2024-04-03T14:31:28,447 Created temporary directory: /tmp/pip-build-tracker-7l0vr9yx 2024-04-03T14:31:28,449 Initialized build tracking at /tmp/pip-build-tracker-7l0vr9yx 2024-04-03T14:31:28,449 Created build tracker: /tmp/pip-build-tracker-7l0vr9yx 2024-04-03T14:31:28,449 Entered build tracker: /tmp/pip-build-tracker-7l0vr9yx 2024-04-03T14:31:28,450 Created temporary directory: /tmp/pip-wheel-bhq9_uix 2024-04-03T14:31:28,454 Created temporary directory: /tmp/pip-ephem-wheel-cache-9k1f7t2h 2024-04-03T14:31:28,478 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-04-03T14:31:28,481 2 location(s) to search for versions of dinopy: 2024-04-03T14:31:28,481 * https://pypi.org/simple/dinopy/ 2024-04-03T14:31:28,481 * https://www.piwheels.org/simple/dinopy/ 2024-04-03T14:31:28,482 Fetching project page and analyzing links: https://pypi.org/simple/dinopy/ 2024-04-03T14:31:28,483 Getting page https://pypi.org/simple/dinopy/ 2024-04-03T14:31:28,484 Found index url https://pypi.org/simple/ 2024-04-03T14:31:28,535 Fetched page https://pypi.org/simple/dinopy/ as application/vnd.pypi.simple.v1+json 2024-04-03T14:31:28,538 Found link https://files.pythonhosted.org/packages/f2/68/3a8455f98893040edd9da0d033724fe16d09283c0b84bdbf8057c2221666/dinopy-1.1.1.tar.gz (from https://pypi.org/simple/dinopy/), version: 1.1.1 2024-04-03T14:31:28,538 Found link https://files.pythonhosted.org/packages/24/f5/1afcb87668d5d7b93b2365e1fa65a1768b243b742e7d7223acaf2a1d2403/dinopy-1.2.0.tar.gz (from https://pypi.org/simple/dinopy/), version: 1.2.0 2024-04-03T14:31:28,538 Found link https://files.pythonhosted.org/packages/f8/7a/b8ffa56c2f3e68ce7326269596cde7bcfd928d80d4807f683a6f6362d00a/dinopy-1.2.1.tar.gz (from https://pypi.org/simple/dinopy/), version: 1.2.1 2024-04-03T14:31:28,539 Found link https://files.pythonhosted.org/packages/4b/f8/85977ab9cf64cbc4ba0b76287f81b9596951ef60b3c3e6aa2b306501b6ec/dinopy-2.0.0.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.0.0 2024-04-03T14:31:28,539 Found link https://files.pythonhosted.org/packages/b8/b8/65b5a2831143fc004fd57fcd8fbde73f0a9af1963171c074c0461830fd69/dinopy-2.0.1.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.0.1 2024-04-03T14:31:28,539 Found link https://files.pythonhosted.org/packages/09/8a/7a2945c6e6b780bc259724d184076d2cdde35f8175a18e32af940b2d5887/dinopy-2.0.2.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.0.2 2024-04-03T14:31:28,539 Found link https://files.pythonhosted.org/packages/a6/19/a91e3d4a5d9312a3dfaba0ec9187db90468eb86ae1f22262391f93d19bf7/dinopy-2.0.3.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.0.3 2024-04-03T14:31:28,540 Found link https://files.pythonhosted.org/packages/9b/c4/5673afac336e4030b41c543fd7302dc6de5d048a87391b22e6d910c16482/dinopy-2.1.0.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.1.0 2024-04-03T14:31:28,540 Found link https://files.pythonhosted.org/packages/f0/ae/9192e91468e8e8a27172bcf242d01006732ec28de1616970e7f0fe05c28e/dinopy-2.2.0.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.2.0 2024-04-03T14:31:28,540 Found link https://files.pythonhosted.org/packages/2f/6c/eb26221f3b28e05ceede15e02a31c6fb3762940d46ac5cd3b1f56951b59a/dinopy-2.2.1.tar.gz (from https://pypi.org/simple/dinopy/), version: 2.2.1 2024-04-03T14:31:28,540 Found link https://files.pythonhosted.org/packages/e3/fd/06182a3e21bd400c172ef973512a070968c039a0f18f41c54c933fcafef9/dinopy-3.0.0.tar.gz (from https://pypi.org/simple/dinopy/), version: 3.0.0 2024-04-03T14:31:28,541 Fetching project page and analyzing links: https://www.piwheels.org/simple/dinopy/ 2024-04-03T14:31:28,541 Getting page https://www.piwheels.org/simple/dinopy/ 2024-04-03T14:31:28,542 Found index url https://www.piwheels.org/simple/ 2024-04-03T14:31:28,755 Fetched page https://www.piwheels.org/simple/dinopy/ as text/html 2024-04-03T14:31:28,771 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-3.0.0-cp311-cp311-linux_armv6l.whl#sha256=3155541d36a516547277e580862ec126d9c0ecc706ff522596f3381480c3c6c9 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,771 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-3.0.0-cp311-cp311-linux_armv7l.whl#sha256=3155541d36a516547277e580862ec126d9c0ecc706ff522596f3381480c3c6c9 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,772 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-3.0.0-cp37-cp37m-linux_armv6l.whl#sha256=fca021b461e1b5fb62e1bef8320d0a3683e123ee7de6bb22e8dae37452dbeb60 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,772 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-3.0.0-cp37-cp37m-linux_armv7l.whl#sha256=fca021b461e1b5fb62e1bef8320d0a3683e123ee7de6bb22e8dae37452dbeb60 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,772 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.1-cp35-cp35m-linux_armv6l.whl#sha256=454918b847930443eab659b762945e12349d8f801f64a953556f093afc2d3624 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,772 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.1-cp35-cp35m-linux_armv7l.whl#sha256=454918b847930443eab659b762945e12349d8f801f64a953556f093afc2d3624 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,773 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.1-cp37-cp37m-linux_armv6l.whl#sha256=62fff8ab8f9ce970aa89b56ebaac068fb27b6d7de9a96368a41dfa5ba3e0ceda (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,773 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.1-cp37-cp37m-linux_armv7l.whl#sha256=62fff8ab8f9ce970aa89b56ebaac068fb27b6d7de9a96368a41dfa5ba3e0ceda (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,773 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.1-cp39-cp39-linux_armv6l.whl#sha256=c3f7cc441c7af80592fb471f513977f90d415180b7d70b4008fbf053ea672061 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,773 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.1-cp39-cp39-linux_armv7l.whl#sha256=c3f7cc441c7af80592fb471f513977f90d415180b7d70b4008fbf053ea672061 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,773 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.0-cp35-cp35m-linux_armv7l.whl#sha256=718a8ac3544e237e77f46c07bb2f1b83879a8b82985663b00c3ed01b33929926 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,774 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.0-cp35-cp35m-linux_armv6l.whl#sha256=718a8ac3544e237e77f46c07bb2f1b83879a8b82985663b00c3ed01b33929926 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,774 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.0-cp37-cp37m-linux_armv6l.whl#sha256=70e29115ef30fde1a145f6513bf19d29286cde8dc6cb96569e226b07d0896a9f (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,774 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.0-cp37-cp37m-linux_armv7l.whl#sha256=70e29115ef30fde1a145f6513bf19d29286cde8dc6cb96569e226b07d0896a9f (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,774 