2024-11-19T03:56:58,590 Created temporary directory: /tmp/pip-build-tracker-2880jsxl 2024-11-19T03:56:58,591 Initialized build tracking at /tmp/pip-build-tracker-2880jsxl 2024-11-19T03:56:58,592 Created build tracker: /tmp/pip-build-tracker-2880jsxl 2024-11-19T03:56:58,593 Entered build tracker: /tmp/pip-build-tracker-2880jsxl 2024-11-19T03:56:58,593 Created temporary directory: /tmp/pip-wheel-ow2ijiic 2024-11-19T03:56:58,597 Created temporary directory: /tmp/pip-ephem-wheel-cache-6b4a46b4 2024-11-19T03:56:58,644 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-11-19T03:56:58,647 2 location(s) to search for versions of kssdtree: 2024-11-19T03:56:58,647 * https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:58,647 * https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:58,648 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:58,648 Getting page https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:58,650 Found index url https://pypi.org/simple/ 2024-11-19T03:56:58,870 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2024-11-19T03:56:58,874 Found link https://files.pythonhosted.org/packages/d5/1e/9e5c5945a44bb40002d1c259f734a531999fa6e87db89fe7c7ddcfc583cc/kssdtree-1.1.1.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.1 2024-11-19T03:56:58,875 Found link https://files.pythonhosted.org/packages/9a/4c/6516f734f5860e4b30f9091aaac5811663bfae72c4de4ae6566c89192767/kssdtree-1.1.2.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.2 2024-11-19T03:56:58,875 Found link https://files.pythonhosted.org/packages/a4/cd/f2954686c636e853cc3fda197c459195377b78288874cf7d68218a8bdbf4/kssdtree-1.1.3.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.3 2024-11-19T03:56:58,876 Found link https://files.pythonhosted.org/packages/20/ea/b0301924e3f7d367cbb7b8da66837dba9af2a332bf56ed35e03a33faee76/kssdtree-1.1.4.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.4 2024-11-19T03:56:58,876 Found link https://files.pythonhosted.org/packages/41/65/ed35110b84bc0dd02b9add0104f10160754d2ea0882191767d512146a884/kssdtree-1.1.6.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.6 2024-11-19T03:56:58,877 Found link https://files.pythonhosted.org/packages/cd/4b/d886cbcc573ff0969da7d9c756049925b86141e60ee6708dfbbe0644d008/kssdtree-1.1.7.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.7 2024-11-19T03:56:58,878 Found link https://files.pythonhosted.org/packages/7e/8a/a62c8adc92df69ab8cb242827ee64a3e2b6d5c89b83425785dd00605af17/kssdtree-1.1.8.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.8 2024-11-19T03:56:58,878 Found link https://files.pythonhosted.org/packages/da/db/e458cca6427752c05428d2378ccdee631d32f760174fdaba65f73125e71b/kssdtree-1.1.9.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.9 2024-11-19T03:56:58,879 Found link https://files.pythonhosted.org/packages/9d/47/017180a30e73e421372377cbe6d01c5e51a5108ea2177f20ccd7d283f8d1/kssdtree-2.0.0.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.0 2024-11-19T03:56:58,879 Found link https://files.pythonhosted.org/packages/ba/39/d443cac955912a0371c93b797311cb9ec3a8d6ee0a5d7673376d826aa6b2/kssdtree-2.0.1.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.1 2024-11-19T03:56:58,880 Found link https://files.pythonhosted.org/packages/2e/32/e53c0e3735cbc913b2c96b4e0e1c1005fe816a4d71b38b80cdcfb5c67fa8/kssdtree-2.0.2.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.2 2024-11-19T03:56:58,881 Found link https://files.pythonhosted.org/packages/c0/0f/effc10c8e76dbe3b9a35a4b4d9e65a0a889ee805e10334541c3ca7ae3b94/kssdtree-2.0.3.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.3 2024-11-19T03:56:58,881 Found link https://files.pythonhosted.org/packages/fc/8d/d3790baa2f2f0a01c913005b94a82dc13ef601e7015e662ccff94bb1b458/kssdtree-2.0.4.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.4 2024-11-19T03:56:58,882 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:58,883 Getting page https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:58,884 Found index url https://www.piwheels.org/simple/ 2024-11-19T03:56:59,045 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2024-11-19T03:56:59,059 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp311-cp311-linux_armv6l.whl#sha256=ae7417e30efd12d8c6800d4167141c94a93f1ce51afd5ae9196cdfb6057ca7d2 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,059 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp311-cp311-linux_armv7l.whl#sha256=ae7417e30efd12d8c6800d4167141c94a93f1ce51afd5ae9196cdfb6057ca7d2 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,060 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp39-cp39-linux_armv6l.whl#sha256=599ca3576cae9c0ef5ce475baaee98faa1478f8fd034062ddf88f823c9c91b10 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,060 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp39-cp39-linux_armv7l.whl#sha256=599ca3576cae9c0ef5ce475baaee98faa1478f8fd034062ddf88f823c9c91b10 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,061 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.1-cp311-cp311-linux_armv6l.whl#sha256=8b8c3190a5a4a010758772e9d53c3c12436541437bc9c503bec9a8f6a007cdcc (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,061 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.1-cp311-cp311-linux_armv7l.whl#sha256=8b8c3190a5a4a010758772e9d53c3c12436541437bc9c503bec9a8f6a007cdcc (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,062 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp311-cp311-linux_armv6l.whl#sha256=16a2e46376ed2874435371fd57a97405d4b631b35c014b9e395a4528a1e655b8 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,063 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp311-cp311-linux_armv7l.whl#sha256=16a2e46376ed2874435371fd57a97405d4b631b35c014b9e395a4528a1e655b8 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,063 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,065 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp39-cp39-linux_armv6l.whl#sha256=ab11dc15aca2923fe0d60bf11deb134bed4df89280b4ce40ca8e9bf3ca46b168 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,066 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp39-cp39-linux_armv7l.whl#sha256=ab11dc15aca2923fe0d60bf11deb134bed4df89280b4ce40ca8e9bf3ca46b168 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,066 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp39-cp39-linux_armv6l.whl#sha256=6b3f5b0e827056c7b589f4fb02c353408efa5892ef4df1c8a54b4cb30331754a (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,067 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,069 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp311-cp311-linux_armv7l.whl#sha256=388a8dabd657ea83e6d22b52300337c74e9d84e506806cfd4d2a76eb98777e17 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,070 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp39-cp39-linux_armv6l.whl#sha256=e1df896451d30c12e01aceb3eb91f0f7dfe0ee6f16fd66864fdefbc21cc54856 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,070 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp39-cp39-linux_armv7l.whl#sha256=e1df896451d30c12e01aceb3eb91f0f7dfe0ee6f16fd66864fdefbc21cc54856 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,071 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv6l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,071 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv7l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,072 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp39-cp39-linux_armv6l.whl#sha256=9defb70b5162efc2c0eb6e415a7e37c604aa9b248a006af86af8f59a3bce5d2b (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,073 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp39-cp39-linux_armv7l.whl#sha256=9defb70b5162efc2c0eb6e415a7e37c604aa9b248a006af86af8f59a3bce5d2b (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,073 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp37-cp37m-linux_armv6l.whl#sha256=ffef4ae0f634dd977cc2ec6798b9f36f73d788aca27bb7199f552d5513c34413 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,074 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp37-cp37m-linux_armv7l.whl#sha256=ffef4ae0f634dd977cc2ec6798b9f36f73d788aca27bb7199f552d5513c34413 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,074 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp311-cp311-linux_armv6l.whl#sha256=64b685362c3f9027bfeafdffb6a5d58c349a76fd551eeb7b98de146827463e75 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,075 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,077 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp311-cp311-linux_armv7l.whl#sha256=6b76f3b3f532934ad49a829e7bf8176af580f4687f1491c49c3f571bf081f961 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,077 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp37-cp37m-linux_armv6l.whl#sha256=d179f6c6c0ad4e0f06950e1609118b065b3476c47446325f6614bdbef5ede0d0 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,078 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp37-cp37m-linux_armv7l.whl#sha256=d179f6c6c0ad4e0f06950e1609118b065b3476c47446325f6614bdbef5ede0d0 