2024-06-19T09:28:09,493 Created temporary directory: /tmp/pip-build-tracker-i6642apo 2024-06-19T09:28:09,495 Initialized build tracking at /tmp/pip-build-tracker-i6642apo 2024-06-19T09:28:09,496 Created build tracker: /tmp/pip-build-tracker-i6642apo 2024-06-19T09:28:09,496 Entered build tracker: /tmp/pip-build-tracker-i6642apo 2024-06-19T09:28:09,497 Created temporary directory: /tmp/pip-wheel-mq40se49 2024-06-19T09:28:09,500 Created temporary directory: /tmp/pip-ephem-wheel-cache-m98pdwrm 2024-06-19T09:28:09,522 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-06-19T09:28:09,525 2 location(s) to search for versions of pgenlib: 2024-06-19T09:28:09,525 * https://pypi.org/simple/pgenlib/ 2024-06-19T09:28:09,525 * https://www.piwheels.org/simple/pgenlib/ 2024-06-19T09:28:09,526 Fetching project page and analyzing links: https://pypi.org/simple/pgenlib/ 2024-06-19T09:28:09,527 Getting page https://pypi.org/simple/pgenlib/ 2024-06-19T09:28:09,528 Found index url https://pypi.org/simple/ 2024-06-19T09:28:09,752 Fetched page https://pypi.org/simple/pgenlib/ as application/vnd.pypi.simple.v1+json 2024-06-19T09:28:09,767 Found link https://files.pythonhosted.org/packages/d9/cc/f3bbaa8da897e9a04e1a885183a0c533ba563bb3a1dbfba6680704473336/Pgenlib-0.81.1.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.81.1 2024-06-19T09:28:09,768 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/22/06/d83bcf26ea2212baccc88b3771c78dce0eff643a1293aa3f8993c242fe02/Pgenlib-0.81.2-cp37-cp37m-macosx_10_13_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,769 Found link https://files.pythonhosted.org/packages/6d/f7/c286a64ec213ea42bfa67b20ce1271b0b8699ac3880854657f8ed1620759/Pgenlib-0.81.2.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.81.2 2024-06-19T09:28:09,770 Found link https://files.pythonhosted.org/packages/38/09/74ec09b0c9ddde6a3562898507b99b47adde5350248f2899b59edcc082b0/Pgenlib-0.81.3.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.81.3 2024-06-19T09:28:09,771 Found link https://files.pythonhosted.org/packages/29/d3/311512e956d1bc898cd6020e15691e2778e1bf3a1c2e01eadbb6031d8bd5/Pgenlib-0.82.0.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.82.0 2024-06-19T09:28:09,772 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/2b/91/1d7b72b61c624763fc29c3e54df394bc611080a3dc2176af2332257e8fac/Pgenlib-0.82.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,773 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/30/d1/166d130225f03033df8ca688ef54dca200fb3de3419f0edc914afd21a3a7/Pgenlib-0.82.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,774 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/be/d5/85dc2412def8644cccfafe6722e7d1c5411c9725366156eef4aec843ba95/Pgenlib-0.82.1-cp36-cp36m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,774 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/a1/74/ade2137ac2eee449bfa959f5808cc6d1bdc6cec4cd9b4fabcd416246a889/Pgenlib-0.82.1-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,775 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/9a/65/79600073fc41faaa2b008b1bedf9233125aeaad404a973e563810268a626/Pgenlib-0.82.1-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,776 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/29/20/876e704d95b3ca26e7a554532385d52f2133cd99d2f132a29fb16062cb4d/Pgenlib-0.82.1-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,776 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/b5/32/8dbf9cb1a3a3a6950deab99e0515a753273396ef1770b5d2491e1f8eaba9/Pgenlib-0.82.1-pp37-pypy37_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,777 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/fc/24/2e6994141f63fd6c129b0bd0bbc9ef8df91e98b171a5ae0a5aeb7a01532c/Pgenlib-0.82.1-pp38-pypy38_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,778 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/54/8e/3a2eef4571d6d2c8604a3810c3e092c9e145839934dde6c91ecf4be63be8/Pgenlib-0.82.1-pp39-pypy39_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,779 Found link https://files.pythonhosted.org/packages/9b/d1/73c8eb879691b5ef443cf3c26e801590a7eac657264f80538c7541266fa8/Pgenlib-0.82.1.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.82.1 2024-06-19T09:28:09,779 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/95/0a/86ce9fc2291a83b63817ac43b8f2924af9c02746b4f20c44142ce9f8a4ce/Pgenlib-0.83.0-cp310-cp310-macosx_13_0_arm64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,780 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/54/73/924728769d9bd1e738190588c1ac1c2fc53d65641565c013ac1d79fe8403/Pgenlib-0.83.0-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,780 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/3b/22/29e510423558b22e98374496ef7c8b178c5f4d47f6e9c1fe4999c6ee8761/Pgenlib-0.83.0-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,781 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/7c/a9/5987776baf730f0f8e8b44b7c358f8b2b44cb24f9fa938b9f6dcb8724f69/Pgenlib-0.83.0-cp36-cp36m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,782 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/88/64/2df132fbea4b3aad80aab161c90e9f24e5d494917605b1f01f522950d07e/Pgenlib-0.83.0-cp37-cp37m-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,782 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/02/4e/df2808d3f87f77419e0abb68544f0f220c261a7eed6433c7150eff1fec49/Pgenlib-0.83.0-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,783 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/c1/14/00aaf84a05ae9b25f51af36f285614e42c557860051fe16ef0860b03b3c6/Pgenlib-0.83.0-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,784 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/b7/a8/832b27db6e563e46c40e59714a0adf09959d67d964feb5ef84b51f89a0b9/Pgenlib-0.83.0-pp37-pypy37_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,784 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/5b/ba/ba9401daf559588f84aa8ff82b55ce1aac6339a69028a3b14748af74539f/Pgenlib-0.83.0-pp38-pypy38_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,785 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/b6/d7/6cf098fd410209d749e41610daeb12b440ea603a45f787a49474461c6043/Pgenlib-0.83.0-pp39-pypy39_pp73-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,786 Found link https://files.pythonhosted.org/packages/b5/f4/6cd16a7f543438c5910cec68bd5d49d231152753f3f53f4dda1322305522/Pgenlib-0.83.0.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.83.0 2024-06-19T09:28:09,787 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/16/24/5e5f3f751fc014e67c567073089e5ff22887c890ddcb33b2eee234b2ff66/Pgenlib-0.90.0-cp310-cp310-macosx_13_0_arm64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,788 Skipping link: No binaries permitted for pgenlib: 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https://files.pythonhosted.org/packages/dc/26/3150424408411a6f326db5b2f61a5accf900dfe3d287f4452e73d62b0b01/Pgenlib-0.90.0.tar.gz (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5), version: 0.90.0 2024-06-19T09:28:09,794 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/0a/24/eb4944605bf1ad5142466d268aac02ca2c1e57242511578ae521c3427e77/Pgenlib-0.90.1-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,794 Skipping link: No binaries permitted for pgenlib: https://files.pythonhosted.org/packages/47/c5/b8acab2c2db8acbf153d4e1284236838d31c0f17df797f04f15686e5f15d/Pgenlib-0.90.1-cp311-cp311-manylinux_2_17_x86_64.manylinux2014_x86_64.whl (from https://pypi.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:09,795 Skipping link: No binaries permitted for pgenlib: 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https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.3-cp39-cp39-linux_armv7l.whl#sha256=5a7e6ce67f2000041a2e5d373924f58245f07fb04f09b9c5740c8554ff44d333 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,044 Skipping link: No binaries permitted for pgenlib: https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.3-cp311-cp311-linux_armv6l.whl#sha256=d35941b198cb411716265233328d85e638faae97f31afeff3c50b56f287d8a88 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,044 Skipping link: No binaries permitted for pgenlib: https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.3-cp311-cp311-linux_armv7l.whl#sha256=d35941b198cb411716265233328d85e638faae97f31afeff3c50b56f287d8a88 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,044 Skipping link: No binaries permitted for pgenlib: https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.2-cp39-cp39-linux_armv6l.whl#sha256=2e0ad339664cbc60a4ae0b3a935afcf56d3e1a344387d8327ae50b03dce0d852 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,045 Skipping link: No binaries permitted for pgenlib: https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.2-cp39-cp39-linux_armv7l.whl#sha256=2e0ad339664cbc60a4ae0b3a935afcf56d3e1a344387d8327ae50b03dce0d852 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,046 Skipping link: No binaries permitted for pgenlib: https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.1-cp39-cp39-linux_armv6l.whl#sha256=7fe4ecefc0464d30dc029a926937523d919f28fa0320e6522fa229764a168909 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,047 Skipping link: No binaries permitted for pgenlib: https://www.piwheels.org/simple/pgenlib/Pgenlib-0.81.1-cp39-cp39-linux_armv7l.whl#sha256=7fe4ecefc0464d30dc029a926937523d919f28fa0320e6522fa229764a168909 (from https://www.piwheels.org/simple/pgenlib/) (requires-python:>=3.5) 2024-06-19T09:28:10,047 Skipping link: not a file: https://www.piwheels.org/simple/pgenlib/ 2024-06-19T09:28:10,048 Skipping link: not a file: https://pypi.org/simple/pgenlib/ 2024-06-19T09:28:10,067 Given no hashes to check 1 links for project 'pgenlib': discarding no candidates 2024-06-19T09:28:10,085 Collecting pgenlib==0.91.0 2024-06-19T09:28:10,087 Created temporary directory: /tmp/pip-unpack-v_t61j2b 2024-06-19T09:28:10,307 Downloading pgenlib-0.91.0.tar.gz (1.3 MB) 2024-06-19T09:28:11,177 Added pgenlib==0.91.0 from https://files.pythonhosted.org/packages/69/63/b12198e1394dfd4c8e0c79c9500d146aa716f10677a02ff97c0ec38a3d4c/pgenlib-0.91.0.tar.gz to build tracker '/tmp/pip-build-tracker-i6642apo' 2024-06-19T09:28:11,188 Created temporary directory: /tmp/pip-build-env-pz2y6yp4 2024-06-19T09:28:11,192 Installing build dependencies: started 2024-06-19T09:28:11,193 Running command pip subprocess to install build dependencies 2024-06-19T09:28:12,334 Using pip 24.0 from /usr/local/lib/python3.11/dist-packages/pip (python 3.11) 2024-06-19T09:28:12,876 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-06-19T09:28:12,878 Ignoring oldest-supported-numpy: markers 'python_version < "3.9"' don't match your environment 2024-06-19T09:28:13,391 Collecting wheel 2024-06-19T09:28:13,407 Using cached https://www.piwheels.org/simple/wheel/wheel-0.43.0-py3-none-any.whl (65 kB) 2024-06-19T09:28:14,577 Collecting setuptools 2024-06-19T09:28:14,610 Using cached https://www.piwheels.org/simple/setuptools/setuptools-70.0.0-py3-none-any.whl (863 kB) 2024-06-19T09:28:15,919 Collecting Cython>=0.29.21 2024-06-19T09:28:15,944 Using cached https://www.piwheels.org/simple/cython/Cython-3.0.10-cp311-cp311-linux_armv7l.whl (11.8 MB) 2024-06-19T09:28:16,976 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/3a/be/650f9c091ef71cb01d735775d554e068752d3ff63d7943b26316dc401749/numpy-1.21.2.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-19T09:28:16,979 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/5f/d6/ad58ded26556eaeaa8c971e08b6466f17c4ac4d786cd3d800e26ce59cc01/numpy-1.21.3.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-19T09:28:16,982 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/fb/48/b0708ebd7718a8933f0d3937513ef8ef2f4f04529f1f66ca86d873043921/numpy-1.21.4.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-19T09:28:16,986 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/c2/a8/a924a09492bdfee8c2ec3094d0a13f2799800b4fdc9c890738aeeb12c72e/numpy-1.21.5.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-19T09:28:16,989 Link requires a different Python (3.11.2 not in: '>=3.7,<3.11'): https://files.pythonhosted.org/packages/45/b7/de7b8e67f2232c26af57c205aaad29fe17754f793404f59c8a730c7a191a/numpy-1.21.6.zip (from https://pypi.org/simple/numpy/) (requires-python:>=3.7,<3.11) 2024-06-19T09:28:17,343 Collecting numpy>=2.0.0 2024-06-19T09:28:17,344 Using cached numpy-2.0.0-cp311-cp311-linux_armv7l.whl 2024-06-19T09:28:19,985 Installing collected packages: wheel, setuptools, numpy, Cython 2024-06-19T09:28:20,210 Creating /tmp/pip-build-env-pz2y6yp4/overlay/local/bin 2024-06-19T09:28:20,212 changing mode of /tmp/pip-build-env-pz2y6yp4/overlay/local/bin/wheel to 755 2024-06-19T09:28:30,986 changing mode of /tmp/pip-build-env-pz2y6yp4/overlay/local/bin/f2py to 755 2024-06-19T09:28:30,988 changing mode of /tmp/pip-build-env-pz2y6yp4/overlay/local/bin/numpy-config to 755 2024-06-19T09:28:34,558 changing mode of /tmp/pip-build-env-pz2y6yp4/overlay/local/bin/cygdb to 755 2024-06-19T09:28:34,560 changing mode of /tmp/pip-build-env-pz2y6yp4/overlay/local/bin/cython to 755 2024-06-19T09:28:34,562 changing mode of /tmp/pip-build-env-pz2y6yp4/overlay/local/bin/cythonize to 755 2024-06-19T09:28:34,596 Successfully installed Cython-3.0.10 numpy-2.0.0 setuptools-70.0.0 wheel-0.43.0 2024-06-19T09:28:35,366 Installing build dependencies: finished with status 'done' 2024-06-19T09:28:35,370 Getting requirements to build wheel: started 2024-06-19T09:28:35,371 Running command Getting requirements to build wheel 2024-06-19T09:28:41,123 Compiling src/pgenlib/pgenlib.pyx because it depends on /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/Cython/Includes/libc/string.pxd. 2024-06-19T09:28:41,124 [1/1] Cythonizing src/pgenlib/pgenlib.pyx 2024-06-19T09:28:41,199 running egg_info 2024-06-19T09:28:41,205 writing src/Pgenlib.egg-info/PKG-INFO 2024-06-19T09:28:41,208 writing dependency_links to src/Pgenlib.egg-info/dependency_links.txt 2024-06-19T09:28:41,211 writing requirements to src/Pgenlib.egg-info/requires.txt 2024-06-19T09:28:41,212 writing top-level names to src/Pgenlib.egg-info/top_level.txt 2024-06-19T09:28:41,433 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:41,434 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:41,434 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:41,435 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:41,436 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:41,456 reading manifest file 'src/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:28:41,476 reading manifest template 'MANIFEST.in' 2024-06-19T09:28:41,490 adding license file 'LICENSE' 2024-06-19T09:28:41,499 writing manifest file 'src/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:28:41,833 Getting requirements to build wheel: finished with status 'done' 2024-06-19T09:28:41,847 Created temporary directory: /tmp/pip-modern-metadata-_k790e_f 2024-06-19T09:28:41,849 Preparing metadata (pyproject.toml): started 2024-06-19T09:28:41,851 Running command Preparing metadata (pyproject.toml) 2024-06-19T09:28:43,351 running dist_info 2024-06-19T09:28:43,357 creating /tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info 2024-06-19T09:28:43,362 writing /tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/PKG-INFO 2024-06-19T09:28:43,365 writing dependency_links to /tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/dependency_links.txt 2024-06-19T09:28:43,367 writing requirements to /tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/requires.txt 2024-06-19T09:28:43,368 writing top-level names to /tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/top_level.txt 2024-06-19T09:28:43,370 writing manifest file '/tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:28:43,395 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:43,396 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:43,396 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:43,397 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:43,397 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:28:43,412 reading manifest file '/tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:28:43,415 reading manifest template 'MANIFEST.in' 2024-06-19T09:28:43,424 adding license file 'LICENSE' 2024-06-19T09:28:43,431 writing manifest file '/tmp/pip-modern-metadata-_k790e_f/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:28:43,433 