 1 links for project 'nwalign': discarding no candidates 2025-09-07T20:29:02,774 Collecting nwalign==0.1.2 2025-09-07T20:29:02,775 Created temporary directory: /tmp/pip-unpack-t7rx_j2y 2025-09-07T20:29:02,913 Downloading nwalign-0.1.2.tar.gz (42 kB) 2025-09-07T20:29:02,943 Added nwalign==0.1.2 from https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz to build tracker '/tmp/pip-build-tracker-7wlyi__e' 2025-09-07T20:29:02,944 Running setup.py (path:/tmp/pip-wheel-yh9pywyf/nwalign_61a3dd789a1c4139b9f45f903d7bb1fb/setup.py) egg_info for package nwalign 2025-09-07T20:29:02,945 Created temporary directory: /tmp/pip-pip-egg-info-nbu8q5d3 2025-09-07T20:29:02,945 Preparing metadata (setup.py): started 2025-09-07T20:29:02,946 Running command python setup.py egg_info 2025-09-07T20:29:03,877 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-07T20:29:03,877 warnings.warn(msg) 2025-09-07T20:29:04,264 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-07T20:29:04,264 !! 2025-09-07T20:29:04,265 ******************************************************************************** 2025-09-07T20:29:04,265 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-07T20:29:04,265 License :: OSI Approved :: BSD License 2025-09-07T20:29:04,265 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-07T20:29:04,265 ******************************************************************************** 2025-09-07T20:29:04,265 !! 2025-09-07T20:29:04,266 self._finalize_license_expression() 2025-09-07T20:29:04,339 running egg_info 2025-09-07T20:29:04,413 creating /tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info 2025-09-07T20:29:04,413 writing /tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/PKG-INFO 2025-09-07T20:29:04,414 writing dependency_links to /tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/dependency_links.txt 2025-09-07T20:29:04,415 writing entry points to /tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/entry_points.txt 2025-09-07T20:29:04,415 writing requirements to /tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/requires.txt 2025-09-07T20:29:04,415 writing top-level names to /tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/top_level.txt 2025-09-07T20:29:04,416 writing manifest file '/tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/SOURCES.txt' 2025-09-07T20:29:04,634 reading manifest file '/tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/SOURCES.txt' 2025-09-07T20:29:04,637 writing manifest file '/tmp/pip-pip-egg-info-nbu8q5d3/nwalign.egg-info/SOURCES.txt' 2025-09-07T20:29:04,774 Preparing metadata (setup.py): finished with status 'done' 2025-09-07T20:29:04,778 Source in /tmp/pip-wheel-yh9pywyf/nwalign_61a3dd789a1c4139b9f45f903d7bb1fb has version 0.1.2, which satisfies requirement nwalign==0.1.2 from https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz 2025-09-07T20:29:04,779 Removed nwalign==0.1.2 from https://files.pythonhosted.org/packages/b0/88/af6b4592f61add748195ef777dce0892bde1e2520d81b92e80e76b86deb4/nwalign-0.1.2.tar.gz from build tracker '/tmp/pip-build-tracker-7wlyi__e' 2025-09-07T20:29:04,782 Created temporary directory: /tmp/pip-unpack-zzantawp 2025-09-07T20:29:04,782 Created temporary directory: /tmp/pip-unpack-3eyoqw51 2025-09-07T20:29:04,783 Building wheels for collected packages: nwalign 2025-09-07T20:29:04,784 Created temporary directory: /tmp/pip-wheel-b4xm3yig 2025-09-07T20:29:04,784 DEPRECATION: Building 'nwalign' 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 'nwalign'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-07T20:29:04,785 Building wheel for nwalign (setup.py): started 2025-09-07T20:29:04,786 Destination directory: /tmp/pip-wheel-b4xm3yig 2025-09-07T20:29:04,786 Running command python setup.py bdist_wheel 2025-09-07T20:29:05,675 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-07T20:29:05,675 warnings.warn(msg) 2025-09-07T20:29:06,065 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-07T20:29:06,065 !! 