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,078 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp39-cp39-linux_armv6l.whl#sha256=6df2298fa80eefa823153fa0b9db67e35da72da7f88c5949f4f637872ff22c3b (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,079 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp39-cp39-linux_armv7l.whl#sha256=6df2298fa80eefa823153fa0b9db67e35da72da7f88c5949f4f637872ff22c3b (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,079 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp311-cp311-linux_armv6l.whl#sha256=146b572fde14b0d0770e1c1cd90870ad6db4af293ade814fed7a49e3857f1444 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,080 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp311-cp311-linux_armv7l.whl#sha256=146b572fde14b0d0770e1c1cd90870ad6db4af293ade814fed7a49e3857f1444 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,080 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp37-cp37m-linux_armv6l.whl#sha256=8c0cc1974033765d6eeefdb635a506385b5f38e00361bd6de47ff1a83b07e12a (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,081 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp37-cp37m-linux_armv7l.whl#sha256=8c0cc1974033765d6eeefdb635a506385b5f38e00361bd6de47ff1a83b07e12a (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,081 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp39-cp39-linux_armv6l.whl#sha256=9f3fe3d3b4b4bde8b34a8f964ebde72f1efcc7833b9a0b34f6b9c8ff3ed595db (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,082 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp39-cp39-linux_armv7l.whl#sha256=9f3fe3d3b4b4bde8b34a8f964ebde72f1efcc7833b9a0b34f6b9c8ff3ed595db (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,083 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp311-cp311-linux_armv6l.whl#sha256=29b8e7f4a3e60084db855e6d587231253771ad57184a3265922d659512e136fb (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,083 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp311-cp311-linux_armv7l.whl#sha256=29b8e7f4a3e60084db855e6d587231253771ad57184a3265922d659512e136fb (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,083 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp37-cp37m-linux_armv6l.whl#sha256=34b00b40f17a95b2cc5cbabd880acc2c56996457b0acd265cace6966c10b9575 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,084 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp37-cp37m-linux_armv7l.whl#sha256=34b00b40f17a95b2cc5cbabd880acc2c56996457b0acd265cace6966c10b9575 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,084 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp39-cp39-linux_armv6l.whl#sha256=04471408d60c00f568404b1ab01ca89567b36a1aa50ef6041aceef07ed1e45f4 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,085 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp39-cp39-linux_armv7l.whl#sha256=04471408d60c00f568404b1ab01ca89567b36a1aa50ef6041aceef07ed1e45f4 (from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:59,086 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:59,086 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:59,106 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2024-11-19T03:56:59,108 Collecting kssdtree==2.0.4 2024-11-19T03:56:59,110 Created temporary directory: /tmp/pip-unpack-147piskj 2024-11-19T03:56:59,337 Downloading kssdtree-2.0.4.tar.gz (112 kB) 2024-11-19T03:56:59,555 Added kssdtree==2.0.4 from https://files.pythonhosted.org/packages/fc/8d/d3790baa2f2f0a01c913005b94a82dc13ef601e7015e662ccff94bb1b458/kssdtree-2.0.4.tar.gz to build tracker '/tmp/pip-build-tracker-2880jsxl' 2024-11-19T03:56:59,557 Running setup.py (path:/tmp/pip-wheel-ow2ijiic/kssdtree_97b2eefeeece4701a4b972a431cb4d4c/setup.py) egg_info for package kssdtree 2024-11-19T03:56:59,558 Created temporary directory: /tmp/pip-pip-egg-info-q661ztj7 2024-11-19T03:56:59,558 Preparing metadata (setup.py): started 2024-11-19T03:56:59,559 Running command python setup.py egg_info 2024-11-19T03:57:00,607 running egg_info 2024-11-19T03:57:00,635 creating /tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info 2024-11-19T03:57:00,636 writing /tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/PKG-INFO 2024-11-19T03:57:00,640 writing dependency_links to /tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/dependency_links.txt 2024-11-19T03:57:00,642 writing requirements to /tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/requires.txt 2024-11-19T03:57:00,643 writing top-level names to /tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/top_level.txt 2024-11-19T03:57:00,644 writing manifest file '/tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:57:00,755 reading manifest file '/tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:57:00,756 reading manifest template 'MANIFEST.in' 2024-11-19T03:57:00,774 writing manifest file '/tmp/pip-pip-egg-info-q661ztj7/kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:57:00,882 Preparing metadata (setup.py): finished with status 'done' 2024-11-19T03:57:00,886 Source in /tmp/pip-wheel-ow2ijiic/kssdtree_97b2eefeeece4701a4b972a431cb4d4c has version 2.0.4, which satisfies requirement kssdtree==2.0.4 from https://files.pythonhosted.org/packages/fc/8d/d3790baa2f2f0a01c913005b94a82dc13ef601e7015e662ccff94bb1b458/kssdtree-2.0.4.tar.gz 2024-11-19T03:57:00,887 Removed kssdtree==2.0.4 from https://files.pythonhosted.org/packages/fc/8d/d3790baa2f2f0a01c913005b94a82dc13ef601e7015e662ccff94bb1b458/kssdtree-2.0.4.tar.gz from build tracker '/tmp/pip-build-tracker-2880jsxl' 2024-11-19T03:57:00,891 Created temporary directory: /tmp/pip-unpack-08ck_380 2024-11-19T03:57:00,893 Created temporary directory: /tmp/pip-unpack-e495hjo5 2024-11-19T03:57:00,893 Building wheels for collected packages: kssdtree 2024-11-19T03:57:00,897 Created temporary directory: /tmp/pip-wheel-4vq_0y5e 2024-11-19T03:57:00,897 Building wheel for kssdtree (setup.py): started 2024-11-19T03:57:00,899 Destination directory: /tmp/pip-wheel-4vq_0y5e 2024-11-19T03:57:00,899 Running command python setup.py bdist_wheel 2024-11-19T03:57:01,940 running bdist_wheel 2024-11-19T03:57:02,069 running build 2024-11-19T03:57:02,069 running build_py 2024-11-19T03:57:02,098 creating build/lib.linux-armv7l-cpython-311 2024-11-19T03:57:02,099 copying kssdtree.py -> build/lib.linux-armv7l-cpython-311 2024-11-19T03:57:02,102 copying toolutils.py -> build/lib.linux-armv7l-cpython-311 2024-11-19T03:57:02,104 running egg_info 2024-11-19T03:57:02,131 writing kssdtree.egg-info/PKG-INFO 2024-11-19T03:57:02,134 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2024-11-19T03:57:02,136 writing requirements to kssdtree.egg-info/requires.txt 2024-11-19T03:57:02,137 writing top-level names to kssdtree.egg-info/top_level.txt 2024-11-19T03:57:02,166 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:57:02,171 reading manifest template 'MANIFEST.in' 2024-11-19T03:57:02,189 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:57:02,191 running build_ext 2024-11-19T03:57:02,640 building 'kssd' extension 2024-11-19T03:57:02,641 creating build/temp.linux-armv7l-cpython-311 2024-11-19T03:57:02,643 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c co2mco.c -o build/temp.linux-armv7l-cpython-311/co2mco.o -fopenmp 2024-11-19T03:57:02,813 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2024-11-19T03:57:02,814 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:02,815 109 | for (unsigned int i = 0; i < comp_num; i++) { 2024-11-19T03:57:02,815 | ^ 2024-11-19T03:57:02,818 co2mco.c: In function ‘co2unitllmco’: 2024-11-19T03:57:02,819 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:02,819 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2024-11-19T03:57:02,820 | ^ 2024-11-19T03:57:03,521 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_composite.c -o build/temp.linux-armv7l-cpython-311/command_composite.o -fopenmp 2024-11-19T03:57:03,900 command_composite.c: In function ‘get_species_abundance’: 2024-11-19T03:57:03,901 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-11-19T03:57:03,902 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2024-11-19T03:57:03,902 | ^~ 2024-11-19T03:57:03,903 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-11-19T03:57:03,904 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2024-11-19T03:57:03,905 | ^~ 2024-11-19T03:57:03,905 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:03,906 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-11-19T03:57:03,906 | ^ 2024-11-19T03:57:03,907 command_composite.c:64:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:03,907 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-11-19T03:57:03,908 | ^~~~~~~~~~ 2024-11-19T03:57:03,908 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:57:03,909 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-11-19T03:57:03,909 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:03,910 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:03,910 