creating '/tmp/pip-modern-metadata-_k790e_f/Pgenlib-0.91.0.dist-info' 2024-06-19T09:28:43,696 Preparing metadata (pyproject.toml): finished with status 'done' 2024-06-19T09:28:43,701 Source in /tmp/pip-wheel-mq40se49/pgenlib_039d2f7fca5a4b35b024057fe84618a8 has version 0.91.0, which satisfies requirement pgenlib==0.91.0 from https://files.pythonhosted.org/packages/69/63/b12198e1394dfd4c8e0c79c9500d146aa716f10677a02ff97c0ec38a3d4c/pgenlib-0.91.0.tar.gz 2024-06-19T09:28:43,702 Removed pgenlib==0.91.0 from https://files.pythonhosted.org/packages/69/63/b12198e1394dfd4c8e0c79c9500d146aa716f10677a02ff97c0ec38a3d4c/pgenlib-0.91.0.tar.gz from build tracker '/tmp/pip-build-tracker-i6642apo' 2024-06-19T09:28:43,707 Created temporary directory: /tmp/pip-unpack-rc1iyxde 2024-06-19T09:28:43,708 Created temporary directory: /tmp/pip-unpack-mpj84w21 2024-06-19T09:28:43,712 Building wheels for collected packages: pgenlib 2024-06-19T09:28:43,716 Created temporary directory: /tmp/pip-wheel-5khovt__ 2024-06-19T09:28:43,717 Destination directory: /tmp/pip-wheel-5khovt__ 2024-06-19T09:28:43,719 Building wheel for pgenlib (pyproject.toml): started 2024-06-19T09:28:43,721 Running command Building wheel for pgenlib (pyproject.toml) 2024-06-19T09:28:45,155 running bdist_wheel 2024-06-19T09:28:45,236 running build 2024-06-19T09:28:45,237 running build_clib 2024-06-19T09:28:45,249 building 'clib' library 2024-06-19T09:28:45,252 creating build 2024-06-19T09:28:45,253 creating build/temp.linux-armv7l-cpython-311 2024-06-19T09:28:45,254 creating build/temp.linux-armv7l-cpython-311/src 2024-06-19T09:28:45,255 creating build/temp.linux-armv7l-cpython-311/src/plink2 2024-06-19T09:28:45,255 creating build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate 2024-06-19T09:28:45,256 creating build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib 2024-06-19T09:28:45,258 creating build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/arm 2024-06-19T09:28:45,259 creating build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/x86 2024-06-19T09:28:45,260 creating build/temp.linux-armv7l-cpython-311/src/plink2/zstd 2024-06-19T09:28:45,260 creating build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib 2024-06-19T09:28:45,261 creating build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common 2024-06-19T09:28:45,262 creating build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress 2024-06-19T09:28:45,263 creating build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress 2024-06-19T09:28:45,264 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/adler32.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/adler32.o 2024-06-19T09:28:46,024 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/arm/arm_cpu_features.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/arm/arm_cpu_features.o 2024-06-19T09:28:46,127 src/plink2/libdeflate/lib/arm/arm_cpu_features.c: In function ‘scan_auxv’: 2024-06-19T09:28:46,127 src/plink2/libdeflate/lib/arm/arm_cpu_features.c:83:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-06-19T09:28:46,128 83 | } while (filled < 2 * sizeof(long)); 2024-06-19T09:28:46,128 | ^ 2024-06-19T09:28:46,129 src/plink2/libdeflate/lib/arm/arm_cpu_features.c:96:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-06-19T09:28:46,130 96 | } while (filled >= 2 * sizeof(long)); 2024-06-19T09:28:46,130 | ^~ 2024-06-19T09:28:46,224 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/crc32.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/crc32.o 2024-06-19T09:28:47,685 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/deflate_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/deflate_compress.o 2024-06-19T09:28:54,609 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/deflate_decompress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/deflate_decompress.o 2024-06-19T09:28:55,701 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/gzip_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/gzip_compress.o 2024-06-19T09:28:55,829 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/gzip_decompress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/gzip_decompress.o 2024-06-19T09:28:56,001 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/utils.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/utils.o 2024-06-19T09:28:56,140 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/x86/x86_cpu_features.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/x86/x86_cpu_features.o 2024-06-19T09:28:56,222 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/zlib_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/zlib_compress.o 2024-06-19T09:28:56,351 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/libdeflate/lib/zlib_decompress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/zlib_decompress.o 2024-06-19T09:28:56,519 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/debug.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/debug.o 2024-06-19T09:28:56,587 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/entropy_common.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/entropy_common.o 2024-06-19T09:28:56,988 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/error_private.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/error_private.o 2024-06-19T09:28:57,101 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/fse_decompress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/fse_decompress.o 2024-06-19T09:28:58,087 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/pool.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/pool.o 2024-06-19T09:28:58,258 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/threading.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/threading.o 2024-06-19T09:28:58,313 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/xxhash.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/xxhash.o 2024-06-19T09:28:59,425 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/common/zstd_common.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/zstd_common.o 2024-06-19T09:28:59,635 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/fse_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/fse_compress.o 2024-06-19T09:29:00,564 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/hist.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/hist.o 2024-06-19T09:29:00,869 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/huf_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/huf_compress.o 2024-06-19T09:29:02,744 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress.o 2024-06-19T09:29:10,440 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_compress_literals.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress_literals.o 2024-06-19T09:29:10,817 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_compress_sequences.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress_sequences.o 2024-06-19T09:29:11,526 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_compress_superblock.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress_superblock.o 2024-06-19T09:29:12,301 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_double_fast.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_double_fast.o 2024-06-19T09:29:20,441 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_fast.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_fast.o 2024-06-19T09:29:28,386 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_lazy.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_lazy.o 2024-06-19T09:30:03,211 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_ldm.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_ldm.o 2024-06-19T09:30:04,587 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstd_opt.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_opt.o 2024-06-19T09:30:12,012 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/compress/zstdmt_compress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstdmt_compress.o 2024-06-19T09:30:13,779 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/decompress/huf_decompress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/huf_decompress.o 2024-06-19T09:30:17,652 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/decompress/zstd_ddict.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/zstd_ddict.o 2024-06-19T09:30:18,042 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/decompress/zstd_decompress.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/zstd_decompress.o 2024-06-19T09:30:20,349 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC -Isrc/plink2/libdeflate -c src/plink2/zstd/lib/decompress/zstd_decompress_block.c -o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/zstd_decompress_block.o 2024-06-19T09:30:27,051 arm-linux-gnueabihf-gcc-ar rcs build/temp.linux-armv7l-cpython-311/libclib.a build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/adler32.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/arm/arm_cpu_features.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/crc32.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/deflate_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/deflate_decompress.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/gzip_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/gzip_decompress.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/utils.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/x86/x86_cpu_features.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/zlib_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/libdeflate/lib/zlib_decompress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/debug.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/entropy_common.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/error_private.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/fse_decompress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/pool.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/threading.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/xxhash.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/common/zstd_common.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/fse_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/hist.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/huf_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress_literals.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress_sequences.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_compress_superblock.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_double_fast.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_fast.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_lazy.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_ldm.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstd_opt.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/compress/zstdmt_compress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/huf_decompress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/zstd_ddict.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/zstd_decompress.o build/temp.linux-armv7l-cpython-311/src/plink2/zstd/lib/decompress/zstd_decompress_block.o 2024-06-19T09:30:27,280 running build_ext 2024-06-19T09:30:27,283 building 'pgenlib' extension 2024-06-19T09:30:27,285 creating build/temp.linux-armv7l-cpython-311/src/pgenlib 2024-06-19T09:30:27,286 creating build/temp.linux-armv7l-cpython-311/src/plink2/include 2024-06-19T09:30:27,287 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/pgenlib/pgenlib.cpp -o build/temp.linux-armv7l-cpython-311/src/pgenlib/pgenlib.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:30:27,567 In file included from /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarraytypes.h:1909, 2024-06-19T09:30:27,568 from /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarrayobject.h:12, 2024-06-19T09:30:27,569 from /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayobject.h:5, 2024-06-19T09:30:27,569 from src/pgenlib/pgenlib.cpp:1293: 2024-06-19T09:30:27,570 /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-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] 2024-06-19T09:30:27,570 17 | #warning "Using deprecated NumPy API, disable it with " \ 2024-06-19T09:30:27,571 | ^~~~~~~ 2024-06-19T09:30:27,621 src/pgenlib/pgenlib.cpp:1532: warning: "likely" redefined 2024-06-19T09:30:27,621 1532 | #define likely(x) __builtin_expect(!!(x), 1) 2024-06-19T09:30:27,622 | 2024-06-19T09:30:27,623 In file included from src/pgenlib/../plink2/include/plink2_bits.h:23, 2024-06-19T09:30:27,623 from src/pgenlib/../plink2/include/pgenlib_misc.h:77, 2024-06-19T09:30:27,624 from src/pgenlib/pgenlib.cpp:1298: 2024-06-19T09:30:27,624 src/pgenlib/../plink2/include/plink2_base.h:274: note: this is the location of the previous definition 2024-06-19T09:30:27,625 274 | # define likely(expr) __builtin_expect(!!(expr), 1) 2024-06-19T09:30:27,625 | 2024-06-19T09:30:27,626 src/pgenlib/pgenlib.cpp:1533: warning: "unlikely" redefined 2024-06-19T09:30:27,627 1533 | #define unlikely(x) __builtin_expect(!!(x), 0) 2024-06-19T09:30:27,627 | 2024-06-19T09:30:27,628 src/pgenlib/../plink2/include/plink2_base.h:275: note: this is the location of the previous definition 2024-06-19T09:30:27,628 275 | # define unlikely(expr) __builtin_expect(!!(expr), 0) 2024-06-19T09:30:27,629 | 2024-06-19T09:30:28,264 In file included from /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ufuncobject.h:4, 2024-06-19T09:30:28,265 from src/pgenlib/pgenlib.cpp:1297: 2024-06-19T09:30:28,266 /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/npy_math.h: In function ‘npy_longdouble npy_creall(npy_clongdouble)’: 2024-06-19T09:30:28,266 /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/npy_math.h:405:13: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing] 2024-06-19T09:30:28,267 405 | return ((longdouble_t *) &z)[0]; 2024-06-19T09:30:28,267 | ~^~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:28,873 src/pgenlib/pgenlib.cpp: In function ‘int __pyx_pw_7pgenlib_10PvarReader_1__cinit__(PyObject*, PyObject*, PyObject*)’: 2024-06-19T09:30:28,874 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:28,874 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:28,875 | ^ 2024-06-19T09:30:28,875 src/pgenlib/pgenlib.cpp:7516:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:28,876 7516 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:28,876 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:28,910 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PvarReader_7get_variant_id(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:28,911 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:28,912 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:28,912 | ^ 2024-06-19T09:30:28,913 src/pgenlib/pgenlib.cpp:8287:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:28,914 8287 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:28,915 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:28,931 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PvarReader_9get_allele_ct(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:28,932 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:28,932 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:28,933 | ^ 2024-06-19T09:30:28,934 src/pgenlib/pgenlib.cpp:8643:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:28,935 8643 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:28,935 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:28,956 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PvarReader_11get_allele_code(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:28,957 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:28,958 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:28,958 | ^ 2024-06-19T09:30:28,959 src/pgenlib/pgenlib.cpp:9099:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:28,959 9099 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:28,960 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:28,961 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:28,961 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:28,962 | ^ 2024-06-19T09:30:28,963 src/pgenlib/pgenlib.cpp:9101:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:28,964 9101 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:28,964 