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.0-cp39-cp39-linux_armv6l.whl#sha256=2edae690d15878fd3ff6610ee3847d2e2676a56b3d0d2b3b12ca829f0d31bfe5 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,774 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.2.0-cp39-cp39-linux_armv7l.whl#sha256=2edae690d15878fd3ff6610ee3847d2e2676a56b3d0d2b3b12ca829f0d31bfe5 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,775 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp34-cp34m-linux_armv7l.whl#sha256=abb4a6d1de109838f5f3982a5dda9a556b0494c0635b122923375b0c13137941 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,775 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp34-cp34m-linux_armv6l.whl#sha256=abb4a6d1de109838f5f3982a5dda9a556b0494c0635b122923375b0c13137941 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,775 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp35-cp35m-linux_armv6l.whl#sha256=da902c83e3e97afb1469af29eadfd96d24e7263559a11126460c597c1cdc74b0 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,775 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp35-cp35m-linux_armv7l.whl#sha256=da902c83e3e97afb1469af29eadfd96d24e7263559a11126460c597c1cdc74b0 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,775 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp37-cp37m-linux_armv7l.whl#sha256=0f92e4d09369ea4e40c5299242150725f75c157413e26702bbd5f2bfbdb095db (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,775 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp37-cp37m-linux_armv6l.whl#sha256=0f92e4d09369ea4e40c5299242150725f75c157413e26702bbd5f2bfbdb095db (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,776 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp39-cp39-linux_armv6l.whl#sha256=96a84dbe6290f38db027409d8b4d2c8bd1629f6f05bd7090e673e152599374fa (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,776 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.1.0-cp39-cp39-linux_armv7l.whl#sha256=96a84dbe6290f38db027409d8b4d2c8bd1629f6f05bd7090e673e152599374fa (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,776 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.3-cp34-cp34m-linux_armv6l.whl#sha256=fae15a94f9160247762dd9b850ae41cc0fa0c30e46af40d9c75565f94c6e96db (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,776 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.3-cp34-cp34m-linux_armv7l.whl#sha256=fae15a94f9160247762dd9b850ae41cc0fa0c30e46af40d9c75565f94c6e96db (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,776 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.3-cp35-cp35m-linux_armv6l.whl#sha256=f2fd11ca1038f294091efa9967712c3ecc168a11365d3ec555050a113c4ecaee (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,777 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.3-cp35-cp35m-linux_armv7l.whl#sha256=f2fd11ca1038f294091efa9967712c3ecc168a11365d3ec555050a113c4ecaee (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,777 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.3-cp37-cp37m-linux_armv7l.whl#sha256=8fabc61b0a530825cb2788dbb1e550a45e89aef2046a45d54fd83ef5c598e0b3 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,777 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.3-cp37-cp37m-linux_armv6l.whl#sha256=8fabc61b0a530825cb2788dbb1e550a45e89aef2046a45d54fd83ef5c598e0b3 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,777 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.2-cp34-cp34m-linux_armv7l.whl#sha256=b95c573638f0211395dd980693380fd1448ded7dbdd3a5c9f9a4f18728156400 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,777 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.2-cp34-cp34m-linux_armv6l.whl#sha256=b95c573638f0211395dd980693380fd1448ded7dbdd3a5c9f9a4f18728156400 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,778 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.2-cp35-cp35m-linux_armv6l.whl#sha256=30d6340198b83fd7275374e709a65b5762c2a712cbb73e1b0bb82eb6949e593b (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,778 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.2-cp35-cp35m-linux_armv7l.whl#sha256=30d6340198b83fd7275374e709a65b5762c2a712cbb73e1b0bb82eb6949e593b (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,778 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-2.0.2-cp37-cp37m-linux_armv6l.whl#sha256=aea1c51d33808c182ae8a1e2d1ae88c5ee834cfb9265d0a712bdd9bc02c6472d (from 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https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,782 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-1.1.1-cp34-cp34m-linux_armv6l.whl#sha256=22fe9172190e4cedaa3c33cbfab0500a1a391f23c367a1ea9b23824473a5d6e9 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,782 Skipping link: No binaries permitted for dinopy: https://www.piwheels.org/simple/dinopy/dinopy-1.1.1-cp34-cp34m-linux_armv7l.whl#sha256=22fe9172190e4cedaa3c33cbfab0500a1a391f23c367a1ea9b23824473a5d6e9 (from https://www.piwheels.org/simple/dinopy/) 2024-04-03T14:31:28,783 Skipping link: not a file: https://www.piwheels.org/simple/dinopy/ 2024-04-03T14:31:28,783 Skipping link: not a file: https://pypi.org/simple/dinopy/ 2024-04-03T14:31:28,802 Given no hashes to check 1 links for project 'dinopy': discarding no candidates 2024-04-03T14:31:28,819 Collecting dinopy==3.0.0 2024-04-03T14:31:28,821 Created temporary directory: /tmp/pip-unpack-t35g1k12 2024-04-03T14:31:28,867 Downloading dinopy-3.0.0.tar.gz (744 kB) 2024-04-03T14:31:29,268 Added dinopy==3.0.0 from https://files.pythonhosted.org/packages/e3/fd/06182a3e21bd400c172ef973512a070968c039a0f18f41c54c933fcafef9/dinopy-3.0.0.tar.gz to build tracker '/tmp/pip-build-tracker-7l0vr9yx' 2024-04-03T14:31:29,275 Created temporary directory: /tmp/pip-build-env-gqfe3kwh 2024-04-03T14:31:29,284 Installing build dependencies: started 2024-04-03T14:31:29,285 Running command pip subprocess to install build dependencies 2024-04-03T14:31:30,440 Using pip 24.0 from /usr/local/lib/python3.9/dist-packages/pip (python 3.9) 2024-04-03T14:31:30,969 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-04-03T14:31:32,767 Collecting setuptools>=48.0 2024-04-03T14:31:32,782 Using cached https://www.piwheels.org/simple/setuptools/setuptools-69.2.0-py3-none-any.whl (821 kB) 2024-04-03T14:31:33,131 Collecting setuptools_scm 2024-04-03T14:31:33,163 Using cached https://www.piwheels.org/simple/setuptools-scm/setuptools_scm-8.0.4-py3-none-any.whl (42 kB) 2024-04-03T14:31:33,490 Collecting wheel 2024-04-03T14:31:33,543 Using cached https://www.piwheels.org/simple/wheel/wheel-0.43.0-py3-none-any.whl (65 kB) 2024-04-03T14:31:35,342 Collecting Cython>=3.0.0 2024-04-03T14:31:35,358 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.10-cp39-cp39-linux_armv7l.whl (10.7 MB) 2024-04-03T14:31:37,341 Collecting numpy>=1.17 2024-04-03T14:31:37,358 Using cached