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-11-19T03:57:03,911 | ^ 2024-11-19T03:57:03,912 command_composite.c:70:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:03,913 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-11-19T03:57:03,913 | ^~~~~~~~~~ 2024-11-19T03:57:03,914 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:57:03,915 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-11-19T03:57:03,916 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:03,916 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:03,917 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:57:03,918 | ^ 2024-11-19T03:57:03,918 command_composite.c:76:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:03,919 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:57:03,920 | ^~~~~~~~~~ 2024-11-19T03:57:03,921 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:57:03,921 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:57:03,922 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:03,923 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:03,923 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-11-19T03:57:03,924 | ^ 2024-11-19T03:57:03,925 command_composite.c:82:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:03,925 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-11-19T03:57:03,926 | ^~~~~~~~~~ 2024-11-19T03:57:03,927 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:57:03,928 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-11-19T03:57:03,929 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:03,929 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:03,929 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:57:03,930 | ^ 2024-11-19T03:57:03,930 command_composite.c:88:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:03,931 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:57:03,931 | ^~~~~~~~~~~~ 2024-11-19T03:57:03,932 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2024-11-19T03:57:03,932 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:57:03,933 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,157 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_dist.c -o build/temp.linux-armv7l-cpython-311/command_dist.o -fopenmp 2024-11-19T03:57:04,392 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-11-19T03:57:04,393 command_dist.c:677:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:04,394 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:57:04,394 | ~~^ 2024-11-19T03:57:04,395 | | 2024-11-19T03:57:04,395 | long unsigned int 2024-11-19T03:57:04,396 | %u 2024-11-19T03:57:04,396 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:57:04,397 | ~~~~~~~ 2024-11-19T03:57:04,397 | | 2024-11-19T03:57:04,398 | size_t {aka unsigned int} 2024-11-19T03:57:04,399 command_dist.c:677:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:04,399 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:57:04,400 | ~~^ 2024-11-19T03:57:04,401 | | 2024-11-19T03:57:04,401 | long unsigned int 2024-11-19T03:57:04,402 | %u 2024-11-19T03:57:04,403 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:57:04,403 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:57:04,404 | ~~~~~~~~~ 2024-11-19T03:57:04,405 | | 2024-11-19T03:57:04,406 | size_t {aka unsigned int} 2024-11-19T03:57:04,407 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-11-19T03:57:04,408 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:57:04,409 | ~~^ 2024-11-19T03:57:04,409 | | 2024-11-19T03:57:04,410 | long unsigned int 2024-11-19T03:57:04,410 | %u 2024-11-19T03:57:04,410 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:57:04,411 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:57:04,411 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,412 | | 2024-11-19T03:57:04,412 | unsigned int 2024-11-19T03:57:04,413 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-11-19T03:57:04,413 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2024-11-19T03:57:04,413 | ^ 2024-11-19T03:57:04,414 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-11-19T03:57:04,414 command_dist.c:863:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:04,415 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-11-19T03:57:04,416 | ~~^ ~~~~~~~ 2024-11-19T03:57:04,416 | | | 2024-11-19T03:57:04,417 | long unsigned int size_t {aka unsigned int} 2024-11-19T03:57:04,418 | %u 2024-11-19T03:57:04,418 command_dist.c:863:93: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:04,419 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-11-19T03:57:04,420 | ~~^ 2024-11-19T03:57:04,421 | | 2024-11-19T03:57:04,421 | long unsigned int 2024-11-19T03:57:04,422 | %u 2024-11-19T03:57:04,422 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-11-19T03:57:04,423 | ~~~~~~~~~ 2024-11-19T03:57:04,423 | | 2024-11-19T03:57:04,424 | size_t {aka unsigned int} 2024-11-19T03:57:04,425 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-11-19T03:57:04,426 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-11-19T03:57:04,426 | ~~^ 2024-11-19T03:57:04,427 | | 2024-11-19T03:57:04,427 | long unsigned int 2024-11-19T03:57:04,428 | %u 2024-11-19T03:57:04,428 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-11-19T03:57:04,429 865 | (size_t) b * unitsz_distf_mapped); 2024-11-19T03:57:04,429 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,430 | | 2024-11-19T03:57:04,430 | unsigned int 2024-11-19T03:57:04,431 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2024-11-19T03:57:04,431 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2024-11-19T03:57:04,432 | ^~~~~~~ 2024-11-19T03:57:04,432 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2024-11-19T03:57:04,433 809 | struct stat cbd_fcode_stat; 2024-11-19T03:57:04,433 | ^~~~~~~~~~~~~~ 2024-11-19T03:57:04,434 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2024-11-19T03:57:04,435 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-11-19T03:57:04,435 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,436 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2024-11-19T03:57:04,437 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-11-19T03:57:04,437 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,438 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-11-19T03:57:04,438 command_dist.c:1018:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:04,439 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:57:04,440 | ~~^ 2024-11-19T03:57:04,441 | | 2024-11-19T03:57:04,441 | long unsigned int 2024-11-19T03:57:04,442 | %u 2024-11-19T03:57:04,442 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:57:04,443 | ~~~~~~~ 2024-11-19T03:57:04,443 | | 2024-11-19T03:57:04,444 | size_t {aka unsigned int} 2024-11-19T03:57:04,445 command_dist.c:1018:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:04,446 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:57:04,446 | ~~^ 2024-11-19T03:57:04,447 | | 2024-11-19T03:57:04,448 | long unsigned int 2024-11-19T03:57:04,448 | %u 2024-11-19T03:57:04,449 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:57:04,450 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:57:04,450 | ~~~~~~~~~ 2024-11-19T03:57:04,451 | | 2024-11-19T03:57:04,451 | size_t {aka unsigned int} 2024-11-19T03:57:04,452 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-11-19T03:57:04,453 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:57:04,453 | ~~^ 2024-11-19T03:57:04,454 | | 2024-11-19T03:57:04,454 | long unsigned int 2024-11-19T03:57:04,455 | %u 2024-11-19T03:57:04,456 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:57:04,456 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:57:04,457 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,457 | | 2024-11-19T03:57:04,458 | unsigned int 2024-11-19T03:57:04,459 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:04,459 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2024-11-19T03:57:04,460 | ^ 2024-11-19T03:57:04,461 command_dist.c: In function ‘mco_co_dist_core’: 2024-11-19T03:57:04,461 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-11-19T03:57:04,462 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2024-11-19T03:57:04,463 | ^ 2024-11-19T03:57:04,463 command_dist.c: In function ‘koc_dist_print_nobin’: 2024-11-19T03:57:04,464 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:04,465 1239 | for (int rid = 0; rid < ref_num; rid++) 2024-11-19T03:57:04,465 | ^ 2024-11-19T03:57:04,466 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:04,467 1245 | for (int rid = 0; rid < ref_num; rid++) { 2024-11-19T03:57:04,467 | ^ 2024-11-19T03:57:04,470 command_dist.c: In function ‘dist_print_nobin’: 2024-11-19T03:57:04,471 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:04,472 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2024-11-19T03:57:04,473 | ^ 2024-11-19T03:57:04,474 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:04,475 1356 | for (int rid = 0; rid < ref_num; rid++) { 2024-11-19T03:57:04,476 | ^ 2024-11-19T03:57:04,477 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:04,478 1382 | for (int rid = 0; rid < ref_num; rid++) 2024-11-19T03:57:04,478 | ^ 2024-11-19T03:57:04,838 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2024-11-19T03:57:04,839 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2024-11-19T03:57:04,839 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2024-11-19T03:57:04,840 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:04,841 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2024-11-19T03:57:04,841 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2024-11-19T03:57:04,842 | ^~~~~~~~~~~~ 2024-11-19T03:57:05,682 command_dist.c: In function ‘get_dim_shuffle’: 2024-11-19T03:57:05,683 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2024-11-19T03:57:05,683 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-11-19T03:57:05,684 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:05,684 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2024-11-19T03:57:05,685 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-11-19T03:57:05,686 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,589 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-11-19T03:57:06,590 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:06,591 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:57:06,591 | ^~ ~~~~~~~~~ 2024-11-19T03:57:06,592 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-11-19T03:57:06,593 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:57:06,593 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,594 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:06,594 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:57:06,595 | ^~~~~~~~~~~~~~~ 2024-11-19T03:57:06,595 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-11-19T03:57:06,596 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:57:06,597 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,597 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:06,598 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:57:06,598 | ^~~~~~~~~~~ 2024-11-19T03:57:06,599 command_dist.c:681:38: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:06,599 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:57:06,600 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,601 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-11-19T03:57:06,602 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:57:06,602 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,603 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:06,603 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:57:06,604 | ^~~~~ 2024-11-19T03:57:06,604 command_dist.c:682:32: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:06,605 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:57:06,605 | ^~~~~~~~~~~ 2024-11-19T03:57:06,606 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:57:06,607 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:57:06,607 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,842 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-11-19T03:57:06,844 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:06,844 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:57:06,845 | ^~ ~~~~~~~~~ 2024-11-19T03:57:06,845 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-11-19T03:57:06,846 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:57:06,847 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,847 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:06,848 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:57:06,849 | ^~~~~~~~~~~~~~~ 2024-11-19T03:57:06,849 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-11-19T03:57:06,850 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:57:06,850 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,851 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:06,852 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:57:06,853 | ^~~~~~~~~~~~~ 2024-11-19T03:57:06,853 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-11-19T03:57:06,854 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:57:06,854 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,855 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:06,855 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-11-19T03:57:06,856 | ^ 2024-11-19T03:57:06,857 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2024-11-19T03:57:06,857 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-11-19T03:57:06,858 | ^~~~~~~~~~ 2024-11-19T03:57:06,859 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-11-19T03:57:06,860 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-11-19T03:57:06,861 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:06,862 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:06,862 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-11-19T03:57:06,863 | ^ 2024-11-19T03:57:06,863 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2024-11-19T03:57:06,864 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-11-19T03:57:06,864 | ^~~~~~~~~~ 2024-11-19T03:57:06,865 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-11-19T03:57:06,865 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-11-19T03:57:06,866 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,124 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-11-19T03:57:07,125 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:07,126 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:57:07,126 | ^~ ~~~~~~~~~ 2024-11-19T03:57:07,127 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-11-19T03:57:07,127 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:57:07,128 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,128 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:07,129 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:57:07,129 | ^~~~~~~~~~~~~~~ 2024-11-19T03:57:07,130 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-11-19T03:57:07,130 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:57:07,131 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,132 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:07,132 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:57:07,133 | ^~~~~~~~~~~~~ 2024-11-19T03:57:07,134 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-11-19T03:57:07,134 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:57:07,135 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,135 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:07,136 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:57:07,137 | ^~~~~~~~~~~ 2024-11-19T03:57:07,137 command_dist.c:1022:38: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:07,138 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:57:07,138 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,139 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-11-19T03:57:07,139 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:57:07,140 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,141 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:57:07,142 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:57:07,142 | ^~~~~ 2024-11-19T03:57:07,143 command_dist.c:1023:32: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:07,143 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:57:07,144 | ^~~~~~~~~~~ 2024-11-19T03:57:07,144 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:57:07,145 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:57:07,145 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,415 command_dist.c: In function ‘combine_queries’: 2024-11-19T03:57:07,417 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:07,419 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-11-19T03:57:07,421 | ^ 2024-11-19T03:57:07,422 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:07,422 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-11-19T03:57:07,423 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,423 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:07,424 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-11-19T03:57:07,424 | ^ 2024-11-19T03:57:07,425 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:07,425 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-11-19T03:57:07,426 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,426 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:07,427 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-11-19T03:57:07,427 | ^~ ~~~~~~~~ 2024-11-19T03:57:07,428 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-11-19T03:57:07,429 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-11-19T03:57:07,429 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:07,922 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-311/command_dist_wrapper.o -fopenmp 2024-11-19T03:57:08,097 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_set.c -o build/temp.linux-armv7l-cpython-311/command_set.o -fopenmp 2024-11-19T03:57:08,270 command_set.c: In function ‘sketch_operate’: 2024-11-19T03:57:08,270 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-11-19T03:57:08,271 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2024-11-19T03:57:08,272 | ^ 2024-11-19T03:57:08,283 command_set.c: In function ‘combin_subset_pans’: 2024-11-19T03:57:08,284 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-11-19T03:57:08,284 457 | free(co_dstat_fpath); 2024-11-19T03:57:08,285 | ^~~~~~~~~~~~~~ 2024-11-19T03:57:08,285 In file included from kssdheaders/global_basic.h:159, 2024-11-19T03:57:08,286 from command_set.c:15: 2024-11-19T03:57:08,287 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-11-19T03:57:08,288 568 | extern void free (void *__ptr) __THROW; 2024-11-19T03:57:08,289 | ~~~~~~^~~~~ 2024-11-19T03:57:08,290 command_set.c: In function ‘grouping_genomes’: 2024-11-19T03:57:08,291 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-11-19T03:57:08,292 562 | free(co_dstat_fpath); 2024-11-19T03:57:08,292 | ^~~~~~~~~~~~~~ 2024-11-19T03:57:08,293 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-11-19T03:57:08,293 568 | extern void free (void *__ptr) __THROW; 2024-11-19T03:57:08,294 | ~~~~~~^~~~~ 2024-11-19T03:57:08,459 command_set.c: In function ‘sketch_union’: 2024-11-19T03:57:08,459 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:08,460 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,460 | ^ 2024-11-19T03:57:08,461 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:08,461 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,462 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,463 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,463 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:57:08,464 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,465 command_set.c:82:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,465 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:57:08,466 | ^~~~~~~~~~ 2024-11-19T03:57:08,467 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:08,468 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:57:08,468 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,469 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,470 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-11-19T03:57:08,470 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:08,471 command_set.c:92:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,472 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-11-19T03:57:08,472 | ^~~~~~~~~~ 2024-11-19T03:57:08,473 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:57:08,474 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-11-19T03:57:08,474 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,590 command_set.c: In function ‘sketch_operate’: 2024-11-19T03:57:08,591 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,592 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-11-19T03:57:08,592 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:08,593 command_set.c:153:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,593 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-11-19T03:57:08,594 | ^~~~~~~~~~ 2024-11-19T03:57:08,594 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:57:08,595 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-11-19T03:57:08,595 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,596 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,596 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-11-19T03:57:08,597 | ^~ ~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,597 command_set.c:155:29: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,598 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-11-19T03:57:08,599 | ^~~~~~~~~~ 2024-11-19T03:57:08,599 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-11-19T03:57:08,600 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-11-19T03:57:08,601 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,601 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,602 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:57:08,603 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,604 command_set.c:165:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,605 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:57:08,606 | ^~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,606 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:57:08,607 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:57:08,608 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,609 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,609 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:57:08,610 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,611 command_set.c:169:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,611 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:57:08,612 | ^~~~~~~~~~ 2024-11-19T03:57:08,613 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:08,613 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:57:08,614 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,615 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,616 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:57:08,616 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,617 command_set.c:174:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,617 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:57:08,618 | ^~~~~~~~~~ 2024-11-19T03:57:08,618 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:08,619 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:57:08,619 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,620 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,620 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:57:08,621 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,621 command_set.c:187:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,622 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:57:08,622 | ^~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,623 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:57:08,623 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:57:08,624 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,624 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:08,625 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,626 | ^ 2024-11-19T03:57:08,626 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:08,627 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,627 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,765 command_set.c: In function ‘uniq_sketch_union’: 2024-11-19T03:57:08,766 command_set.c:219:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:08,766 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2024-11-19T03:57:08,767 | ^ 2024-11-19T03:57:08,768 command_set.c:219:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2024-11-19T03:57:08,768 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2024-11-19T03:57:08,769 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,769 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:08,770 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,771 | ^ 2024-11-19T03:57:08,771 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:08,772 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,773 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,774 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,775 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:57:08,776 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,777 command_set.c:247:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,778 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:57:08,778 | ^~~~~~~~~~ 2024-11-19T03:57:08,779 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:08,780 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:57:08,780 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,781 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,781 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-11-19T03:57:08,782 | ^~ ~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,782 command_set.c:259:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:08,783 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-11-19T03:57:08,783 | ^~~~~~~~~~ 2024-11-19T03:57:08,784 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-11-19T03:57:08,784 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-11-19T03:57:08,785 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,911 command_set.c: In function ‘combin_pans’: 2024-11-19T03:57:08,912 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,912 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:08,913 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:08,913 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2024-11-19T03:57:08,914 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:08,915 | ^~~~~~~~~~ 2024-11-19T03:57:08,915 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2024-11-19T03:57:08,916 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:08,917 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,917 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:08,918 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:08,919 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:08,919 