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:28,965 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:28,965 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:28,966 | ^ 2024-06-19T09:30:28,966 src/pgenlib/pgenlib.cpp:9114:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:28,967 9114 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:28,967 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,016 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PvarReader_19__exit__(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,017 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,018 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,018 | ^ 2024-06-19T09:30:29,018 src/pgenlib/pgenlib.cpp:10138:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,019 10138 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,019 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,020 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,021 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,021 | ^ 2024-06-19T09:30:29,022 src/pgenlib/pgenlib.cpp:10140:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,022 10140 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,023 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,023 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,024 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,025 | ^ 2024-06-19T09:30:29,026 src/pgenlib/pgenlib.cpp:10142:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,026 10142 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,027 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,028 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,029 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,029 | ^ 2024-06-19T09:30:29,030 src/pgenlib/pgenlib.cpp:10155:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,030 10155 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,031 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,032 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,033 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,034 | ^ 2024-06-19T09:30:29,034 src/pgenlib/pgenlib.cpp:10165:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,035 10165 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,036 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,044 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PvarReader_25__setstate_cython__(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,045 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,046 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,047 | ^ 2024-06-19T09:30:29,047 src/pgenlib/pgenlib.cpp:10427:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,048 10427 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,048 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,075 src/pgenlib/pgenlib.cpp: In function ‘int __pyx_pw_7pgenlib_10PgenReader_1__cinit__(PyObject*, PyObject*, PyObject*)’: 2024-06-19T09:30:29,076 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,076 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,077 | ^ 2024-06-19T09:30:29,077 src/pgenlib/pgenlib.cpp:11169:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,078 11169 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,078 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,079 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,080 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,080 | ^ 2024-06-19T09:30:29,081 src/pgenlib/pgenlib.cpp:11171:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,081 11171 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,081 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,083 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,083 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,084 | ^ 2024-06-19T09:30:29,085 src/pgenlib/pgenlib.cpp:11173:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,085 11173 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,086 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,086 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,087 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,088 | ^ 2024-06-19T09:30:29,089 src/pgenlib/pgenlib.cpp:11175:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,089 11175 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,090 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,090 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,091 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,091 | ^ 2024-06-19T09:30:29,092 src/pgenlib/pgenlib.cpp:11177:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,093 11177 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,094 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,094 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,095 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,096 | ^ 2024-06-19T09:30:29,096 src/pgenlib/pgenlib.cpp:11179:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,097 11179 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,098 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,099 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,099 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,100 | ^ 2024-06-19T09:30:29,100 src/pgenlib/pgenlib.cpp:11192:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,101 11192 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,101 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,103 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,103 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,104 | ^ 2024-06-19T09:30:29,104 src/pgenlib/pgenlib.cpp:11199:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,105 11199 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,105 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,107 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,108 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,108 | ^ 2024-06-19T09:30:29,109 src/pgenlib/pgenlib.cpp:11206:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,109 11206 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,110 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,112 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,112 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,113 | ^ 2024-06-19T09:30:29,114 src/pgenlib/pgenlib.cpp:11213:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,114 11213 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,115 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,116 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,117 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,117 | ^ 2024-06-19T09:30:29,118 src/pgenlib/pgenlib.cpp:11220:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,119 11220 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,120 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,122 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,122 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,123 | ^ 2024-06-19T09:30:29,123 src/pgenlib/pgenlib.cpp:11235:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,124 11235 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,124 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,125 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,126 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,126 | ^ 2024-06-19T09:30:29,127 src/pgenlib/pgenlib.cpp:11237:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,128 11237 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,128 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,129 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,130 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,130 | ^ 2024-06-19T09:30:29,131 src/pgenlib/pgenlib.cpp:11239:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,131 11239 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,131 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,132 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,133 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,133 | ^ 2024-06-19T09:30:29,134 src/pgenlib/pgenlib.cpp:11241:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,134 11241 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,135 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,136 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,136 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,137 | ^ 2024-06-19T09:30:29,137 src/pgenlib/pgenlib.cpp:11243:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,138 11243 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,138 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,205 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read*)’: 2024-06-19T09:30:29,206 src/pgenlib/pgenlib.cpp:13599:80: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,206 13599 | __pyx_t_8 = ((__pyx_f_5numpy_7ndarray_5shape_shape(__pyx_v_geno_int_out)[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,207 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,229 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_11read(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,229 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,230 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,231 | ^ 2024-06-19T09:30:29,231 src/pgenlib/pgenlib.cpp:13950:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,232 13950 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,232 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,233 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,233 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,234 | ^ 2024-06-19T09:30:29,235 src/pgenlib/pgenlib.cpp:13952:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,235 13952 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,236 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,237 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,238 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,238 | ^ 2024-06-19T09:30:29,239 src/pgenlib/pgenlib.cpp:13954:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,240 13954 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,240 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,242 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,243 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,243 | ^ 2024-06-19T09:30:29,244 src/pgenlib/pgenlib.cpp:13967:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,244 13967 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,245 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,248 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,248 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,249 | ^ 2024-06-19T09:30:29,250 src/pgenlib/pgenlib.cpp:13977:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,250 13977 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,251 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,254 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,254 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,255 | ^ 2024-06-19T09:30:29,255 src/pgenlib/pgenlib.cpp:13992:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,256 13992 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,257 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,271 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_dosages(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_dosages*)’: 2024-06-19T09:30:29,272 src/pgenlib/pgenlib.cpp:14277:80: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,273 14277 | __pyx_t_8 = ((__pyx_f_5numpy_7ndarray_5shape_shape(__pyx_v_floatarr_out)[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,273 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,297 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_13read_dosages(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,297 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,298 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,298 | ^ 2024-06-19T09:30:29,299 src/pgenlib/pgenlib.cpp:14569:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,299 14569 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,300 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,301 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,301 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,302 | ^ 2024-06-19T09:30:29,302 src/pgenlib/pgenlib.cpp:14571:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,303 14571 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,304 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,304 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,305 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,306 | ^ 2024-06-19T09:30:29,306 src/pgenlib/pgenlib.cpp:14573:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,307 14573 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,307 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,309 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,309 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,310 | ^ 2024-06-19T09:30:29,310 src/pgenlib/pgenlib.cpp:14586:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,311 14586 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,311 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,314 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,315 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,315 | ^ 2024-06-19T09:30:29,316 src/pgenlib/pgenlib.cpp:14596:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,316 14596 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,317 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,320 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,320 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,321 | ^ 2024-06-19T09:30:29,322 src/pgenlib/pgenlib.cpp:14611:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,322 14611 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,323 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,337 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, int)’: 2024-06-19T09:30:29,338 src/pgenlib/pgenlib.cpp:14864:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,338 14864 | __pyx_t_7 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,339 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,352 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_15read_alleles(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,353 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,354 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,354 | ^ 2024-06-19T09:30:29,355 src/pgenlib/pgenlib.cpp:15077:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,355 15077 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,356 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,357 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,357 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,358 | ^ 2024-06-19T09:30:29,359 src/pgenlib/pgenlib.cpp:15079:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,360 15079 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,360 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,361 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,362 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,362 | ^ 2024-06-19T09:30:29,363 src/pgenlib/pgenlib.cpp:15092:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,363 15092 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,364 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,382 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_and_phasepresent(__pyx_obj_7pgenlib_PgenReader*, uint32_t, PyArrayObject*, PyArrayObject*, int)’: 2024-06-19T09:30:29,382 src/pgenlib/pgenlib.cpp:15383:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,383 15383 | __pyx_t_7 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:29,383 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,388 src/pgenlib/pgenlib.cpp:15439:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,389 15439 | __pyx_t_7 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_phasepresent_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,390 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,405 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_17read_alleles_and_phasepresent(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,406 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,407 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,407 | ^ 2024-06-19T09:30:29,408 