https://www.piwheels.org/simple/numpy/numpy-1.26.4-cp39-cp39-linux_armv7l.whl (5.6 MB) 2024-04-03T14:31:38,338 Collecting packaging>=20 (from setuptools_scm) 2024-04-03T14:31:38,353 Using cached https://www.piwheels.org/simple/packaging/packaging-24.0-py3-none-any.whl (53 kB) 2024-04-03T14:31:38,635 Collecting typing-extensions (from setuptools_scm) 2024-04-03T14:31:38,659 Using cached https://www.piwheels.org/simple/typing-extensions/typing_extensions-4.10.0-py3-none-any.whl (33 kB) 2024-04-03T14:31:38,977 Collecting tomli>=1 (from setuptools_scm) 2024-04-03T14:31:40,080 Using cached https://www.piwheels.org/simple/tomli/tomli-2.0.1-py3-none-any.whl (12 kB) 2024-04-03T14:31:41,892 Installing collected packages: wheel, typing-extensions, tomli, setuptools, packaging, numpy, Cython, setuptools_scm 2024-04-03T14:31:42,115 Creating /tmp/pip-build-env-gqfe3kwh/overlay/bin 2024-04-03T14:31:42,117 changing mode of /tmp/pip-build-env-gqfe3kwh/overlay/bin/wheel to 755 2024-04-03T14:31:52,103 changing mode of /tmp/pip-build-env-gqfe3kwh/overlay/bin/f2py to 755 2024-04-03T14:31:55,425 changing mode of /tmp/pip-build-env-gqfe3kwh/overlay/bin/cygdb to 755 2024-04-03T14:31:55,427 changing mode of /tmp/pip-build-env-gqfe3kwh/overlay/bin/cython to 755 2024-04-03T14:31:55,429 changing mode of /tmp/pip-build-env-gqfe3kwh/overlay/bin/cythonize to 755 2024-04-03T14:31:55,642 Successfully installed Cython-3.0.10 numpy-1.26.4 packaging-24.0 setuptools-69.2.0 setuptools_scm-8.0.4 tomli-2.0.1 typing-extensions-4.10.0 wheel-0.43.0 2024-04-03T14:31:56,328 Installing build dependencies: finished with status 'done' 2024-04-03T14:31:56,333 Getting requirements to build wheel: started 2024-04-03T14:31:56,334 Running command Getting requirements to build wheel 2024-04-03T14:32:33,715 Compiling dinopy/auxiliary.pyx because it changed. 2024-04-03T14:32:33,715 Compiling dinopy/conversion.pyx because it changed. 2024-04-03T14:32:33,716 Compiling dinopy/creader.pyx because it changed. 2024-04-03T14:32:33,716 Compiling dinopy/definitions.pyx because it changed. 2024-04-03T14:32:33,716 Compiling dinopy/fasta_reader.pyx because it changed. 2024-04-03T14:32:33,716 Compiling dinopy/fasta_writer.pyx because it changed. 2024-04-03T14:32:33,716 Compiling dinopy/fastq_reader.pyx because it changed. 2024-04-03T14:32:33,716 Compiling dinopy/fastq_writer.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/input_opener.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/processors.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/shape.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/shaping.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/output_opener.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/nameline_parser.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/sam_reader.pyx because it changed. 2024-04-03T14:32:33,717 Compiling dinopy/sam_writer.pyx because it changed. 2024-04-03T14:32:33,718 Compiling dinopy/sambam.pyx because it changed. 2024-04-03T14:32:33,718 Compiling dinopy/wrap_sais.pyx because it changed. 2024-04-03T14:32:33,718 [ 1/18] Cythonizing dinopy/auxiliary.pyx 2024-04-03T14:32:33,718 [ 2/18] Cythonizing dinopy/conversion.pyx 2024-04-03T14:32:33,718 [ 3/18] Cythonizing dinopy/creader.pyx 2024-04-03T14:32:33,718 [ 4/18] Cythonizing dinopy/definitions.pyx 2024-04-03T14:32:33,718 [ 5/18] Cythonizing dinopy/fasta_reader.pyx 2024-04-03T14:32:33,718 [ 6/18] Cythonizing dinopy/fasta_writer.pyx 2024-04-03T14:32:33,719 [ 7/18] Cythonizing dinopy/fastq_reader.pyx 2024-04-03T14:32:33,719 [ 8/18] Cythonizing dinopy/fastq_writer.pyx 2024-04-03T14:32:33,719 [ 9/18] Cythonizing dinopy/input_opener.pyx 2024-04-03T14:32:33,719 [10/18] Cythonizing dinopy/nameline_parser.pyx 2024-04-03T14:32:33,719 [11/18] Cythonizing dinopy/output_opener.pyx 2024-04-03T14:32:33,719 [12/18] Cythonizing dinopy/processors.pyx 2024-04-03T14:32:33,719 [13/18] Cythonizing dinopy/sam_reader.pyx 2024-04-03T14:32:33,719 [14/18] Cythonizing dinopy/sam_writer.pyx 2024-04-03T14:32:33,720 [15/18] Cythonizing dinopy/sambam.pyx 2024-04-03T14:32:33,720 [16/18] Cythonizing dinopy/shape.pyx 2024-04-03T14:32:33,720 [17/18] Cythonizing dinopy/shaping.pyx 2024-04-03T14:32:33,720 [18/18] Cythonizing dinopy/wrap_sais.pyx 2024-04-03T14:32:33,861 running egg_info 2024-04-03T14:32:33,869 writing dinopy.egg-info/PKG-INFO 2024-04-03T14:32:33,872 writing dependency_links to dinopy.egg-info/dependency_links.txt 2024-04-03T14:32:33,874 writing requirements to dinopy.egg-info/requires.txt 2024-04-03T14:32:33,876 writing top-level names to dinopy.egg-info/top_level.txt 2024-04-03T14:32:33,930 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,931 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,931 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,931 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h 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manifest: the path must be relative 2024-04-03T14:32:33,936 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,936 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,936 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,936 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,936 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,936 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,937 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,938 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,938 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,938 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,938 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,938 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,938 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:33,992 ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any 2024-04-03T14:32:34,019 reading manifest file 'dinopy.egg-info/SOURCES.txt' 2024-04-03T14:32:34,034 reading manifest template 'MANIFEST.in' 2024-04-03T14:32:34,037 adding license file 'LICENSE.rst' 2024-04-03T14:32:34,037 adding license file 'AUTHORS.rst' 2024-04-03T14:32:34,044 writing manifest file 'dinopy.egg-info/SOURCES.txt' 2024-04-03T14:32:35,019 Getting requirements to build wheel: finished with status 'done' 2024-04-03T14:32:35,030 Created temporary directory: /tmp/pip-modern-metadata-dzc8_zt5 2024-04-03T14:32:35,032 Preparing metadata (pyproject.toml): started 2024-04-03T14:32:35,033 Running command Preparing metadata (pyproject.toml) 2024-04-03T14:32:37,478 running dist_info 2024-04-03T14:32:37,486 creating /tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info 2024-04-03T14:32:37,493 writing /tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/PKG-INFO 2024-04-03T14:32:37,496 writing dependency_links to /tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/dependency_links.txt 2024-04-03T14:32:37,498 writing requirements to /tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/requires.txt 