2025-09-07T20:29:06,065 ******************************************************************************** 2025-09-07T20:29:06,065 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-07T20:29:06,065 License :: OSI Approved :: BSD License 2025-09-07T20:29:06,066 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-07T20:29:06,066 ******************************************************************************** 2025-09-07T20:29:06,066 !! 2025-09-07T20:29:06,066 self._finalize_license_expression() 2025-09-07T20:29:06,066 running bdist_wheel 2025-09-07T20:29:06,438 running build 2025-09-07T20:29:06,438 running build_ext 2025-09-07T20:29:06,786 building 'nwalign' extension 2025-09-07T20:29:06,787 creating build/temp.linux-armv7l-cpython-313 2025-09-07T20:29:06,788 arm-linux-gnueabihf-gcc -O3 -fPIC -I/usr/local/lib/python3.13/dist-packages/numpy/_core/include -I. -I/usr/include/python3.13 -c nwalign.c -o build/temp.linux-armv7l-cpython-313/nwalign.o 2025-09-07T20:29:07,214 nwalign.c: In function ‘__pyx_pf_7nwalign_read_matrix’: 2025-09-07T20:29:07,217 nwalign.c:1278:15: error: implicit declaration of function ‘PyEval_CallObjectWithKeywords’ [-Wimplicit-function-declaration] 2025-09-07T20:29:07,217 1278 | __pyx_t_6 = PyEval_CallObjectWithKeywords(((PyObject *)((PyObject*)__pyx_ptype_5numpy_ndarray)), ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_6)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,217 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,219 nwalign.c:1278:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,219 1278 | __pyx_t_6 = PyEval_CallObjectWithKeywords(((PyObject *)((PyObject*)__pyx_ptype_5numpy_ndarray)), ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_6)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 99; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,219 | ^ 2025-09-07T20:29:07,229 nwalign.c: In function ‘__pyx_f_7nwalign_global_align’: 2025-09-07T20:29:07,230 nwalign.c:1879:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,230 1879 | __pyx_t_5 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_4), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_5)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 148; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,230 | ^ 2025-09-07T20:29:07,233 nwalign.c:1937:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,233 1937 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_5, ((PyObject *)__pyx_t_2), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 149; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,233 | ^ 2025-09-07T20:29:07,236 nwalign.c:1995:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,236 1995 | __pyx_t_4 = PyEval_CallObjectWithKeywords(__pyx_t_3, ((PyObject *)__pyx_t_5), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_4)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 150; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,236 | ^ 2025-09-07T20:29:07,244 nwalign.c:2233:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,244 2233 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_4, ((PyObject *)__pyx_t_2), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 165; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,244 | ^ 2025-09-07T20:29:07,248 nwalign.c:2291:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,248 2291 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_5, ((PyObject *)__pyx_t_4), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 166; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,248 | ^ 2025-09-07T20:29:07,272 nwalign.c:2507:26: error: implicit declaration of function ‘PyString_FromStringAndSize’; did you mean ‘PyBytes_FromStringAndSize’? [-Wimplicit-function-declaration] 2025-09-07T20:29:07,272 2507 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_ci), ((size_t)1)); 2025-09-07T20:29:07,272 | ^~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,272 | PyBytes_FromStringAndSize 2025-09-07T20:29:07,273 nwalign.c:2507:24: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,274 2507 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_ci), ((size_t)1)); 2025-09-07T20:29:07,274 | ^ 2025-09-07T20:29:07,277 nwalign.c:2572:24: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,277 2572 | __pyx_t_26 = PyString_FromStringAndSize((&__pyx_v_cj), ((size_t)1)); 2025-09-07T20:29:07,277 | ^ 2025-09-07T20:29:07,283 nwalign.c:2904:14: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,283 2904 | __pyx_v_ai = PyString_FromStringAndSize(NULL, __pyx_v_seqlen); 2025-09-07T20:29:07,283 | ^ 2025-09-07T20:29:07,285 nwalign.c:2913:14: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,285 2913 | __pyx_v_aj = PyString_FromStringAndSize(NULL, __pyx_v_seqlen); 2025-09-07T20:29:07,285 | ^ 2025-09-07T20:29:07,307 nwalign.c:2922:21: error: implicit declaration of function ‘PyString_AS_STRING’; did you mean ‘PyBytes_AS_STRING’? [-Wimplicit-function-declaration] 2025-09-07T20:29:07,307 2922 | __pyx_v_align_j = PyString_AS_STRING(__pyx_v_aj); 2025-09-07T20:29:07,307 | ^~~~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,307 | PyBytes_AS_STRING 2025-09-07T20:29:07,309 nwalign.c:2922:19: error: assignment to ‘char *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,309 2922 | __pyx_v_align_j = PyString_AS_STRING(__pyx_v_aj); 2025-09-07T20:29:07,309 | ^ 2025-09-07T20:29:07,311 nwalign.c:2931:19: error: assignment to ‘char *’ from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,311 2931 | __pyx_v_align_i = PyString_AS_STRING(__pyx_v_ai); 2025-09-07T20:29:07,311 | ^ 2025-09-07T20:29:07,342 nwalign.c:3135:3: error: implicit declaration of function ‘_PyString_Resize’ [-Wimplicit-function-declaration] 2025-09-07T20:29:07,342 3135 | _PyString_Resize((&__pyx_v_aj), __pyx_v_align_counter); 2025-09-07T20:29:07,342 | ^~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,352 nwalign.c: In function ‘__pyx_pf_7nwalign_main’: 2025-09-07T20:29:07,355 nwalign.c:3435:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,355 3435 | __pyx_t_2 = PyEval_CallObjectWithKeywords(__pyx_t_1, ((PyObject *)__pyx_empty_tuple), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 253; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,355 | ^ 2025-09-07T20:29:07,358 nwalign.c:3463:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,358 3463 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 256; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,358 | ^ 2025-09-07T20:29:07,362 nwalign.c:3490:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,362 3490 | __pyx_t_2 = PyEval_CallObjectWithKeywords(__pyx_t_3, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 257; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,362 | ^ 2025-09-07T20:29:07,365 nwalign.c:3517:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,365 