src/pgenlib/pgenlib.cpp:15674:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,409 15674 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,409 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,410 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,410 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,411 | ^ 2024-06-19T09:30:29,412 src/pgenlib/pgenlib.cpp:15676:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,412 15676 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,413 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,413 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,414 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,415 | ^ 2024-06-19T09:30:29,415 src/pgenlib/pgenlib.cpp:15678:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,416 15678 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,417 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,418 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,419 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,420 | ^ 2024-06-19T09:30:29,420 src/pgenlib/pgenlib.cpp:15691:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,421 15691 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,421 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,422 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,423 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,423 | ^ 2024-06-19T09:30:29,424 src/pgenlib/pgenlib.cpp:15701:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,424 15701 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,425 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,436 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_range_internal8(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_range_internal8*)’: 2024-06-19T09:30:29,437 src/pgenlib/pgenlib.cpp:15979:102: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,438 15979 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,438 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,442 src/pgenlib/pgenlib.cpp:16035:102: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,442 16035 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:29,443 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,454 src/pgenlib/pgenlib.cpp:16260:100: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,455 16260 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,456 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,459 src/pgenlib/pgenlib.cpp:16316:100: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,460 16316 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,460 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,478 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_range_internal32(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_range_internal32*)’: 2024-06-19T09:30:29,479 src/pgenlib/pgenlib.cpp:16915:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,480 16915 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,480 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,484 src/pgenlib/pgenlib.cpp:16971:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,484 16971 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:29,485 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,496 src/pgenlib/pgenlib.cpp:17196:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,497 17196 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,497 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,501 src/pgenlib/pgenlib.cpp:17252:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,501 17252 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,502 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,519 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_range_internal64(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_range_internal64*)’: 2024-06-19T09:30:29,520 src/pgenlib/pgenlib.cpp:17851:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,520 17851 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,521 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,524 src/pgenlib/pgenlib.cpp:17907:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,525 17907 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:29,526 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,537 src/pgenlib/pgenlib.cpp:18132:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,538 18132 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,538 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,542 src/pgenlib/pgenlib.cpp:18188:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,543 18188 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,543 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,583 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_19read_range(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,583 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,584 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,584 | ^ 2024-06-19T09:30:29,584 src/pgenlib/pgenlib.cpp:19030:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,585 19030 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,585 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,586 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,586 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,587 | ^ 2024-06-19T09:30:29,587 src/pgenlib/pgenlib.cpp:19032:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,588 19032 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,588 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,589 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,589 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,590 | ^ 2024-06-19T09:30:29,590 src/pgenlib/pgenlib.cpp:19034:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,591 19034 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,591 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,592 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,593 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,594 | ^ 2024-06-19T09:30:29,594 src/pgenlib/pgenlib.cpp:19036:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,595 19036 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,596 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,596 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,597 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,598 | ^ 2024-06-19T09:30:29,598 src/pgenlib/pgenlib.cpp:19038:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,599 19038 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,599 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,600 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,601 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,601 | ^ 2024-06-19T09:30:29,602 src/pgenlib/pgenlib.cpp:19051:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,602 19051 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,603 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,604 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,605 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,605 | ^ 2024-06-19T09:30:29,606 src/pgenlib/pgenlib.cpp:19061:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,607 19061 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,607 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,608 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,609 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,609 | ^ 2024-06-19T09:30:29,610 src/pgenlib/pgenlib.cpp:19071:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,610 19071 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,610 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,612 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,613 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,613 | ^ 2024-06-19T09:30:29,614 src/pgenlib/pgenlib.cpp:19078:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,614 19078 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,615 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,617 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,617 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,618 | ^ 2024-06-19T09:30:29,618 src/pgenlib/pgenlib.cpp:19093:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,619 19093 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,619 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,620 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,621 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,621 | ^ 2024-06-19T09:30:29,622 src/pgenlib/pgenlib.cpp:19095:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,623 19095 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,623 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,632 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_list_internal8(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_list_internal8*)’: 2024-06-19T09:30:29,632 src/pgenlib/pgenlib.cpp:19361:102: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,633 19361 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,634 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,637 src/pgenlib/pgenlib.cpp:19417:102: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,637 19417 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:29,638 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,650 src/pgenlib/pgenlib.cpp:19658:100: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,651 19658 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,652 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,656 src/pgenlib/pgenlib.cpp:19714:100: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,656 19714 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int8_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,657 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,680 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_list_internal32(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_list_internal32*)’: 2024-06-19T09:30:29,681 src/pgenlib/pgenlib.cpp:20409:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,682 20409 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,682 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,686 src/pgenlib/pgenlib.cpp:20465:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,686 20465 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:29,687 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,699 src/pgenlib/pgenlib.cpp:20706:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,700 20706 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,701 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,704 src/pgenlib/pgenlib.cpp:20762:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,705 20762 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int32_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,706 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,733 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_list_internal64(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_list_internal64*)’: 2024-06-19T09:30:29,734 src/pgenlib/pgenlib.cpp:21457:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,735 21457 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,735 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,739 src/pgenlib/pgenlib.cpp:21513:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,739 21513 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:29,740 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,752 src/pgenlib/pgenlib.cpp:21754:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,753 21754 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[0]) < __pyx_v_subset_size); 2024-06-19T09:30:29,753 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,757 src/pgenlib/pgenlib.cpp:21810:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,758 21810 | __pyx_t_5 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_geno_int64_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,759 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,800 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_21read_list(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,801 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,801 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,802 | ^ 2024-06-19T09:30:29,802 src/pgenlib/pgenlib.cpp:22679:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,803 22679 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,804 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,804 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,805 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,806 | ^ 2024-06-19T09:30:29,806 src/pgenlib/pgenlib.cpp:22681:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,807 22681 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,808 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,808 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,809 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,809 | ^ 2024-06-19T09:30:29,810 src/pgenlib/pgenlib.cpp:22683:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,810 22683 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,811 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,811 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,812 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,813 | ^ 2024-06-19T09:30:29,813 src/pgenlib/pgenlib.cpp:22685:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,814 22685 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,815 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,816 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,817 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,817 | ^ 2024-06-19T09:30:29,818 src/pgenlib/pgenlib.cpp:22698:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,818 22698 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,818 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,821 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,821 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,822 | ^ 2024-06-19T09:30:29,822 src/pgenlib/pgenlib.cpp:22708:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,823 22708 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,823 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,825 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,826 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,826 | ^ 2024-06-19T09:30:29,827 src/pgenlib/pgenlib.cpp:22715:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,827 22715 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,828 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,830 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,831 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,832 | ^ 2024-06-19T09:30:29,832 src/pgenlib/pgenlib.cpp:22730:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,833 22730 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,833 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,834 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,835 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,836 | ^ 2024-06-19T09:30:29,836 src/pgenlib/pgenlib.cpp:22732:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,837 22732 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,838 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,855 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_range(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_range*)’: 2024-06-19T09:30:29,856 src/pgenlib/pgenlib.cpp:23150:105: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,857 23150 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,857 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,861 src/pgenlib/pgenlib.cpp:23206:105: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,862 23206 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[1]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:29,862 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,876 src/pgenlib/pgenlib.cpp:23443:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,876 23443 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:29,877 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,880 src/pgenlib/pgenlib.cpp:23499:103: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,881 23499 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,882 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,908 