2024-04-03T14:32:37,499 writing top-level names to /tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/top_level.txt 2024-04-03T14:32:37,501 writing manifest file '/tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/SOURCES.txt' 2024-04-03T14:32:37,548 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,549 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,549 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,549 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,549 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,549 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,550 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,551 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,552 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,553 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,554 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,555 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,556 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:32:37,595 ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any 2024-04-03T14:32:37,606 reading manifest file '/tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/SOURCES.txt' 2024-04-03T14:32:37,609 reading manifest template 'MANIFEST.in' 2024-04-03T14:32:37,612 adding license file 'LICENSE.rst' 2024-04-03T14:32:37,612 adding license file 'AUTHORS.rst' 2024-04-03T14:32:37,615 writing manifest file '/tmp/pip-modern-metadata-dzc8_zt5/dinopy.egg-info/SOURCES.txt' 2024-04-03T14:32:37,616 creating '/tmp/pip-modern-metadata-dzc8_zt5/dinopy-3.0.0.dist-info' 2024-04-03T14:32:37,853 Preparing metadata (pyproject.toml): finished with status 'done' 2024-04-03T14:32:37,860 Source in /tmp/pip-wheel-bhq9_uix/dinopy_71b96378df20475eba5c5786b42be4b8 has version 3.0.0, which satisfies requirement dinopy==3.0.0 from https://files.pythonhosted.org/packages/e3/fd/06182a3e21bd400c172ef973512a070968c039a0f18f41c54c933fcafef9/dinopy-3.0.0.tar.gz 2024-04-03T14:32:37,860 Removed dinopy==3.0.0 from https://files.pythonhosted.org/packages/e3/fd/06182a3e21bd400c172ef973512a070968c039a0f18f41c54c933fcafef9/dinopy-3.0.0.tar.gz from build tracker '/tmp/pip-build-tracker-7l0vr9yx' 2024-04-03T14:32:37,865 Created temporary directory: /tmp/pip-unpack-zpb5eee2 2024-04-03T14:32:37,866 Created temporary directory: /tmp/pip-unpack-tbbn8yd7 2024-04-03T14:32:37,872 Building wheels for collected packages: dinopy 2024-04-03T14:32:37,876 Created temporary directory: /tmp/pip-wheel-wykhwof6 2024-04-03T14:32:37,876 Destination directory: /tmp/pip-wheel-wykhwof6 2024-04-03T14:32:37,878 Building wheel for dinopy (pyproject.toml): started 2024-04-03T14:32:37,879 Running command Building wheel for dinopy (pyproject.toml) 2024-04-03T14:32:40,286 running bdist_wheel 2024-04-03T14:32:40,349 running build 2024-04-03T14:32:40,349 running build_py 2024-04-03T14:32:40,360 creating build 2024-04-03T14:32:40,360 creating build/lib.linux-armv7l-cpython-39 2024-04-03T14:32:40,361 creating build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,362 copying dinopy/exceptions.py -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,364 copying dinopy/fai_io.py -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,366 copying dinopy/__init__.py -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,374 copying dinopy/processors.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,377 copying dinopy/sam_writer.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,379 copying dinopy/wrap_sais.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,381 copying dinopy/output_opener.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,383 copying dinopy/fasta_writer.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,386 copying dinopy/sambam.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,388 copying dinopy/fastq_writer.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,391 copying dinopy/fastq_reader.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,393 copying dinopy/sam_reader.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,396 copying dinopy/shaping.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,398 copying dinopy/creader.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,400 copying dinopy/auxiliary.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,402 copying dinopy/shape.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,404 copying dinopy/conversion.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,407 copying dinopy/fasta_reader.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,410 copying dinopy/input_opener.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,412 copying dinopy/nameline_parser.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,414 copying dinopy/definitions.pyx -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,417 copying dinopy/auxiliary.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,419 copying dinopy/fasta_reader.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,421 copying dinopy/shape.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,423 copying dinopy/sam_writer.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,424 copying dinopy/definitions.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,426 copying dinopy/input_opener.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,428 copying dinopy/conversion.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,430 copying dinopy/wrap_sais.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,432 copying dinopy/shaping.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,433 copying dinopy/output_opener.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,435 copying dinopy/sambam.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,437 copying dinopy/processors.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,439 copying dinopy/__init__.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,441 copying dinopy/fastq_reader.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,442 copying dinopy/nameline_parser.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,444 copying dinopy/sam_reader.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,446 copying dinopy/fastq_writer.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,448 copying dinopy/fasta_writer.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,449 copying dinopy/creader.pxd -> build/lib.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,451 creating build/lib.linux-armv7l-cpython-39/dinopy/cpp 2024-04-03T14:32:40,452 copying dinopy/cpp/sais.cpp -> build/lib.linux-armv7l-cpython-39/dinopy/cpp 2024-04-03T14:32:40,454 copying dinopy/../README.rst -> build/lib.linux-armv7l-cpython-39/dinopy/.. 