3517 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 258; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,366 | ^ 2025-09-07T20:29:07,369 nwalign.c:3544:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,369 3544 | __pyx_t_2 = PyEval_CallObjectWithKeywords(__pyx_t_3, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 259; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,369 | ^ 2025-09-07T20:29:07,373 nwalign.c:3578:13: error: assignment to ‘PyObject *’ {aka ‘struct _object *’} from ‘int’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,373 3578 | __pyx_t_3 = PyEval_CallObjectWithKeywords(__pyx_t_2, ((PyObject *)__pyx_t_1), ((PyObject *)__pyx_1)); if (unlikely(!__pyx_t_3)) {__pyx_filename = __pyx_f[0]; __pyx_lineno = 260; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,373 | ^ 2025-09-07T20:29:07,400 nwalign.c: In function ‘__pyx_pf_5numpy_7ndarray___getbuffer__’: 2025-09-07T20:29:07,405 nwalign.c:3940:69: error: ‘NPY_C_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_C_CONTIGUOUS’? 2025-09-07T20:29:07,405 3940 | __pyx_t_1 = (!PyArray_CHKFLAGS(((PyArrayObject *)__pyx_v_self), NPY_C_CONTIGUOUS)); 2025-09-07T20:29:07,405 | ^~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,405 | PyBUF_C_CONTIGUOUS 2025-09-07T20:29:07,406 nwalign.c:3940:69: note: each undeclared identifier is reported only once for each function it appears in 2025-09-07T20:29:07,431 nwalign.c:3984:69: error: ‘NPY_F_CONTIGUOUS’ undeclared (first use in this function); did you mean ‘PyBUF_F_CONTIGUOUS’? 2025-09-07T20:29:07,431 3984 | __pyx_t_1 = (!PyArray_CHKFLAGS(((PyArrayObject *)__pyx_v_self), NPY_F_CONTIGUOUS)); 2025-09-07T20:29:07,431 | ^~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,431 | PyBUF_F_CONTIGUOUS 2025-09-07T20:29:07,437 nwalign.c: In function ‘__pyx_f_5numpy__util_dtypestring’: 2025-09-07T20:29:07,442 nwalign.c:4707:45: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘fields’ 2025-09-07T20:29:07,442 4707 | __pyx_t_2 = PyObject_GetAttr(__pyx_v_descr->fields, __pyx_kp_itervalues); if (unlikely(!__pyx_t_2)) {__pyx_filename = __pyx_f[1]; __pyx_lineno = 287; __pyx_clineno = __LINE__; goto __pyx_L1_error;} 2025-09-07T20:29:07,442 | ^~ 2025-09-07T20:29:07,451 nwalign.c:4919:41: error: ‘PyArray_Descr’ {aka ‘struct _PyArray_Descr’} has no member named ‘elsize’ 2025-09-07T20:29:07,451 4919 | (__pyx_v_offset[0]) += __pyx_v_child->elsize; 2025-09-07T20:29:07,451 | ^~ 2025-09-07T20:29:07,472 nwalign.c: In function ‘__Pyx_ErrRestore’: 2025-09-07T20:29:07,481 nwalign.c:6146:18: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,481 6146 | if ((tstate->exc_type != NULL) & (tstate->exc_type != Py_None)) { 2025-09-07T20:29:07,481 | ^~~~~~~~ 2025-09-07T20:29:07,481 | exc_state 2025-09-07T20:29:07,490 nwalign.c:6146:47: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,490 6146 | if ((tstate->exc_type != NULL) & (tstate->exc_type != Py_None)) { 2025-09-07T20:29:07,490 | ^~~~~~~~ 2025-09-07T20:29:07,490 | exc_state 2025-09-07T20:29:07,498 nwalign.c:6147:28: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,498 6147 | tmp_type = tstate->exc_type; 2025-09-07T20:29:07,498 | ^~~~~~~~ 2025-09-07T20:29:07,498 | exc_state 2025-09-07T20:29:07,504 nwalign.c:6148:27: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,504 6148 | tmp_value = tstate->exc_value; 2025-09-07T20:29:07,504 | ^~ 2025-09-07T20:29:07,510 nwalign.c:6149:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,510 6149 | tmp_tb = tstate->exc_traceback; 2025-09-07T20:29:07,510 | ^~ 2025-09-07T20:29:07,518 