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_23read_alleles_range(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:29,909 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,909 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,910 | ^ 2024-06-19T09:30:29,910 src/pgenlib/pgenlib.cpp:24224:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,911 24224 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,911 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,912 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,913 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,914 | ^ 2024-06-19T09:30:29,914 src/pgenlib/pgenlib.cpp:24226:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,915 24226 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,916 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,916 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,917 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,918 | ^ 2024-06-19T09:30:29,918 src/pgenlib/pgenlib.cpp:24228:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,919 24228 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,919 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,920 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,921 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,921 | ^ 2024-06-19T09:30:29,922 src/pgenlib/pgenlib.cpp:24230:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,922 24230 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,923 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,925 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,926 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,927 | ^ 2024-06-19T09:30:29,927 src/pgenlib/pgenlib.cpp:24243:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,928 24243 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,928 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,930 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,931 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,931 | ^ 2024-06-19T09:30:29,931 src/pgenlib/pgenlib.cpp:24253:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,932 24253 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,932 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,935 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,935 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,936 | ^ 2024-06-19T09:30:29,937 src/pgenlib/pgenlib.cpp:24263:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,937 24263 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,937 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,940 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:29,941 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:29,941 | ^ 2024-06-19T09:30:29,942 src/pgenlib/pgenlib.cpp:24278:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:29,943 24278 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:29,944 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,957 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_list(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_list*)’: 2024-06-19T09:30:29,958 src/pgenlib/pgenlib.cpp:24649:106: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,959 24649 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,959 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,962 src/pgenlib/pgenlib.cpp:24705:106: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,963 24705 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[1]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:29,964 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,976 src/pgenlib/pgenlib.cpp:24946:104: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,977 24946 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:29,977 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:29,981 src/pgenlib/pgenlib.cpp:25002:104: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:29,982 25002 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[1]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:29,983 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,012 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_25read_alleles_list(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,012 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,013 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,013 | ^ 2024-06-19T09:30:30,014 src/pgenlib/pgenlib.cpp:25768:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,014 25768 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,015 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,016 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,016 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,017 | ^ 2024-06-19T09:30:30,017 src/pgenlib/pgenlib.cpp:25770:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,018 25770 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,018 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,020 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,021 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,022 | ^ 2024-06-19T09:30:30,022 src/pgenlib/pgenlib.cpp:25772:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,023 25772 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,024 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,025 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,026 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,027 | ^ 2024-06-19T09:30:30,027 src/pgenlib/pgenlib.cpp:25785:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,028 25785 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,028 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,030 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,031 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,032 | ^ 2024-06-19T09:30:30,032 src/pgenlib/pgenlib.cpp:25795:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,033 25795 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,034 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,036 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,037 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,037 | ^ 2024-06-19T09:30:30,038 src/pgenlib/pgenlib.cpp:25810:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,039 25810 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,040 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,058 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_and_phasepresent_range(__pyx_obj_7pgenlib_PgenReader*, uint32_t, uint32_t, PyArrayObject*, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_and_phasepresent_range*)’: 2024-06-19T09:30:30,059 src/pgenlib/pgenlib.cpp:26183:105: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,060 26183 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:30,060 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,063 src/pgenlib/pgenlib.cpp:26239:105: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,064 26239 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_phasepresent_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:30,065 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,069 src/pgenlib/pgenlib.cpp:26295:105: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,069 26295 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[1]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:30,070 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,074 src/pgenlib/pgenlib.cpp:26351:105: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,075 26351 | __pyx_t_9 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_phasepresent_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:30,076 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,096 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_27read_alleles_and_phasepresent_range(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,097 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,098 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,098 | ^ 2024-06-19T09:30:30,099 src/pgenlib/pgenlib.cpp:26641:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,099 26641 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,100 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,101 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,101 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,102 | ^ 2024-06-19T09:30:30,102 src/pgenlib/pgenlib.cpp:26643:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,103 26643 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,104 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,104 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,105 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,106 | ^ 2024-06-19T09:30:30,107 src/pgenlib/pgenlib.cpp:26645:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,107 26645 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,107 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,108 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,109 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,109 | ^ 2024-06-19T09:30:30,110 src/pgenlib/pgenlib.cpp:26647:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,110 26647 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,111 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,112 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,113 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,114 | ^ 2024-06-19T09:30:30,114 src/pgenlib/pgenlib.cpp:26649:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,114 26649 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,115 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,117 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,118 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,118 | ^ 2024-06-19T09:30:30,119 src/pgenlib/pgenlib.cpp:26662:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,120 26662 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,120 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,122 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,123 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,124 | ^ 2024-06-19T09:30:30,124 src/pgenlib/pgenlib.cpp:26672:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,125 26672 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,126 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,127 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,128 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,129 | ^ 2024-06-19T09:30:30,130 src/pgenlib/pgenlib.cpp:26682:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,130 26682 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,131 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,132 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,133 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,134 | ^ 2024-06-19T09:30:30,134 src/pgenlib/pgenlib.cpp:26692:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,135 26692 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,136 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,138 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,139 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,139 | ^ 2024-06-19T09:30:30,140 src/pgenlib/pgenlib.cpp:26707:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,141 26707 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,141 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,158 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_alleles_and_phasepresent_list(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, PyArrayObject*, int, __pyx_opt_args_7pgenlib_10PgenReader_read_alleles_and_phasepresent_list*)’: 2024-06-19T09:30:30,159 src/pgenlib/pgenlib.cpp:27076:106: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,160 27076 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:30,160 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,163 src/pgenlib/pgenlib.cpp:27132:106: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,164 27132 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_phasepresent_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:30,165 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,168 src/pgenlib/pgenlib.cpp:27188:106: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,169 27188 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_allele_int32_out))[1]) < (2 * __pyx_v_subset_size)); 2024-06-19T09:30:30,170 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,174 src/pgenlib/pgenlib.cpp:27244:106: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,174 27244 | __pyx_t_11 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_phasepresent_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:30,175 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,199 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_29read_alleles_and_phasepresent_list(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,200 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,201 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,201 | ^ 2024-06-19T09:30:30,202 src/pgenlib/pgenlib.cpp:27593:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,203 27593 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,203 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,204 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,205 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,205 | ^ 2024-06-19T09:30:30,206 src/pgenlib/pgenlib.cpp:27595:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,207 27595 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,208 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,208 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,209 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,209 | ^ 2024-06-19T09:30:30,210 src/pgenlib/pgenlib.cpp:27597:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,210 27597 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,211 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,212 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,213 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,214 | ^ 2024-06-19T09:30:30,214 src/pgenlib/pgenlib.cpp:27599:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,214 27599 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,215 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,217 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,218 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,218 | ^ 2024-06-19T09:30:30,219 src/pgenlib/pgenlib.cpp:27612:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,219 27612 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,220 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,222 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,223 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,223 | ^ 2024-06-19T09:30:30,224 src/pgenlib/pgenlib.cpp:27622:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,225 27622 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,225 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,227 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,228 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,229 | ^ 2024-06-19T09:30:30,229 src/pgenlib/pgenlib.cpp:27632:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,230 27632 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,231 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,233 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,233 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,234 | ^ 2024-06-19T09:30:30,235 src/pgenlib/pgenlib.cpp:27647:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,235 27647 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,236 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,289 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_31read_dosages_range(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,290 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,290 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,291 | ^ 2024-06-19T09:30:30,292 src/pgenlib/pgenlib.cpp:28742:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,293 28742 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,293 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,294 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,295 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,295 | ^ 2024-06-19T09:30:30,296 src/pgenlib/pgenlib.cpp:28744:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,296 