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2024-11-19T03:57:08,920 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:08,921 | ^~~~~~~~~~ 2024-11-19T03:57:08,921 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2024-11-19T03:57:08,922 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:08,923 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:08,923 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:08,924 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,925 | ^ 2024-11-19T03:57:08,926 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:08,926 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:08,927 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,129 command_set.c: In function ‘combin_subset_pans’: 2024-11-19T03:57:09,129 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,130 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:57:09,130 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:09,131 command_set.c:469:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,131 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:57:09,131 | ^~~~~~~~~~ 2024-11-19T03:57:09,132 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:09,132 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:57:09,133 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,133 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,133 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:57:09,134 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:09,134 command_set.c:475:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,135 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:57:09,135 | ^~~~~~~~~~ 2024-11-19T03:57:09,136 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:57:09,137 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:57:09,137 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,138 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,139 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:09,139 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:09,140 command_set.c:481:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,141 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:09,142 | ^~~~~~~~~~ 2024-11-19T03:57:09,142 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:09,143 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:09,143 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,144 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,145 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:09,145 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:09,146 command_set.c:512:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,146 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:09,147 | ^~~~~~~~~~ 2024-11-19T03:57:09,148 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:57:09,148 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:09,149 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,150 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:09,151 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:09,151 | ^ 2024-11-19T03:57:09,151 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:09,152 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:09,153 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,374 command_set.c: In function ‘grouping_genomes’: 2024-11-19T03:57:09,375 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,375 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:57:09,376 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:09,376 command_set.c:574:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,377 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:57:09,377 | ^~~~~~~~~~ 2024-11-19T03:57:09,378 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:09,378 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:57:09,378 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,379 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,379 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:57:09,380 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:09,381 command_set.c:580:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,381 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:57:09,382 | ^~~~~~~~~~ 2024-11-19T03:57:09,382 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:57:09,383 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:57:09,383 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,384 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,385 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:09,385 | ^~ ~~~~~~~~~~~ 2024-11-19T03:57:09,386 command_set.c:612:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,386 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:09,387 | ^~~~~~~~~~ 2024-11-19T03:57:09,388 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:57:09,388 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:57:09,389 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,390 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:57:09,390 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:09,391 | ^~ ~~~~~~~~~~ 2024-11-19T03:57:09,391 command_set.c:634:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:57:09,392 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:09,393 | ^~~~~~~~~~ 2024-11-19T03:57:09,393 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:57:09,394 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:57:09,394 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,395 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:57:09,395 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:09,396 | ^ 2024-11-19T03:57:09,396 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:57:09,397 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:57:09,397 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:09,671 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-311/command_shuffle.o -fopenmp 2024-11-19T03:57:10,002 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c global_basic.c -o build/temp.linux-armv7l-cpython-311/global_basic.o -fopenmp 2024-11-19T03:57:10,170 global_basic.c: In function ‘organize_infile_list’: 2024-11-19T03:57:10,171 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2024-11-19T03:57:10,171 195 | while (isspace(*buf)) buf++; 2024-11-19T03:57:10,172 | ^~~~~~~ 2024-11-19T03:57:10,173 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2024-11-19T03:57:10,173 34 | #include 2024-11-19T03:57:10,174 +++ |+#include 2024-11-19T03:57:10,175 35 | 2024-11-19T03:57:10,175 global_basic.c:201:69: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:10,176 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-11-19T03:57:10,177 | ~~^ 2024-11-19T03:57:10,177 | | 2024-11-19T03:57:10,178 | long unsigned int 2024-11-19T03:57:10,179 | %u 2024-11-19T03:57:10,179 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-11-19T03:57:10,180 | ~~~~~~~~~~~ 2024-11-19T03:57:10,181 | | 2024-11-19T03:57:10,181 | size_t {aka unsigned int} 2024-11-19T03:57:10,183 global_basic.c:233:69: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-11-19T03:57:10,184 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-11-19T03:57:10,185 | ~~^ 2024-11-19T03:57:10,186 | | 2024-11-19T03:57:10,187 | long unsigned int 2024-11-19T03:57:10,187 | %u 2024-11-19T03:57:10,188 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-11-19T03:57:10,189 | ~~~~~~~~~~~ 2024-11-19T03:57:10,189 | | 2024-11-19T03:57:10,190 | size_t {aka unsigned int} 2024-11-19T03:57:10,931 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c iseq2comem.c -o build/temp.linux-armv7l-cpython-311/iseq2comem.o -fopenmp 2024-11-19T03:57:11,110 iseq2comem.c: In function ‘reads2mco’: 2024-11-19T03:57:11,110 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,111 156 | if (base > TL) { 2024-11-19T03:57:11,111 | ^ 2024-11-19T03:57:11,112 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,113 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,114 | ^~ 2024-11-19T03:57:11,115 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,115 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,116 | ^ 2024-11-19T03:57:11,117 iseq2comem.c: In function ‘fasta2co’: 2024-11-19T03:57:11,118 iseq2comem.c:239:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,119 239 | if (base > TL) { 2024-11-19T03:57:11,120 | ^ 2024-11-19T03:57:11,120 iseq2comem.c:243:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,121 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,122 | ^~ 2024-11-19T03:57:11,123 iseq2comem.c:243:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,123 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,124 | ^ 2024-11-19T03:57:11,125 iseq2comem.c: In function ‘fastq2co’: 2024-11-19T03:57:11,125 iseq2comem.c:272:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2024-11-19T03:57:11,126 272 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2024-11-19T03:57:11,126 | ^~ 2024-11-19T03:57:11,127 iseq2comem.c:318:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,128 318 | if (base > TL) { 2024-11-19T03:57:11,129 | ^ 2024-11-19T03:57:11,129 