nwalign.c:6152:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,518 6152 | tstate->exc_type = 0; 2025-09-07T20:29:07,518 | ^~~~~~~~ 2025-09-07T20:29:07,518 | exc_state 2025-09-07T20:29:07,524 nwalign.c:6153:15: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,524 6153 | tstate->exc_value = 0; 2025-09-07T20:29:07,524 | ^~ 2025-09-07T20:29:07,530 nwalign.c:6154:15: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,530 6154 | tstate->exc_traceback = 0; 2025-09-07T20:29:07,530 | ^~ 2025-09-07T20:29:07,536 nwalign.c:6161:22: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-07T20:29:07,536 6161 | tmp_type = tstate->curexc_type; 2025-09-07T20:29:07,536 | ^~ 2025-09-07T20:29:07,541 nwalign.c:6162:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-07T20:29:07,542 6162 | tmp_value = tstate->curexc_value; 2025-09-07T20:29:07,542 | ^~ 2025-09-07T20:29:07,547 nwalign.c:6163:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-07T20:29:07,547 6163 | tmp_tb = tstate->curexc_traceback; 2025-09-07T20:29:07,547 | ^~ 2025-09-07T20:29:07,553 nwalign.c:6164:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-07T20:29:07,553 6164 | tstate->curexc_type = type; 2025-09-07T20:29:07,553 | ^~ 2025-09-07T20:29:07,559 nwalign.c:6165:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-07T20:29:07,559 6165 | tstate->curexc_value = value; 2025-09-07T20:29:07,559 | ^~ 2025-09-07T20:29:07,565 nwalign.c:6166:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-07T20:29:07,565 6166 | tstate->curexc_traceback = tb; 2025-09-07T20:29:07,565 | ^~ 2025-09-07T20:29:07,565 nwalign.c: In function ‘__Pyx_ErrFetch’: 2025-09-07T20:29:07,571 nwalign.c:6174:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-07T20:29:07,571 6174 | *type = tstate->curexc_type; 2025-09-07T20:29:07,571 | ^~ 2025-09-07T20:29:07,577 nwalign.c:6175:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-07T20:29:07,577 6175 | *value = tstate->curexc_value; 2025-09-07T20:29:07,577 | ^~ 2025-09-07T20:29:07,583 nwalign.c:6176:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-07T20:29:07,583 6176 | *tb = tstate->curexc_traceback; 2025-09-07T20:29:07,583 | ^~ 2025-09-07T20:29:07,588 nwalign.c:6178:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-07T20:29:07,588 6178 | tstate->curexc_type = 0; 2025-09-07T20:29:07,589 | ^~ 2025-09-07T20:29:07,594 nwalign.c:6179:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-07T20:29:07,594 6179 | tstate->curexc_value = 0; 2025-09-07T20:29:07,594 | ^~ 2025-09-07T20:29:07,600 nwalign.c:6180:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-07T20:29:07,600 6180 | tstate->curexc_traceback = 0; 2025-09-07T20:29:07,600 | ^~ 2025-09-07T20:29:07,618 nwalign.c: In function ‘__Pyx_ParseOptionalKeywords’: 2025-09-07T20:29:07,627 nwalign.c:6255:25: error: implicit declaration of function ‘PyUnicode_GET_SIZE’; did you mean ‘PyDict_GET_SIZE’? [-Wimplicit-function-declaration] 2025-09-07T20:29:07,627 6255 | if (PyUnicode_GET_SIZE(**name) == PyUnicode_GET_SIZE(key) && 2025-09-07T20:29:07,627 | ^~~~~~~~~~~~~~~~~~ 2025-09-07T20:29:07,627 | PyDict_GET_SIZE 2025-09-07T20:29:07,628 nwalign.c: In function ‘__Pyx_GetException’: 2025-09-07T20:29:07,634 nwalign.c:6309:19: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-07T20:29:07,634 6309 | *type = tstate->curexc_type; 2025-09-07T20:29:07,634 | ^~ 2025-09-07T20:29:07,640 nwalign.c:6310:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-07T20:29:07,640 6310 | *value = tstate->curexc_value; 2025-09-07T20:29:07,640 | ^~ 2025-09-07T20:29:07,646 nwalign.c:6311:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-07T20:29:07,646 