28744 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,297 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,299 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,299 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,300 | ^ 2024-06-19T09:30:30,300 src/pgenlib/pgenlib.cpp:28746:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,300 28746 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,301 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,303 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,303 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,304 | ^ 2024-06-19T09:30:30,304 src/pgenlib/pgenlib.cpp:28748:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,305 28748 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,306 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,307 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,308 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,309 | ^ 2024-06-19T09:30:30,309 src/pgenlib/pgenlib.cpp:28750:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,310 28750 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,311 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,312 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,313 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,314 | ^ 2024-06-19T09:30:30,314 src/pgenlib/pgenlib.cpp:28763:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,315 28763 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,316 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,317 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,318 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,319 | ^ 2024-06-19T09:30:30,319 src/pgenlib/pgenlib.cpp:28773:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,320 28773 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,321 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,323 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,324 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,324 | ^ 2024-06-19T09:30:30,325 src/pgenlib/pgenlib.cpp:28783:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,326 28783 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,327 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,328 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,329 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,329 | ^ 2024-06-19T09:30:30,330 src/pgenlib/pgenlib.cpp:28790:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,330 28790 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,330 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,334 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,334 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,335 | ^ 2024-06-19T09:30:30,335 src/pgenlib/pgenlib.cpp:28805:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,335 28805 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,336 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,338 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,338 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,339 | ^ 2024-06-19T09:30:30,340 src/pgenlib/pgenlib.cpp:28807:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,340 28807 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,341 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,350 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_dosages_list_internal32(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_dosages_list_internal32*)’: 2024-06-19T09:30:30,351 src/pgenlib/pgenlib.cpp:29075:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,351 29075 | __pyx_t_6 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_floatarr_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:30,352 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,355 src/pgenlib/pgenlib.cpp:29131:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,356 29131 | __pyx_t_6 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_floatarr_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:30,356 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,376 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_f_7pgenlib_10PgenReader_read_dosages_list_internal64(__pyx_obj_7pgenlib_PgenReader*, PyArrayObject*, PyArrayObject*, __pyx_opt_args_7pgenlib_10PgenReader_read_dosages_list_internal64*)’: 2024-06-19T09:30:30,377 src/pgenlib/pgenlib.cpp:29592:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,378 29592 | __pyx_t_6 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_floatarr_out))[0]) < __pyx_v_variant_idx_ct); 2024-06-19T09:30:30,379 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,381 src/pgenlib/pgenlib.cpp:29648:101: warning: comparison of integer expressions of different signedness: ‘npy_intp’ {aka ‘int’} and ‘uint32_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-06-19T09:30:30,382 29648 | __pyx_t_6 = ((__pyx_f_5numpy_7ndarray_5shape_shape(((PyArrayObject *)__pyx_v_floatarr_out))[1]) < __pyx_v_subset_size); 2024-06-19T09:30:30,383 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,418 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_33read_dosages_list(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,419 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,419 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,420 | ^ 2024-06-19T09:30:30,420 src/pgenlib/pgenlib.cpp:30235:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,421 30235 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,421 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,423 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,423 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,424 | ^ 2024-06-19T09:30:30,424 src/pgenlib/pgenlib.cpp:30237:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,425 30237 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,425 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,427 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,428 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,428 | ^ 2024-06-19T09:30:30,429 src/pgenlib/pgenlib.cpp:30239:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,430 30239 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,430 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,431 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,432 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,433 | ^ 2024-06-19T09:30:30,434 src/pgenlib/pgenlib.cpp:30241:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,434 30241 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,435 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,437 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,437 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,438 | ^ 2024-06-19T09:30:30,439 src/pgenlib/pgenlib.cpp:30254:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,439 30254 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,440 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,442 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,443 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,443 | ^ 2024-06-19T09:30:30,444 src/pgenlib/pgenlib.cpp:30264:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,445 30264 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,446 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,447 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,448 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,448 | ^ 2024-06-19T09:30:30,449 src/pgenlib/pgenlib.cpp:30271:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,449 30271 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,450 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,453 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,454 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,454 | ^ 2024-06-19T09:30:30,455 src/pgenlib/pgenlib.cpp:30286:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,455 30286 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,455 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,457 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,458 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,459 | ^ 2024-06-19T09:30:30,459 src/pgenlib/pgenlib.cpp:30288:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,460 30288 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,460 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,506 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_35count(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,507 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,507 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,508 | ^ 2024-06-19T09:30:30,509 src/pgenlib/pgenlib.cpp:31425:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,509 31425 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,510 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,511 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,512 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,512 | ^ 2024-06-19T09:30:30,513 src/pgenlib/pgenlib.cpp:31427:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,513 31427 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,514 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,516 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,516 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,517 | ^ 2024-06-19T09:30:30,517 src/pgenlib/pgenlib.cpp:31429:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,518 31429 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,519 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,521 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,522 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,523 | ^ 2024-06-19T09:30:30,524 src/pgenlib/pgenlib.cpp:31442:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,525 31442 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,525 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,527 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,528 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,528 | ^ 2024-06-19T09:30:30,529 src/pgenlib/pgenlib.cpp:31452:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,529 31452 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,530 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,533 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,534 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,535 | ^ 2024-06-19T09:30:30,535 src/pgenlib/pgenlib.cpp:31467:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,536 31467 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,536 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,552 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_37change_sample_subset(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,553 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,553 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,554 | ^ 2024-06-19T09:30:30,554 src/pgenlib/pgenlib.cpp:31780:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,555 31780 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,556 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,558 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,559 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,560 | ^ 2024-06-19T09:30:30,561 src/pgenlib/pgenlib.cpp:31800:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,561 31800 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,562 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,584 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_41__exit__(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,585 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,585 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,586 | ^ 2024-06-19T09:30:30,587 src/pgenlib/pgenlib.cpp:32471:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,587 32471 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,588 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,589 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,589 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,590 | ^ 2024-06-19T09:30:30,591 src/pgenlib/pgenlib.cpp:32473:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,591 32473 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,592 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,594 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,594 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,595 | ^ 2024-06-19T09:30:30,596 src/pgenlib/pgenlib.cpp:32475:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,596 32475 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,597 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,599 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,600 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,601 | ^ 2024-06-19T09:30:30,601 src/pgenlib/pgenlib.cpp:32488:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,602 32488 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,602 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,605 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,606 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,606 | ^ 2024-06-19T09:30:30,607 src/pgenlib/pgenlib.cpp:32498:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,607 32498 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,608 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,620 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenReader_47__setstate_cython__(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,620 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,621 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,622 | ^ 2024-06-19T09:30:30,622 src/pgenlib/pgenlib.cpp:32948:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,623 32948 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,624 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,633 src/pgenlib/pgenlib.cpp: In function ‘int __pyx_pw_7pgenlib_10PgenWriter_1__cinit__(PyObject*, PyObject*, PyObject*)’: 2024-06-19T09:30:30,634 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,634 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,635 | ^ 2024-06-19T09:30:30,636 src/pgenlib/pgenlib.cpp:33161:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,636 33161 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,637 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,638 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,639 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,640 | ^ 2024-06-19T09:30:30,640 src/pgenlib/pgenlib.cpp:33163:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,641 33163 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,641 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,644 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,644 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,645 | ^ 2024-06-19T09:30:30,646 src/pgenlib/pgenlib.cpp:33165:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,647 33165 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,647 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,649 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,650 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,650 | ^ 2024-06-19T09:30:30,651 src/pgenlib/pgenlib.cpp:33167:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,651 33167 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,651 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,654 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,655 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,655 | ^ 2024-06-19T09:30:30,656 src/pgenlib/pgenlib.cpp:33169:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,656 33169 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,657 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,659 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,660 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,660 | ^ 2024-06-19T09:30:30,661 src/pgenlib/pgenlib.cpp:33171:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,661 33171 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,662 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,664 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,665 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,666 | ^ 2024-06-19T09:30:30,666 src/pgenlib/pgenlib.cpp:33173:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,667 33173 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,668 