2024-04-03T14:32:40,457 running build_ext 2024-04-03T14:32:40,464 building 'dinopy.auxiliary' extension 2024-04-03T14:32:40,465 creating build/temp.linux-armv7l-cpython-39 2024-04-03T14:32:40,465 creating build/temp.linux-armv7l-cpython-39/dinopy 2024-04-03T14:32:40,466 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/auxiliary.c -o build/temp.linux-armv7l-cpython-39/dinopy/auxiliary.o -O3 2024-04-03T14:32:40,802 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:32:40,803 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:32:40,803 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:32:40,803 from dinopy/auxiliary.c:1252: 2024-04-03T14:32:40,803 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:32:40,803 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:32:40,803 | ^~~~~~~ 2024-04-03T14:32:48,743 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/auxiliary.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/auxiliary.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:32:48,869 building 'dinopy.conversion' extension 2024-04-03T14:32:48,870 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/conversion.c -o build/temp.linux-armv7l-cpython-39/dinopy/conversion.o -O3 2024-04-03T14:32:49,193 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:32:49,193 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:32:49,193 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:32:49,193 from dinopy/conversion.c:1269: 2024-04-03T14:32:49,193 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:32:49,194 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:32:49,194 | ^~~~~~~ 2024-04-03T14:33:08,592 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/conversion.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/conversion.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:33:08,744 building 'dinopy.creader' extension 2024-04-03T14:33:08,745 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/creader.c -o build/temp.linux-armv7l-cpython-39/dinopy/creader.o -O3 2024-04-03T14:33:22,726 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/creader.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/creader.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:33:22,863 building 'dinopy.definitions' extension 2024-04-03T14:33:22,863 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/definitions.c -o build/temp.linux-armv7l-cpython-39/dinopy/definitions.o -O3 2024-04-03T14:33:23,176 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:33:23,176 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:33:23,176 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:33:23,177 from dinopy/definitions.c:1269: 2024-04-03T14:33:23,177 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:33:23,177 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:33:23,177 | ^~~~~~~ 2024-04-03T14:34:18,019 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/definitions.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/definitions.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:34:18,202 building 'dinopy.fasta_reader' extension 2024-04-03T14:34:18,203 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/fasta_reader.c -o build/temp.linux-armv7l-cpython-39/dinopy/fasta_reader.o -O3 2024-04-03T14:34:18,520 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:34:18,520 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:34:18,520 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:34:18,520 from dinopy/fasta_reader.c:1271: 2024-04-03T14:34:18,520 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:34:18,521 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:34:18,521 | ^~~~~~~ 2024-04-03T14:34:52,968 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/fasta_reader.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/fasta_reader.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:34:53,143 building 'dinopy.fasta_writer' extension 2024-04-03T14:34:53,143 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/fasta_writer.c -o build/temp.linux-armv7l-cpython-39/dinopy/fasta_writer.o -O3 2024-04-03T14:34:53,454 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:34:53,454 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:34:53,455 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:34:53,455 from dinopy/fasta_writer.c:1271: 2024-04-03T14:34:53,455 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:34:53,455 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:34:53,455 | ^~~~~~~ 2024-04-03T14:35:16,421 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/fasta_writer.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/fasta_writer.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:35:16,570 building 'dinopy.fastq_reader' extension 2024-04-03T14:35:16,571 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/fastq_reader.c -o build/temp.linux-armv7l-cpython-39/dinopy/fastq_reader.o -O3 2024-04-03T14:35:16,883 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:35:16,883 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:35:16,883 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:35:16,884 from dinopy/fastq_reader.c:1269: 2024-04-03T14:35:16,884 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:35:16,884 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:35:16,884 | ^~~~~~~ 2024-04-03T14:35:36,074 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/fastq_reader.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/fastq_reader.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:35:36,220 building 'dinopy.fastq_writer' extension 2024-04-03T14:35:36,220 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/fastq_writer.c -o build/temp.linux-armv7l-cpython-39/dinopy/fastq_writer.o -O3 2024-04-03T14:35:38,249 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:35:38,250 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:35:38,250 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:35:38,250 from dinopy/fastq_writer.c:1271: 2024-04-03T14:35:38,250 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:35:38,250 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:35:38,250 | ^~~~~~~ 2024-04-03T14:35:53,513 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/fastq_writer.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/fastq_writer.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:35:53,646 building 'dinopy.input_opener' extension 2024-04-03T14:35:53,647 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/input_opener.c -o build/temp.linux-armv7l-cpython-39/dinopy/input_opener.o -O3 2024-04-03T14:36:03,556 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/input_opener.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/input_opener.