iseq2comem.c:322:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,130 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,131 | ^~ 2024-11-19T03:57:11,132 iseq2comem.c:322:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,132 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,133 | ^ 2024-11-19T03:57:11,133 iseq2comem.c:341:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,134 341 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2024-11-19T03:57:11,135 | ^ 2024-11-19T03:57:11,135 iseq2comem.c: In function ‘fastq2koc’: 2024-11-19T03:57:11,136 iseq2comem.c:402:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,136 402 | if (base > TL) { 2024-11-19T03:57:11,137 | ^ 2024-11-19T03:57:11,137 iseq2comem.c:406:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,138 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,138 | ^~ 2024-11-19T03:57:11,139 iseq2comem.c:406:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,140 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,140 | ^ 2024-11-19T03:57:11,141 iseq2comem.c: In function ‘mt_shortreads2koc’: 2024-11-19T03:57:11,142 iseq2comem.c:582:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,143 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,143 | ^~ 2024-11-19T03:57:11,145 iseq2comem.c:582:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:11,146 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:57:11,146 | ^ 2024-11-19T03:57:12,488 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c mman.c -o build/temp.linux-armv7l-cpython-311/mman.o -fopenmp 2024-11-19T03:57:12,542 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c mytime.c -o build/temp.linux-armv7l-cpython-311/mytime.o -fopenmp 2024-11-19T03:57:12,665 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c pykssd.c -o build/temp.linux-armv7l-cpython-311/pykssd.o -fopenmp 2024-11-19T03:57:13,058 pykssd.c: In function ‘py_dist_dispatch’: 2024-11-19T03:57:13,059 pykssd.c:329:13: warning: unused variable ‘state1’ [-Wunused-variable] 2024-11-19T03:57:13,060 329 | int state1 = dist_dispatch(&dist_opt_val1); 2024-11-19T03:57:13,061 | ^~~~~~ 2024-11-19T03:57:13,062 pykssd.c:386:13: warning: unused variable ‘state2’ [-Wunused-variable] 2024-11-19T03:57:13,062 386 | int state2 = dist_dispatch(&dist_opt_val2); 2024-11-19T03:57:13,063 | ^~~~~~ 2024-11-19T03:57:13,063 pykssd.c:510:13: warning: unused variable ‘state4’ [-Wunused-variable] 2024-11-19T03:57:13,064 510 | int state4 = dist_dispatch(&dist_opt_val4); 2024-11-19T03:57:13,064 | ^~~~~~ 2024-11-19T03:57:13,711 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/co2mco.o build/temp.linux-armv7l-cpython-311/command_composite.o build/temp.linux-armv7l-cpython-311/command_dist.o build/temp.linux-armv7l-cpython-311/command_dist_wrapper.o build/temp.linux-armv7l-cpython-311/command_set.o build/temp.linux-armv7l-cpython-311/command_shuffle.o build/temp.linux-armv7l-cpython-311/global_basic.o build/temp.linux-armv7l-cpython-311/iseq2comem.o build/temp.linux-armv7l-cpython-311/mman.o build/temp.linux-armv7l-cpython-311/mytime.o build/temp.linux-armv7l-cpython-311/pykssd.o -L/usr/lib/arm-linux-gnueabihf -lz -o build/lib.linux-armv7l-cpython-311/kssd.cpython-311-arm-linux-gnueabihf.so -fopenmp 2024-11-19T03:57:13,858 building 'nj' extension 2024-11-19T03:57:13,858 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c align.c -o build/temp.linux-armv7l-cpython-311/align.o 2024-11-19T03:57:14,315 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c buildtree.c -o build/temp.linux-armv7l-cpython-311/buildtree.o 2024-11-19T03:57:14,465 buildtree.c: In function ‘UPGMA_buildtree’: 2024-11-19T03:57:14,465 buildtree.c:716:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:14,466 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2024-11-19T03:57:14,467 | ^~ 2024-11-19T03:57:14,468 buildtree.c:716:62: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:14,469 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2024-11-19T03:57:14,470 | ^~ 2024-11-19T03:57:15,124 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c cluster.c -o build/temp.linux-armv7l-cpython-311/cluster.o 2024-11-19T03:57:15,498 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c distancemat.c -o build/temp.linux-armv7l-cpython-311/distancemat.o 2024-11-19T03:57:15,635 distancemat.c: In function ‘clone_DistanceMatrix’: 2024-11-19T03:57:15,636 distancemat.c:226:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:15,637 226 | for( i=0; i < dest->size; i++) { 2024-11-19T03:57:15,637 | ^ 2024-11-19T03:57:15,638 distancemat.c: In function ‘empty_DistanceMatrix’: 2024-11-19T03:57:15,639 distancemat.c:260:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:15,639 260 | for( i=0; i < mat->size; i++) { 2024-11-19T03:57:15,640 | ^ 2024-11-19T03:57:15,641 distancemat.c: In function ‘print_DistanceMatrix’: 2024-11-19T03:57:15,642 distancemat.c:349:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:15,643 349 | for(row=0; row < mat->size; row++) { 2024-11-19T03:57:15,643 | ^ 2024-11-19T03:57:15,644 distancemat.c: In function ‘read_phylip_DistanceMatrix’: 2024-11-19T03:57:15,645 distancemat.c:410:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 2024-11-19T03:57:15,645 410 | while(c = fgetc(handle)) { 2024-11-19T03:57:15,646 | ^ 2024-11-19T03:57:16,028 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c pynj.c -o build/temp.linux-armv7l-cpython-311/pynj.o 2024-11-19T03:57:16,468 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c sequence.c -o build/temp.linux-armv7l-cpython-311/sequence.o 2024-11-19T03:57:16,685 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c tree.c -o build/temp.linux-armv7l-cpython-311/tree.o 2024-11-19T03:57:17,539 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c util.c -o build/temp.linux-armv7l-cpython-311/util.o 2024-11-19T03:57:17,715 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/align.o build/temp.linux-armv7l-cpython-311/buildtree.o build/temp.linux-armv7l-cpython-311/cluster.o build/temp.linux-armv7l-cpython-311/distancemat.o build/temp.linux-armv7l-cpython-311/pynj.o build/temp.linux-armv7l-cpython-311/sequence.o build/temp.linux-armv7l-cpython-311/tree.o build/temp.linux-armv7l-cpython-311/util.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/nj.cpython-311-arm-linux-gnueabihf.so 2024-11-19T03:57:17,824 building 'dnj' extension 2024-11-19T03:57:17,825 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c bytescale.c -o build/temp.linux-armv7l-cpython-311/bytescale.o -fopenmp 2024-11-19T03:57:17,881 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c dnj.c -o build/temp.linux-armv7l-cpython-311/dnj.o -fopenmp 2024-11-19T03:57:18,017 dnj.c: In function ‘minQpair’: 2024-11-19T03:57:18,018 dnj.c:70:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,018 70 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,019 | ^~~ 2024-11-19T03:57:18,020 dnj.c:126:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,020 126 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,021 | ^~~ 2024-11-19T03:57:18,022 dnj.c: In function ‘maxQpair’: 2024-11-19T03:57:18,022 dnj.c:157:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,023 157 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,023 | ^~~ 2024-11-19T03:57:18,024 dnj.c:213:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,025 213 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,026 | ^~~ 2024-11-19T03:57:18,026 dnj.c: In function ‘UPGMApair’: 2024-11-19T03:57:18,027 dnj.c:237:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,028 237 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,029 | ^~~ 2024-11-19T03:57:18,030 dnj.c:284:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,030 284 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,031 | ^~~ 2024-11-19T03:57:18,031 dnj.c:291:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,032 291 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,032 | ^~~ 2024-11-19T03:57:18,033 dnj.c: In function ‘minQrow’: 2024-11-19T03:57:18,033 dnj.c:374:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,034 374 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,034 | ^~~ 2024-11-19T03:57:18,035 dnj.c: In function ‘maxQrow’: 2024-11-19T03:57:18,035 dnj.c:435:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,036 435 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,036 | ^~~ 2024-11-19T03:57:18,037 dnj.c: In function ‘UPGMArow’: 2024-11-19T03:57:18,037 dnj.c:488:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,038 488 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,038 | ^~~ 2024-11-19T03:57:18,039 dnj.c:494:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,039 494 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,040 | ^~~ 2024-11-19T03:57:18,041 dnj.c: In function ‘minQ_thread’: 2024-11-19T03:57:18,041 dnj.c:553:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:18,042 553 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:18,043 | ^~~ 2024-11-19T03:57:19,384 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c filebuff.c -o