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,670 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,670 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,671 | ^ 2024-06-19T09:30:30,672 src/pgenlib/pgenlib.cpp:33175:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,672 33175 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,673 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,675 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,676 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,676 | ^ 2024-06-19T09:30:30,677 src/pgenlib/pgenlib.cpp:33177:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,677 33177 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,678 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,681 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,682 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,683 | ^ 2024-06-19T09:30:30,683 src/pgenlib/pgenlib.cpp:33190:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,684 33190 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,684 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,687 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,688 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,689 | ^ 2024-06-19T09:30:30,689 src/pgenlib/pgenlib.cpp:33200:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,689 33200 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,690 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,693 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,694 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,694 | ^ 2024-06-19T09:30:30,695 src/pgenlib/pgenlib.cpp:33207:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,695 33207 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,696 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,699 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,699 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,700 | ^ 2024-06-19T09:30:30,700 src/pgenlib/pgenlib.cpp:33214:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,701 33214 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,701 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,705 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,705 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,706 | ^ 2024-06-19T09:30:30,707 src/pgenlib/pgenlib.cpp:33221:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,707 33221 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,708 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,710 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,711 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,712 | ^ 2024-06-19T09:30:30,712 src/pgenlib/pgenlib.cpp:33228:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,713 33228 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,713 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,716 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,717 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,718 | ^ 2024-06-19T09:30:30,718 src/pgenlib/pgenlib.cpp:33235:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,719 33235 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,719 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,722 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,723 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,724 | ^ 2024-06-19T09:30:30,724 src/pgenlib/pgenlib.cpp:33242:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,725 33242 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,726 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,729 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,729 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,730 | ^ 2024-06-19T09:30:30,730 src/pgenlib/pgenlib.cpp:33257:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,730 33257 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,731 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,733 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,734 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,734 | ^ 2024-06-19T09:30:30,735 src/pgenlib/pgenlib.cpp:33259:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,735 33259 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,736 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,738 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,738 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,739 | ^ 2024-06-19T09:30:30,739 src/pgenlib/pgenlib.cpp:33261:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,740 33261 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,740 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,743 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,743 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,744 | ^ 2024-06-19T09:30:30,744 src/pgenlib/pgenlib.cpp:33263:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,745 33263 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,746 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,747 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,748 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,749 | ^ 2024-06-19T09:30:30,750 src/pgenlib/pgenlib.cpp:33265:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,750 33265 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,751 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,752 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,753 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,753 | ^ 2024-06-19T09:30:30,754 src/pgenlib/pgenlib.cpp:33267:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,754 33267 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,755 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,757 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,758 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,758 | ^ 2024-06-19T09:30:30,759 src/pgenlib/pgenlib.cpp:33269:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,760 33269 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,761 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,806 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_5append_biallelic(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,806 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,807 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,808 | ^ 2024-06-19T09:30:30,808 src/pgenlib/pgenlib.cpp:34741:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,809 34741 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,809 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,839 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_7append_alleles(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,839 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,840 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,840 | ^ 2024-06-19T09:30:30,841 src/pgenlib/pgenlib.cpp:35564:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,841 35564 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,842 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,844 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,844 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,846 | ^ 2024-06-19T09:30:30,846 src/pgenlib/pgenlib.cpp:35566:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,847 35566 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,848 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,849 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,850 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,850 | ^ 2024-06-19T09:30:30,851 src/pgenlib/pgenlib.cpp:35568:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,852 35568 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,852 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,855 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,856 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,857 | ^ 2024-06-19T09:30:30,857 src/pgenlib/pgenlib.cpp:35581:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,858 35581 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,858 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,861 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,862 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,863 | ^ 2024-06-19T09:30:30,863 src/pgenlib/pgenlib.cpp:35588:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,864 35588 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,865 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,868 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,869 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,870 | ^ 2024-06-19T09:30:30,870 src/pgenlib/pgenlib.cpp:35603:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,871 35603 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,871 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,873 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,874 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,875 | ^ 2024-06-19T09:30:30,875 src/pgenlib/pgenlib.cpp:35605:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,876 35605 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,876 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,907 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_9append_partially_phased(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,908 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,908 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,909 | ^ 2024-06-19T09:30:30,909 src/pgenlib/pgenlib.cpp:36357:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,910 36357 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,910 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,913 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,914 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,914 | ^ 2024-06-19T09:30:30,915 src/pgenlib/pgenlib.cpp:36359:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,915 36359 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,916 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,918 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,919 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,920 | ^ 2024-06-19T09:30:30,921 src/pgenlib/pgenlib.cpp:36361:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,922 36361 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,922 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,925 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,926 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,927 | ^ 2024-06-19T09:30:30,927 src/pgenlib/pgenlib.cpp:36374:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,928 36374 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,928 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,931 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,932 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,933 | ^ 2024-06-19T09:30:30,933 src/pgenlib/pgenlib.cpp:36384:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,934 36384 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,935 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,938 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,939 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,939 | ^ 2024-06-19T09:30:30,940 src/pgenlib/pgenlib.cpp:36399:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,940 36399 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,941 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:30,978 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_11append_dosages(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:30,978 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:30,979 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:30,979 | ^ 2024-06-19T09:30:30,980 src/pgenlib/pgenlib.cpp:37152:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:30,981 37152 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:30,981 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,014 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_13append_biallelic_batch(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:31,015 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,016 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,016 | ^ 2024-06-19T09:30:31,017 src/pgenlib/pgenlib.cpp:37525:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,017 37525 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,018 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,057 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_15append_alleles_batch(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:31,057 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,058 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,059 | ^ 2024-06-19T09:30:31,059 src/pgenlib/pgenlib.cpp:38605:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,060 38605 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,061 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,062 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,063 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,064 | ^ 2024-06-19T09:30:31,064 src/pgenlib/pgenlib.cpp:38607:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,065 38607 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,066 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,068 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,069 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,069 | ^ 2024-06-19T09:30:31,070 src/pgenlib/pgenlib.cpp:38609:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,071 38609 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,071 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,075 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,075 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,076 | ^ 2024-06-19T09:30:31,077 src/pgenlib/pgenlib.cpp:38622:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,077 38622 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,078 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,081 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,081 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,082 | ^ 2024-06-19T09:30:31,082 src/pgenlib/pgenlib.cpp:38629:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,083 38629 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,083 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,088 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,088 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,089 | ^ 2024-06-19T09:30:31,089 src/pgenlib/pgenlib.cpp:38644:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,090 38644 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,090 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,093 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,094 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,094 | ^ 2024-06-19T09:30:31,095 src/pgenlib/pgenlib.cpp:38646:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,096 38646 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,097 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,128 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_17append_partially_phased_batch(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:31,129 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,129 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,130 | ^ 2024-06-19T09:30:31,131 src/pgenlib/pgenlib.cpp:39433:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,132 39433 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,132 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,134 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,134 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,135 | ^ 2024-06-19T09:30:31,136 src/pgenlib/pgenlib.cpp:39435:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,136 39435 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,137 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,140 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,141 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,141 | ^ 2024-06-19T09:30:31,142 src/pgenlib/pgenlib.cpp:39437:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,143 39437 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,143 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,147 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,148 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,148 | ^ 