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:36:03,680 building 'dinopy.processors' extension 2024-04-03T14:36:03,680 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/processors.c -o build/temp.linux-armv7l-cpython-39/dinopy/processors.o -O3 2024-04-03T14:36:04,003 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:36:04,003 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:36:04,003 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:36:04,003 from dinopy/processors.c:1271: 2024-04-03T14:36:04,003 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:36:04,003 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:36:04,003 | ^~~~~~~ 2024-04-03T14:37:09,802 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/processors.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/processors.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:37:10,044 building 'dinopy.shape' extension 2024-04-03T14:37:10,045 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/shape.c -o build/temp.linux-armv7l-cpython-39/dinopy/shape.o -O3 2024-04-03T14:37:10,372 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:37:10,372 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:37:10,372 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:37:10,372 from dinopy/shape.c:1269: 2024-04-03T14:37:10,372 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:37:10,373 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:37:10,373 | ^~~~~~~ 2024-04-03T14:37:23,490 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/shape.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/shape.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:37:23,621 building 'dinopy.shaping' extension 2024-04-03T14:37:23,622 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/shaping.c -o build/temp.linux-armv7l-cpython-39/dinopy/shaping.o -O3 2024-04-03T14:37:23,936 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:37:23,936 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:37:23,936 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:37:23,936 from dinopy/shaping.c:1269: 2024-04-03T14:37:23,936 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:37:23,937 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:37:23,937 | ^~~~~~~ 2024-04-03T14:37:24,243 dinopy/shaping.c: In function ‘__pyx_f_6dinopy_7shaping__apply_shape_int’: 2024-04-03T14:37:24,254 dinopy/shaping.c:22556:33: warning: comparison of integer expressions of different signedness: ‘Py_ssize_t’ {aka ‘int’} and ‘long unsigned int’ [-Wsign-compare] 2024-04-03T14:37:24,255 22556 | for (__pyx_t_1 = 0; __pyx_t_1 < __pyx_t_6; __pyx_t_1+=1) { 2024-04-03T14:37:24,255 | ^ 2024-04-03T14:37:55,444 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/shaping.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/shaping.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:37:55,621 building 'dinopy.output_opener' extension 2024-04-03T14:37:55,622 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/output_opener.c -o build/temp.linux-armv7l-cpython-39/dinopy/output_opener.o -O3 2024-04-03T14:38:11,886 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/output_opener.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/output_opener.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:38:12,023 building 'dinopy.nameline_parser' extension 2024-04-03T14:38:12,024 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/nameline_parser.c -o build/temp.linux-armv7l-cpython-39/dinopy/nameline_parser.o -O3 2024-04-03T14:38:33,045 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/nameline_parser.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/nameline_parser.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:38:33,189 building 'dinopy.sam_reader' extension 2024-04-03T14:38:33,189 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/sam_reader.c -o build/temp.linux-armv7l-cpython-39/dinopy/sam_reader.o -O3 2024-04-03T14:38:33,497 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:38:33,497 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:38:33,497 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:38:33,497 from dinopy/sam_reader.c:1271: 2024-04-03T14:38:33,497 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:38:33,497 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:38:33,498 | ^~~~~~~ 2024-04-03T14:38:50,635 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/sam_reader.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/sam_reader.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:38:50,773 building 'dinopy.sam_writer' extension 2024-04-03T14:38:50,774 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/sam_writer.c -o build/temp.linux-armv7l-cpython-39/dinopy/sam_writer.o -O3 2024-04-03T14:39:05,793 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/sam_writer.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/sam_writer.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:39:05,920 building 'dinopy.sambam' extension 2024-04-03T14:39:05,921 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -I/tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include -I/usr/include/python3.9 -c dinopy/sambam.c -o build/temp.linux-armv7l-cpython-39/dinopy/sambam.o -O3 2024-04-03T14:39:06,235 In file included from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h:1929, 2024-04-03T14:39:06,235 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h:12, 2024-04-03T14:39:06,235 from /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h:5, 2024-04-03T14:39:06,236 from dinopy/sambam.c:1271: 2024-04-03T14:39:06,236 /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp] 2024-04-03T14:39:06,236 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-04-03T14:39:06,236 | ^~~~~~~ 2024-04-03T14:39:33,547 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/sambam.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/sambam.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:39:33,705 building 'dinopy.wrap_sais' extension 2024-04-03T14:39:33,706 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idinopy -Idinopy/cpp/ -I/usr/include/python3.9 -c dinopy/wrap_sais.cpp -o build/temp.linux-armv7l-cpython-39/dinopy/wrap_sais.o -O3 2024-04-03T14:39:35,599 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/dinopy/wrap_sais.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/dinopy/wrap_sais.cpython-39-arm-linux-gnueabihf.so 2024-04-03T14:39:35,779 installing to build/bdist.linux-armv7l/wheel 2024-04-03T14:39:35,779 running install 2024-04-03T14:39:35,805 running install_lib 2024-04-03T14:39:35,815 creating build/bdist.linux-armv7l 2024-04-03T14:39:35,816 creating build/bdist.linux-armv7l/wheel 2024-04-03T14:39:35,819 creating build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,820 copying build/lib.linux-armv7l-cpython-39/dinopy/auxiliary.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,822 copying build/lib.linux-armv7l-cpython-39/dinopy/shaping.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,849 copying build/lib.linux-armv7l-cpython-39/dinopy/exceptions.py -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,851 copying build/lib.linux-armv7l-cpython-39/dinopy/fasta_reader.