6311 | *tb = tstate->curexc_traceback; 2025-09-07T20:29:07,646 | ^~ 2025-09-07T20:29:07,652 nwalign.c:6312:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_type’ 2025-09-07T20:29:07,652 6312 | tstate->curexc_type = 0; 2025-09-07T20:29:07,652 | ^~ 2025-09-07T20:29:07,659 nwalign.c:6313:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_value’ 2025-09-07T20:29:07,659 6313 | tstate->curexc_value = 0; 2025-09-07T20:29:07,659 | ^~ 2025-09-07T20:29:07,665 nwalign.c:6314:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘curexc_traceback’ 2025-09-07T20:29:07,665 6314 | tstate->curexc_traceback = 0; 2025-09-07T20:29:07,665 | ^~ 2025-09-07T20:29:07,674 nwalign.c:6321:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,674 6321 | tmp_type = tstate->exc_type; 2025-09-07T20:29:07,674 | ^~~~~~~~ 2025-09-07T20:29:07,674 | exc_state 2025-09-07T20:29:07,680 nwalign.c:6322:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,680 6322 | tmp_value = tstate->exc_value; 2025-09-07T20:29:07,680 | ^~ 2025-09-07T20:29:07,686 nwalign.c:6323:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,686 6323 | tmp_tb = tstate->exc_traceback; 2025-09-07T20:29:07,686 | ^~ 2025-09-07T20:29:07,695 nwalign.c:6324:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,695 6324 | tstate->exc_type = *type; 2025-09-07T20:29:07,695 | ^~~~~~~~ 2025-09-07T20:29:07,695 | exc_state 2025-09-07T20:29:07,702 nwalign.c:6325:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,702 6325 | tstate->exc_value = *value; 2025-09-07T20:29:07,702 | ^~ 2025-09-07T20:29:07,708 nwalign.c:6326:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,708 6326 | tstate->exc_traceback = *tb; 2025-09-07T20:29:07,708 | ^~ 2025-09-07T20:29:07,708 nwalign.c: In function ‘__Pyx_ExceptionSave’: 2025-09-07T20:29:07,717 nwalign.c:6343:21: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,717 6343 | *type = tstate->exc_type; 2025-09-07T20:29:07,717 | ^~~~~~~~ 2025-09-07T20:29:07,717 | exc_state 2025-09-07T20:29:07,723 nwalign.c:6344:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,723 6344 | *value = tstate->exc_value; 2025-09-07T20:29:07,723 | ^~ 2025-09-07T20:29:07,729 nwalign.c:6345:17: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,729 6345 | *tb = tstate->exc_traceback; 2025-09-07T20:29:07,729 | ^~ 2025-09-07T20:29:07,729 nwalign.c: In function ‘__Pyx_ExceptionReset’: 2025-09-07T20:29:07,738 nwalign.c:6354:24: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,738 6354 | tmp_type = tstate->exc_type; 2025-09-07T20:29:07,738 | ^~~~~~~~ 2025-09-07T20:29:07,739 | exc_state 2025-09-07T20:29:07,745 nwalign.c:6355:23: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,745 6355 | tmp_value = tstate->exc_value; 2025-09-07T20:29:07,745 | ^~ 2025-09-07T20:29:07,751 nwalign.c:6356:20: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,752 6356 | tmp_tb = tstate->exc_traceback; 2025-09-07T20:29:07,752 | ^~ 2025-09-07T20:29:07,760 nwalign.c:6357:13: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_type’; did you mean ‘exc_state’? 2025-09-07T20:29:07,760 6357 | tstate->exc_type = type; 2025-09-07T20:29:07,760 | ^~~~~~~~ 2025-09-07T20:29:07,760 | exc_state 2025-09-07T20:29:07,766 nwalign.c:6358:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_value’ 2025-09-07T20:29:07,766 6358 | tstate->exc_value = value; 2025-09-07T20:29:07,766 | ^~ 2025-09-07T20:29:07,772 nwalign.c:6359:11: error: ‘PyThreadState’ {aka ‘struct _ts’} has no member named ‘exc_traceback’ 2025-09-07T20:29:07,772 6359 | tstate->exc_traceback = tb; 2025-09-07T20:29:07,772 | ^~ 2025-09-07T20:29:07,782 