2024-06-19T09:30:31,149 src/pgenlib/pgenlib.cpp:39450:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,149 39450 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,150 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,154 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,155 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,155 | ^ 2024-06-19T09:30:31,156 src/pgenlib/pgenlib.cpp:39460:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,156 39460 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,157 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,161 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,162 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,163 | ^ 2024-06-19T09:30:31,163 src/pgenlib/pgenlib.cpp:39475:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,164 39475 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,164 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,203 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_19append_dosages_batch(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:31,204 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,205 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,205 | ^ 2024-06-19T09:30:31,206 src/pgenlib/pgenlib.cpp:40288:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,207 40288 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,208 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,236 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_23__exit__(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:31,237 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,238 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,238 | ^ 2024-06-19T09:30:31,239 src/pgenlib/pgenlib.cpp:40905:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,239 40905 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,240 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,242 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,243 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,244 | ^ 2024-06-19T09:30:31,244 src/pgenlib/pgenlib.cpp:40907:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,245 40907 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,246 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,248 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,249 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,250 | ^ 2024-06-19T09:30:31,250 src/pgenlib/pgenlib.cpp:40909:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,251 40909 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,251 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,255 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,256 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,257 | ^ 2024-06-19T09:30:31,257 src/pgenlib/pgenlib.cpp:40922:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,257 40922 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,258 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,262 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,263 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,263 | ^ 2024-06-19T09:30:31,264 src/pgenlib/pgenlib.cpp:40932:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,265 40932 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,265 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,280 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __pyx_pw_7pgenlib_10PgenWriter_29__setstate_cython__(PyObject*, PyObject* const*, Py_ssize_t, PyObject*)’: 2024-06-19T09:30:31,281 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,281 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,282 | ^ 2024-06-19T09:30:31,283 src/pgenlib/pgenlib.cpp:41343:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,283 41343 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,284 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,516 src/pgenlib/pgenlib.cpp: In function ‘const char* __Pyx_BufFmt_CheckString(__Pyx_BufFmt_Context*, const char*)’: 2024-06-19T09:30:31,517 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,517 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,518 | ^ 2024-06-19T09:30:31,518 src/pgenlib/pgenlib.cpp:46440:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,519 46440 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,520 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,523 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,524 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,525 | ^ 2024-06-19T09:30:31,526 src/pgenlib/pgenlib.cpp:46453:9: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,526 46453 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,527 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,538 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __Pyx_PyInt_MultiplyCObj(PyObject*, PyObject*, long int, int, int)’: 2024-06-19T09:30:31,539 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,539 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,540 | ^ 2024-06-19T09:30:31,541 src/pgenlib/pgenlib.cpp:46581:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,541 46581 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,542 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,545 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,546 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,546 | ^ 2024-06-19T09:30:31,547 src/pgenlib/pgenlib.cpp:46592:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,547 46592 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,548 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,553 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,553 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,554 | ^ 2024-06-19T09:30:31,554 src/pgenlib/pgenlib.cpp:46603:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,555 46603 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,555 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,560 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,561 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,561 | ^ 2024-06-19T09:30:31,562 src/pgenlib/pgenlib.cpp:46614:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,562 46614 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,563 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,568 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,569 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,569 | ^ 2024-06-19T09:30:31,570 src/pgenlib/pgenlib.cpp:46625:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,571 46625 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,571 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,576 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,576 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,577 | ^ 2024-06-19T09:30:31,578 src/pgenlib/pgenlib.cpp:46636:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,579 46636 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,579 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,591 src/pgenlib/pgenlib.cpp: In function ‘PyObject* __Pyx_PyInt_AddObjC(PyObject*, PyObject*, long int, int, int)’: 2024-06-19T09:30:31,592 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,592 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,593 | ^ 2024-06-19T09:30:31,594 src/pgenlib/pgenlib.cpp:46814:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,594 46814 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,595 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,598 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,599 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,600 | ^ 2024-06-19T09:30:31,600 src/pgenlib/pgenlib.cpp:46825:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,601 46825 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,601 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,605 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,606 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,606 | ^ 2024-06-19T09:30:31,607 src/pgenlib/pgenlib.cpp:46836:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,607 46836 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,608 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,612 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,613 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,614 | ^ 2024-06-19T09:30:31,614 src/pgenlib/pgenlib.cpp:46847:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,615 46847 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,615 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,620 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,620 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,621 | ^ 2024-06-19T09:30:31,622 src/pgenlib/pgenlib.cpp:46858:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,623 46858 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,623 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:30:31,627 src/pgenlib/pgenlib.cpp:591:55: warning: C++11 attributes only available with ‘-std=c++11’ or ‘-std=gnu++11’ [-Wc++11-extensions] 2024-06-19T09:30:31,628 591 | #define CYTHON_FALLTHROUGH [[gnu::fallthrough]] 2024-06-19T09:30:31,629 | ^ 2024-06-19T09:30:31,630 src/pgenlib/pgenlib.cpp:46869:21: note: in expansion of macro ‘CYTHON_FALLTHROUGH’ 2024-06-19T09:30:31,630 46869 | CYTHON_FALLTHROUGH; 2024-06-19T09:30:31,631 | ^~~~~~~~~~~~~~~~~~ 2024-06-19T09:31:26,589 At global scope: 2024-06-19T09:31:26,589 cc1plus: note: unrecognized command-line option ‘-Wno-macro-redefined’ may have been intended to silence earlier diagnostics 2024-06-19T09:31:29,509 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/pgenlib_misc.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/pgenlib_misc.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:31:33,767 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/pgenlib_read.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/pgenlib_read.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:31:50,589 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/pgenlib_write.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/pgenlib_write.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:31:54,708 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_base.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_base.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:31:55,329 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_bgzf.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_bgzf.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:31:56,920 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_bits.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_bits.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:31:59,171 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_string.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_string.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:32:05,800 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_text.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_text.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:32:07,975 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_thread.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_thread.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:32:08,493 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/include/plink2_zstfile.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_zstfile.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:32:08,901 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/pgenlib_ffi_support.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/pgenlib_ffi_support.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:32:10,501 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Isrc/pgenlib -I/tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include -Isrc/plink2/libdeflate -I/usr/include/python3.11 -c src/plink2/pvar_ffi_support.cc -o build/temp.linux-armv7l-cpython-311/src/plink2/pvar_ffi_support.o -std=c++98 -Wno-unused-function -Wno-macro-redefined -DZSTD_DISABLE_ASM -DLIBDEFLATE_STATIC 2024-06-19T09:32:11,926 creating build/lib.linux-armv7l-cpython-311 2024-06-19T09:32:11,927 arm-linux-gnueabihf-g++ -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/src/pgenlib/pgenlib.o build/temp.linux-armv7l-cpython-311/src/plink2/include/pgenlib_misc.o build/temp.linux-armv7l-cpython-311/src/plink2/include/pgenlib_read.o build/temp.linux-armv7l-cpython-311/src/plink2/include/pgenlib_write.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_base.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_bgzf.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_bits.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_string.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_text.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_thread.o build/temp.linux-armv7l-cpython-311/src/plink2/include/plink2_zstfile.o build/temp.linux-armv7l-cpython-311/src/plink2/pgenlib_ffi_support.o build/temp.linux-armv7l-cpython-311/src/plink2/pvar_ffi_support.o -L/usr/lib/arm-linux-gnueabihf -Lbuild/temp.linux-armv7l-cpython-311 -lclib -o build/lib.linux-armv7l-cpython-311/pgenlib.cpython-311-arm-linux-gnueabihf.so -std=c++98 -lz 2024-06-19T09:32:12,477 installing to build/bdist.linux-armv7l/wheel 2024-06-19T09:32:12,478 running install 2024-06-19T09:32:12,502 running install_lib 2024-06-19T09:32:12,510 creating build/bdist.linux-armv7l 2024-06-19T09:32:12,510 creating build/bdist.linux-armv7l/wheel 2024-06-19T09:32:12,512 copying build/lib.linux-armv7l-cpython-311/pgenlib.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2024-06-19T09:32:12,593 running install_egg_info 2024-06-19T09:32:12,604 running egg_info 2024-06-19T09:32:12,609 writing src/Pgenlib.egg-info/PKG-INFO 2024-06-19T09:32:12,611 writing dependency_links to src/Pgenlib.egg-info/dependency_links.txt 2024-06-19T09:32:12,613 writing requirements to src/Pgenlib.egg-info/requires.txt 2024-06-19T09:32:12,614 writing top-level names to src/Pgenlib.egg-info/top_level.txt 2024-06-19T09:32:12,617 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:32:12,618 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/arrayscalars.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:32:12,618 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarrayobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:32:12,619 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ndarraytypes.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:32:12,620 dependency /tmp/pip-build-env-pz2y6yp4/overlay/local/lib/python3.11/dist-packages/numpy/_core/include/numpy/ufuncobject.h won't be automatically included in the manifest: the path must be relative 2024-06-19T09:32:12,631 reading manifest file 'src/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:32:12,651 reading manifest template 'MANIFEST.in' 2024-06-19T09:32:12,660 adding license file 'LICENSE' 2024-06-19T09:32:12,668 writing manifest file 'src/Pgenlib.egg-info/SOURCES.txt' 2024-06-19T09:32:12,670 Copying src/Pgenlib.egg-info to build/bdist.linux-armv7l/wheel/Pgenlib-0.91.0-py3.11.egg-info 2024-06-19T09:32:12,680 running install_scripts 2024-06-19T09:32:12,725 creating build/bdist.linux-armv7l/wheel/Pgenlib-0.91.0.dist-info/WHEEL 2024-06-19T09:32:12,728 creating '/tmp/pip-wheel-5khovt__/.tmp-g5ue8wc5/Pgenlib-0.91.0-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-06-19T09:32:13,746 adding 'pgenlib.cpython-311-arm-linux-gnueabihf.so' 2024-06-19T09:32:13,781 adding 'Pgenlib-0.91.0.dist-info/LICENSE' 2024-06-19T09:32:13,782 adding 'Pgenlib-0.91.0.dist-info/METADATA' 2024-06-19T09:32:13,783 adding 'Pgenlib-0.91.0.dist-info/WHEEL' 2024-06-19T09:32:13,784 adding 'Pgenlib-0.91.0.dist-info/top_level.txt' 2024-06-19T09:32:13,785 adding 'Pgenlib-0.91.0.dist-info/RECORD' 2024-06-19T09:32:13,812 removing build/bdist.linux-armv7l/wheel 2024-06-19T09:32:13,980 Building wheel for pgenlib (pyproject.toml): finished with status 'done' 2024-06-19T09:32:14,036 Created wheel for pgenlib: filename=Pgenlib-0.91.0-cp311-cp311-linux_armv7l.whl size=2230711 sha256=8f9600f0e86d953fb7d0e52dda5c1207dd7bd506f3877b36616115409bd9fbb2 2024-06-19T09:32:14,038 Stored in directory: /tmp/pip-ephem-wheel-cache-m98pdwrm/wheels/ae/b5/23/1bf0e00fcc271dc30f871711faad25e5676527956a69fb33de 2024-06-19T09:32:14,048 Successfully built pgenlib 2024-06-19T09:32:14,105 Removed build tracker: '/tmp/pip-build-tracker-i6642apo'