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,853 copying build/lib.linux-armv7l-cpython-39/dinopy/fai_io.py -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,855 copying build/lib.linux-armv7l-cpython-39/dinopy/shape.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,858 copying build/lib.linux-armv7l-cpython-39/dinopy/conversion.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,883 copying build/lib.linux-armv7l-cpython-39/dinopy/processors.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,887 copying build/lib.linux-armv7l-cpython-39/dinopy/sam_writer.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,905 copying build/lib.linux-armv7l-cpython-39/dinopy/output_opener.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,924 copying build/lib.linux-armv7l-cpython-39/dinopy/sam_writer.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,926 copying build/lib.linux-armv7l-cpython-39/dinopy/sam_writer.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,929 copying build/lib.linux-armv7l-cpython-39/dinopy/wrap_sais.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,931 copying build/lib.linux-armv7l-cpython-39/dinopy/output_opener.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,933 copying build/lib.linux-armv7l-cpython-39/dinopy/fasta_writer.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,936 copying build/lib.linux-armv7l-cpython-39/dinopy/sambam.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,939 copying build/lib.linux-armv7l-cpython-39/dinopy/fastq_writer.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,941 copying build/lib.linux-armv7l-cpython-39/dinopy/fastq_reader.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,944 copying build/lib.linux-armv7l-cpython-39/dinopy/sam_reader.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,946 copying build/lib.linux-armv7l-cpython-39/dinopy/definitions.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,949 copying build/lib.linux-armv7l-cpython-39/dinopy/__init__.py -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,951 copying build/lib.linux-armv7l-cpython-39/dinopy/input_opener.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,953 copying build/lib.linux-armv7l-cpython-39/dinopy/conversion.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,955 copying build/lib.linux-armv7l-cpython-39/dinopy/auxiliary.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,968 copying build/lib.linux-armv7l-cpython-39/dinopy/shaping.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,971 copying build/lib.linux-armv7l-cpython-39/dinopy/wrap_sais.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,973 copying build/lib.linux-armv7l-cpython-39/dinopy/shaping.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,975 copying build/lib.linux-armv7l-cpython-39/dinopy/wrap_sais.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,979 copying build/lib.linux-armv7l-cpython-39/dinopy/output_opener.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:35,981 copying build/lib.linux-armv7l-cpython-39/dinopy/fasta_writer.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,000 copying build/lib.linux-armv7l-cpython-39/dinopy/definitions.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,031 copying build/lib.linux-armv7l-cpython-39/dinopy/creader.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,034 copying build/lib.linux-armv7l-cpython-39/dinopy/sambam.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,036 copying build/lib.linux-armv7l-cpython-39/dinopy/processors.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,037 copying build/lib.linux-armv7l-cpython-39/dinopy/input_opener.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,047 copying build/lib.linux-armv7l-cpython-39/dinopy/processors.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,098 copying build/lib.linux-armv7l-cpython-39/dinopy/__init__.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,099 copying build/lib.linux-armv7l-cpython-39/dinopy/fastq_writer.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,113 copying build/lib.linux-armv7l-cpython-39/dinopy/shape.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,127 copying build/lib.linux-armv7l-cpython-39/dinopy/auxiliary.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,129 copying build/lib.linux-armv7l-cpython-39/dinopy/sam_reader.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,147 copying build/lib.linux-armv7l-cpython-39/dinopy/fastq_reader.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,149 copying build/lib.linux-armv7l-cpython-39/dinopy/fasta_reader.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,190 copying build/lib.linux-armv7l-cpython-39/dinopy/shape.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,192 copying build/lib.linux-armv7l-cpython-39/dinopy/nameline_parser.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,194 copying build/lib.linux-armv7l-cpython-39/dinopy/creader.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,210 copying build/lib.linux-armv7l-cpython-39/dinopy/conversion.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,212 copying build/lib.linux-armv7l-cpython-39/dinopy/fastq_reader.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,228 copying build/lib.linux-armv7l-cpython-39/dinopy/fasta_reader.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,231 copying build/lib.linux-armv7l-cpython-39/dinopy/sam_reader.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,233 copying build/lib.linux-armv7l-cpython-39/dinopy/sambam.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,255 copying build/lib.linux-armv7l-cpython-39/dinopy/fastq_writer.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,256 copying build/lib.linux-armv7l-cpython-39/dinopy/fasta_writer.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,258 copying build/lib.linux-armv7l-cpython-39/dinopy/input_opener.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,261 creating build/bdist.linux-armv7l/wheel/dinopy/cpp 2024-04-03T14:39:36,261 copying build/lib.linux-armv7l-cpython-39/dinopy/cpp/sais.cpp -> build/bdist.linux-armv7l/wheel/dinopy/cpp 2024-04-03T14:39:36,264 copying build/lib.linux-armv7l-cpython-39/dinopy/nameline_parser.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,282 copying build/lib.linux-armv7l-cpython-39/dinopy/nameline_parser.