nwalign.c: In function ‘__Pyx_AddTraceback’: 2025-09-07T20:29:07,789 nwalign.c:7042:5: warning: ‘PyCode_New’ is deprecated [-Wdeprecated-declarations] 2025-09-07T20:29:07,789 7042 | py_code = PyCode_New( 2025-09-07T20:29:07,789 | ^~~~~~~ 2025-09-07T20:29:07,790 In file included from /usr/include/python3.13/Python.h:101, 2025-09-07T20:29:07,790 from nwalign.c:4: 2025-09-07T20:29:07,790 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-07T20:29:07,790 213 | PyCode_New( 2025-09-07T20:29:07,790 | ^~~~~~~~~~ 2025-09-07T20:29:07,796 nwalign.c:7058:9: error: passing argument 14 of ‘PyCode_New’ makes pointer from integer without a cast [-Wint-conversion] 2025-09-07T20:29:07,797 7058 | __pyx_lineno, /*int firstlineno,*/ 2025-09-07T20:29:07,797 | ^~~~~~~~~~~~ 2025-09-07T20:29:07,797 | | 2025-09-07T20:29:07,797 | int 2025-09-07T20:29:07,797 /usr/include/python3.13/cpython/code.h:216:45: note: expected ‘PyObject *’ {aka ‘struct _object *’} but argument is of type ‘int’ 2025-09-07T20:29:07,797 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-07T20:29:07,797 | ~~~~~~~~~~^ 2025-09-07T20:29:07,803 nwalign.c:7059:9: error: passing argument 15 of ‘PyCode_New’ makes integer from pointer without a cast [-Wint-conversion] 2025-09-07T20:29:07,803 7059 | empty_string /*PyObject *lnotab*/ 2025-09-07T20:29:07,803 | ^~~~~~~~~~~~ 2025-09-07T20:29:07,803 | | 2025-09-07T20:29:07,804 | PyObject * {aka struct _object *} 2025-09-07T20:29:07,804 /usr/include/python3.13/cpython/code.h:216:52: note: expected ‘int’ but argument is of type ‘PyObject *’ {aka ‘struct _object *’} 2025-09-07T20:29:07,804 216 | PyObject *l, PyObject *m, PyObject *n, int o, PyObject *p, 2025-09-07T20:29:07,804 | ~~~~^ 2025-09-07T20:29:07,810 nwalign.c:7042:15: error: too few arguments to function ‘PyCode_New’ 2025-09-07T20:29:07,811 7042 | py_code = PyCode_New( 2025-09-07T20:29:07,811 | ^~~~~~~~~~ 2025-09-07T20:29:07,811 /usr/include/python3.13/cpython/code.h:213:1: note: declared here 2025-09-07T20:29:07,811 213 | PyCode_New( 2025-09-07T20:29:07,811 | ^~~~~~~~~~ 2025-09-07T20:29:07,817 nwalign.c:7069:13: error: invalid use of incomplete typedef ‘PyFrameObject’ {aka ‘struct _frame’} 2025-09-07T20:29:07,817 7069 | py_frame->f_lineno = __pyx_lineno; 2025-09-07T20:29:07,818 | ^~ 2025-09-07T20:29:07,880 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-07T20:29:08,053 ERROR: python setup.py bdist_wheel exited with 1 2025-09-07T20:29:08,065 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-07T20:29:08,065 exec(compile('"'"''"'"''"'"' 2025-09-07T20:29:08,065 # This is -- a caller that pip uses to run setup.py 2025-09-07T20:29:08,065 # 2025-09-07T20:29:08,065 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-07T20:29:08,065 # import from `distutils.core` to work with newer packaging standards. 2025-09-07T20:29:08,065 # - It provides a clear error message when setuptools is not installed. 2025-09-07T20:29:08,065 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-07T20:29:08,065 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-07T20:29:08,065 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-07T20:29:08,065 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-07T20:29:08,065 import os, sys, tokenize, traceback 2025-09-07T20:29:08,065 2025-09-07T20:29:08,065 try: 2025-09-07T20:29:08,065 import setuptools 2025-09-07T20:29:08,065 except ImportError: 2025-09-07T20:29:08,065 print( 2025-09-07T20:29:08,065 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-07T20:29:08,065 "the build environment with exception:", 2025-09-07T20:29:08,065 file=sys.stderr, 