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,285 copying build/lib.linux-armv7l-cpython-39/dinopy/definitions.pyx -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,288 copying build/lib.linux-armv7l-cpython-39/dinopy/creader.pxd -> build/bdist.linux-armv7l/wheel/dinopy 2024-04-03T14:39:36,290 copying build/lib.linux-armv7l-cpython-39/README.rst -> build/bdist.linux-armv7l/wheel 2024-04-03T14:39:36,292 running install_egg_info 2024-04-03T14:39:36,311 running egg_info 2024-04-03T14:39:36,320 writing dinopy.egg-info/PKG-INFO 2024-04-03T14:39:36,325 writing dependency_links to dinopy.egg-info/dependency_links.txt 2024-04-03T14:39:36,327 writing requirements to dinopy.egg-info/requires.txt 2024-04-03T14:39:36,328 writing top-level names to dinopy.egg-info/top_level.txt 2024-04-03T14:39:36,349 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,349 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,349 dependency 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manifest: the path must be relative 2024-04-03T14:39:36,359 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,359 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,359 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,360 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,360 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,360 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,360 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,360 dependency /tmp/pip-build-env-gqfe3kwh/overlay/lib/python3.9/site-packages/numpy/core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-04-03T14:39:36,407 ERROR setuptools_scm._file_finders.git listing git files failed - pretending there aren't any 2024-04-03T14:39:36,419 reading manifest file 'dinopy.egg-info/SOURCES.txt' 2024-04-03T14:39:36,436 reading manifest template 'MANIFEST.in' 2024-04-03T14:39:36,438 adding license file 'LICENSE.rst' 2024-04-03T14:39:36,439 adding license file 'AUTHORS.rst' 2024-04-03T14:39:36,446 writing manifest file 'dinopy.egg-info/SOURCES.txt' 2024-04-03T14:39:36,447 Copying dinopy.egg-info to build/bdist.linux-armv7l/wheel/dinopy-3.0.0-py3.9.egg-info 2024-04-03T14:39:36,457 running install_scripts 2024-04-03T14:39:36,503 creating build/bdist.linux-armv7l/wheel/dinopy-3.0.0.dist-info/WHEEL 2024-04-03T14:39:36,507 creating '/tmp/pip-wheel-wykhwof6/.tmp-xpjqh2yv/dinopy-3.0.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-04-03T14:39:36,509 adding 'README.rst' 2024-04-03T14:39:36,512 adding 'dinopy/__init__.pxd' 2024-04-03T14:39:36,513 adding 'dinopy/__init__.py' 2024-04-03T14:39:36,616 adding 'dinopy/auxiliary.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:36,620 adding 'dinopy/auxiliary.pxd' 2024-04-03T14:39:36,622 adding 'dinopy/auxiliary.pyx' 2024-04-03T14:39:36,830 adding 'dinopy/conversion.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:36,839 adding 'dinopy/conversion.pxd' 2024-04-03T14:39:36,841 adding 'dinopy/conversion.pyx' 2024-04-03T14:39:36,992 adding 'dinopy/creader.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:36,997 adding 'dinopy/creader.pxd' 2024-04-03T14:39:36,999 adding 'dinopy/creader.pyx' 2024-04-03T14:39:37,262 adding 'dinopy/definitions.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:37,273 adding 'dinopy/definitions.pxd' 2024-04-03T14:39:37,277 adding 'dinopy/definitions.pyx' 2024-04-03T14:39:37,278 adding 'dinopy/exceptions.py' 2024-04-03T14:39:37,280 adding 'dinopy/fai_io.py' 2024-04-03T14:39:37,603 adding 'dinopy/fasta_reader.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:37,615 adding 'dinopy/fasta_reader.pxd' 2024-04-03T14:39:37,618 adding 'dinopy/fasta_reader.pyx' 2024-04-03T14:39:37,823 adding 'dinopy/fasta_writer.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:37,831 adding 'dinopy/fasta_writer.pxd' 2024-04-03T14:39:37,833 adding 'dinopy/fasta_writer.pyx' 2024-04-03T14:39:38,026 adding 'dinopy/fastq_reader.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:38,033 adding 'dinopy/fastq_reader.pxd' 2024-04-03T14:39:38,036 adding 'dinopy/fastq_reader.pyx' 2024-04-03T14:39:38,181 adding 'dinopy/fastq_writer.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:38,187 adding 'dinopy/fastq_writer.pxd' 2024-04-03T14:39:38,188 adding 'dinopy/fastq_writer.pyx' 2024-04-03T14:39:38,294 adding 'dinopy/input_opener.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:38,298 adding 'dinopy/input_opener.pxd' 2024-04-03T14:39:38,299 adding 'dinopy/input_opener.pyx' 2024-04-03T14:39:38,500 adding 'dinopy/nameline_parser.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:38,508 adding 'dinopy/nameline_parser.pxd' 2024-04-03T14:39:38,510 adding 'dinopy/nameline_parser.pyx' 2024-04-03T14:39:38,657 adding 'dinopy/output_opener.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:38,663 adding 'dinopy/output_opener.pxd' 2024-04-03T14:39:38,665 adding 'dinopy/output_opener.pyx' 2024-04-03T14:39:39,161 adding 'dinopy/processors.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:39,179 adding 'dinopy/processors.pxd' 2024-04-03T14:39:39,182 adding 'dinopy/processors.pyx' 2024-04-03T14:39:39,358 adding 'dinopy/sam_reader.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:39,365 adding 'dinopy/sam_reader.pxd' 2024-04-03T14:39:39,367 adding 'dinopy/sam_reader.pyx' 2024-04-03T14:39:39,505 adding 'dinopy/sam_writer.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:39,511 adding 'dinopy/sam_writer.pxd' 2024-04-03T14:39:39,513 adding 'dinopy/sam_writer.pyx' 2024-04-03T14:39:39,739 adding 'dinopy/sambam.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:39,747 adding 'dinopy/sambam.pxd' 2024-04-03T14:39:39,750 adding 'dinopy/sambam.pyx' 2024-04-03T14:39:39,890 adding 'dinopy/shape.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:39,895 adding 'dinopy/shape.pxd' 2024-04-03T14:39:39,897 adding 'dinopy/shape.pyx' 2024-04-03T14:39:40,197 adding 'dinopy/shaping.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:40,208 adding 'dinopy/shaping.pxd' 2024-04-03T14:39:40,210 adding 'dinopy/shaping.pyx' 2024-04-03T14:39:40,229 adding 'dinopy/wrap_sais.cpython-39-arm-linux-gnueabihf.so' 2024-04-03T14:39:40,231 adding 'dinopy/wrap_sais.pxd' 2024-04-03T14:39:40,232 adding 'dinopy/wrap_sais.pyx' 2024-04-03T14:39:40,234 adding 'dinopy/cpp/sais.cpp' 2024-04-03T14:39:40,236 adding 'dinopy-3.0.0.dist-info/AUTHORS.rst' 2024-04-03T14:39:40,237 adding 'dinopy-3.0.0.dist-info/LICENSE.rst' 2024-04-03T14:39:40,239 adding 'dinopy-3.0.0.dist-info/METADATA' 2024-04-03T14:39:40,240 adding 'dinopy-3.0.0.dist-info/WHEEL' 2024-04-03T14:39:40,241 adding 'dinopy-3.0.0.dist-info/top_level.txt' 2024-04-03T14:39:40,242 adding 'dinopy-3.0.0.dist-info/RECORD' 2024-04-03T14:39:40,310 removing build/bdist.linux-armv7l/wheel 2024-04-03T14:39:40,494 Building wheel for dinopy (pyproject.toml): finished with status 'done' 2024-04-03T14:39:40,627 Created wheel for dinopy: filename=dinopy-3.0.0-cp39-cp39-linux_armv7l.whl size=6606471 sha256=c54544128f82fa799e217e758b4d027482c0106c5c4ed7e4c7b86ae8a22c4659 2024-04-03T14:39:40,628 Stored in directory: /tmp/pip-ephem-wheel-cache-9k1f7t2h/wheels/91/48/bf/3f94f1f2c6fc4e45787327e49908c585c056aca7d4d812729c 2024-04-03T14:39:40,644 Successfully built dinopy 2024-04-03T14:39:40,818 Removed build tracker: '/tmp/pip-build-tracker-7l0vr9yx'