2025-09-07T20:29:08,065 ) 2025-09-07T20:29:08,065 traceback.print_exc() 2025-09-07T20:29:08,065 sys.exit(1) 2025-09-07T20:29:08,065 2025-09-07T20:29:08,065 __file__ = %r 2025-09-07T20:29:08,065 sys.argv[0] = __file__ 2025-09-07T20:29:08,065 2025-09-07T20:29:08,065 if os.path.exists(__file__): 2025-09-07T20:29:08,065 filename = __file__ 2025-09-07T20:29:08,065 with tokenize.open(__file__) as f: 2025-09-07T20:29:08,065 setup_py_code = f.read() 2025-09-07T20:29:08,065 else: 2025-09-07T20:29:08,065 filename = "" 2025-09-07T20:29:08,065 setup_py_code = "from setuptools import setup; setup()" 2025-09-07T20:29:08,065 2025-09-07T20:29:08,065 exec(compile(setup_py_code, filename, "exec")) 2025-09-07T20:29:08,065 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-yh9pywyf/nwalign_61a3dd789a1c4139b9f45f903d7bb1fb/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-b4xm3yig[/] 2025-09-07T20:29:08,066 [bold magenta]cwd[/]: /tmp/pip-wheel-yh9pywyf/nwalign_61a3dd789a1c4139b9f45f903d7bb1fb/ 2025-09-07T20:29:08,066 Building wheel for nwalign (setup.py): finished with status 'error' 2025-09-07T20:29:08,067 ERROR: Failed building wheel for nwalign 2025-09-07T20:29:08,068 Running setup.py clean for nwalign 2025-09-07T20:29:08,068 Running command python setup.py clean 2025-09-07T20:29:08,986 /usr/local/lib/python3.13/dist-packages/setuptools/_distutils/dist.py:289: UserWarning: Unknown distribution option: 'test_suite' 2025-09-07T20:29:08,987 warnings.warn(msg) 2025-09-07T20:29:09,389 /usr/local/lib/python3.13/dist-packages/setuptools/dist.py:759: SetuptoolsDeprecationWarning: License classifiers are deprecated. 2025-09-07T20:29:09,390 !! 2025-09-07T20:29:09,390 ******************************************************************************** 2025-09-07T20:29:09,390 Please consider removing the following classifiers in favor of a SPDX license expression: 2025-09-07T20:29:09,390 License :: OSI Approved :: BSD License 2025-09-07T20:29:09,390 See https://packaging.python.org/en/latest/guides/writing-pyproject-toml/#license for details. 2025-09-07T20:29:09,390 ******************************************************************************** 2025-09-07T20:29:09,391 !! 2025-09-07T20:29:09,391 self._finalize_license_expression() 2025-09-07T20:29:09,464 running clean 2025-09-07T20:29:09,609 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-07T20:29:09,610 'build/lib.linux-armv7l-cpython-313' does not exist -- can't clean it 2025-09-07T20:29:09,610 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-07T20:29:09,610 'build/scripts-3.13' does not exist -- can't clean it 2025-09-07T20:29:09,610 removing 'build' 2025-09-07T20:29:09,746 Failed to build nwalign 2025-09-07T20:29:09,747 ERROR: Failed to build one or more wheels 2025-09-07T20:29:09,748 Exception information: 2025-09-07T20:29:09,748 Traceback (most recent call last): 2025-09-07T20:29:09,748 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-07T20:29:09,748 status = _inner_run() 2025-09-07T20:29:09,748 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-07T20:29:09,748 return self.run(options, args) 2025-09-07T20:29:09,748 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-07T20:29:09,748 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-07T20:29:09,748 return func(self, options, args) 2025-09-07T20:29:09,748 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-07T20:29:09,748 raise CommandError("Failed to build one or more wheels") 2025-09-07T20:29:09,748 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-07T20:29:09,752 Removed build tracker: '/tmp/pip-build-tracker-7wlyi__e'