build/temp.linux-armv7l-cpython-311/filebuff.o -fopenmp 2024-11-19T03:57:19,501 filebuff.c: In function ‘BuffgzFileBuff’: 2024-11-19T03:57:19,502 filebuff.c:99:54: warning: comparison of integer expressions of different signedness: ‘uInt’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:19,503 99 | if(status == Z_STREAM_END && strm->avail_out == dest->buffSize) { 2024-11-19T03:57:19,504 | ^~ 2024-11-19T03:57:19,828 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c hclust.c -o build/temp.linux-armv7l-cpython-311/hclust.o -fopenmp 2024-11-19T03:57:19,963 hclust.c: In function ‘minQ’: 2024-11-19T03:57:19,964 hclust.c:364:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:19,965 364 | while(++i < Q->n) { 2024-11-19T03:57:19,965 | ^ 2024-11-19T03:57:19,966 hclust.c:377:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:19,967 377 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:19,967 | ^~~ 2024-11-19T03:57:19,968 hclust.c: In function ‘maxQ’: 2024-11-19T03:57:19,969 hclust.c:394:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:57:19,969 394 | while(++i < Q->n) { 2024-11-19T03:57:19,970 | ^ 2024-11-19T03:57:19,971 hclust.c:407:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:19,971 407 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:19,972 | ^~~ 2024-11-19T03:57:22,345 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c matrix.c -o build/temp.linux-armv7l-cpython-311/matrix.o -fopenmp 2024-11-19T03:57:22,476 matrix.c: In function ‘ltdMatrix_popArrange’: 2024-11-19T03:57:22,477 matrix.c:538:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:57:22,477 538 | if(pos != n) { 2024-11-19T03:57:22,478 | ^~ 2024-11-19T03:57:23,364 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c mman.c -o build/temp.linux-armv7l-cpython-311/mman.o -fopenmp 2024-11-19T03:57:23,420 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c nj.c -o build/temp.linux-armv7l-cpython-311/nj.o -fopenmp 2024-11-19T03:57:23,555 nj.c: In function ‘initQ’: 2024-11-19T03:57:23,556 nj.c:243:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:23,557 243 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:23,557 | ^~~ 2024-11-19T03:57:23,558 nj.c: In function ‘initQ_MN’: 2024-11-19T03:57:23,559 nj.c:358:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:23,559 358 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:23,560 | ^~~ 2024-11-19T03:57:23,563 nj.c: In function ‘minD’: 2024-11-19T03:57:23,564 nj.c:559:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:23,565 559 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:23,565 | ^~~ 2024-11-19T03:57:23,566 nj.c: In function ‘maxD’: 2024-11-19T03:57:23,566 nj.c:642:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:23,567 642 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:23,568 | ^~~ 2024-11-19T03:57:23,571 nj.c: In function ‘minPair’: 2024-11-19T03:57:23,571 nj.c:826:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:57:23,572 826 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:57:23,573 | ^~~ 2024-11-19T03:57:25,932 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c nwck.c -o build/temp.linux-armv7l-cpython-311/nwck.o -fopenmp 2024-11-19T03:57:26,508 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c pherror.c -o build/temp.linux-armv7l-cpython-311/pherror.o -fopenmp 2024-11-19T03:57:26,605 pherror.c: In function ‘cfread’: 2024-11-19T03:57:26,606 pherror.c:58:56: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:57:26,608 58 | } else if(nmemb == 0 || (nmemb == -1 && (errno & EAGAIN))) { 2024-11-19T03:57:26,609 | ^~ 2024-11-19T03:57:26,700 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c phy.c -o build/temp.linux-armv7l-cpython-311/phy.o -fopenmp 2024-11-19T03:57:27,775 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c pydnj.c -o build/temp.linux-armv7l-cpython-311/pydnj.o -fopenmp 2024-11-19T03:57:28,158 In file included from pydnj.c:11: 2024-11-19T03:57:28,159 dnjheaders/pherror.h:20: warning: "_XOPEN_SOURCE" redefined 2024-11-19T03:57:28,159 20 | #define _XOPEN_SOURCE 600 2024-11-19T03:57:28,160 | 2024-11-19T03:57:28,161 In file included from /usr/include/arm-linux-gnueabihf/bits/libc-header-start.h:33, 2024-11-19T03:57:28,161 from /usr/include/stdlib.h:26, 2024-11-19T03:57:28,162 from /usr/include/python3.11/Python.h:23, 2024-11-19T03:57:28,162 from pydnj.c:1: 2024-11-19T03:57:28,163 /usr/include/features.h:214: note: this is the location of the previous definition 2024-11-19T03:57:28,163 214 | # define _XOPEN_SOURCE 700 2024-11-19T03:57:28,164 | 2024-11-19T03:57:28,183 pydnj.c: In function ‘py_build’: 2024-11-19T03:57:28,184 pydnj.c:165:9: warning: implicit declaration of function ‘omp_get_num_procs’ [-Wimplicit-function-declaration] 2024-11-19T03:57:28,185 165 | p = omp_get_num_procs(); 2024-11-19T03:57:28,186 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:57:28,303 pydnj.c:169:5: warning: ‘free’ called on pointer returned from a mismatched allocation function [-Wmismatched-dealloc] 2024-11-19T03:57:28,304 169 | free(file); 2024-11-19T03:57:28,305 | ^~~~~~~~~~ 2024-11-19T03:57:28,305 pydnj.c:125:12: note: returned from ‘fopen’ 2024-11-19T03:57:28,306 125 | file = fopen(inputfilename, "r"); 2024-11-19T03:57:28,306 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:57:28,380 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c qseqs.c -o build/temp.linux-armv7l-cpython-311/qseqs.o -fopenmp 2024-11-19T03:57:28,588 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c str.c -o build/temp.linux-armv7l-cpython-311/str.o -fopenmp 2024-11-19T03:57:28,698 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c tmp.c -o build/temp.linux-armv7l-cpython-311/tmp.o -fopenmp 2024-11-19T03:57:28,895 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c vector.c -o build/temp.linux-armv7l-cpython-311/vector.o -fopenmp 2024-11-19T03:57:29,056 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/bytescale.o build/temp.linux-armv7l-cpython-311/dnj.o build/temp.linux-armv7l-cpython-311/filebuff.o build/temp.linux-armv7l-cpython-311/hclust.o build/temp.linux-armv7l-cpython-311/matrix.o build/temp.linux-armv7l-cpython-311/mman.o build/temp.linux-armv7l-cpython-311/nj.o build/temp.linux-armv7l-cpython-311/nwck.o build/temp.linux-armv7l-cpython-311/pherror.o build/temp.linux-armv7l-cpython-311/phy.o build/temp.linux-armv7l-cpython-311/pydnj.o build/temp.linux-armv7l-cpython-311/qseqs.o build/temp.linux-armv7l-cpython-311/str.o build/temp.linux-armv7l-cpython-311/tmp.o build/temp.linux-armv7l-cpython-311/vector.o -L/usr/lib/arm-linux-gnueabihf -lz -o build/lib.linux-armv7l-cpython-311/dnj.cpython-311-arm-linux-gnueabihf.so -fopenmp 2024-11-19T03:57:29,219 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-11-19T03:57:29,220 !! 2024-11-19T03:57:29,222 ******************************************************************************** 2024-11-19T03:57:29,222 Please avoid running ``setup.py`` directly. 2024-11-19T03:57:29,223 Instead, use pypa/build, pypa/installer or other 2024-11-19T03:57:29,224 standards-based tools. 2024-11-19T03:57:29,225 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-11-19T03:57:29,226 ******************************************************************************** 2024-11-19T03:57:29,227 !! 2024-11-19T03:57:29,227 self.initialize_options() 2024-11-19T03:57:29,263 installing to build/bdist.linux-armv7l/wheel 2024-11-19T03:57:29,264 running install 2024-11-19T03:57:29,301 running install_lib 2024-11-19T03:57:29,335 creating build/bdist.linux-armv7l/wheel 2024-11-19T03:57:29,337 copying build/lib.linux-armv7l-cpython-311/kssdtree.py -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:57:29,340 copying build/lib.linux-armv7l-cpython-311/toolutils.py -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:57:29,343 copying build/lib.linux-armv7l-cpython-311/kssd.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:57:29,353 copying build/lib.linux-armv7l-cpython-311/nj.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:57:29,358 copying build/lib.linux-armv7l-cpython-311/dnj.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:57:29,367 running install_egg_info 2024-11-19T03:57:29,399 Copying kssdtree.egg-info to build/bdist.linux-armv7l/wheel/./kssdtree-2.0.4-py3.11.egg-info 2024-11-19T03:57:29,411 running install_scripts 2024-11-19T03:57:29,468 creating build/bdist.linux-armv7l/wheel/kssdtree-2.0.4.dist-info/WHEEL 2024-11-19T03:57:29,470 creating '/tmp/pip-wheel-4vq_0y5e/kssdtree-2.0.4-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-11-19T03:57:29,536 adding 'dnj.cpython-311-arm-linux-gnueabihf.so' 2024-11-19T03:57:29,621 adding 'kssd.cpython-311-arm-linux-gnueabihf.so' 2024-11-19T03:57:29,625 adding 'kssdtree.py' 2024-11-19T03:57:29,645 adding 'nj.cpython-311-arm-linux-gnueabihf.so' 2024-11-19T03:57:29,648 adding 'toolutils.py' 2024-11-19T03:57:29,650 adding 'kssdtree-2.0.4.dist-info/METADATA' 2024-11-19T03:57:29,651 adding 'kssdtree-2.0.4.dist-info/WHEEL' 2024-11-19T03:57:29,652 adding 'kssdtree-2.0.4.dist-info/dependency_links.txt' 2024-11-19T03:57:29,653 adding 'kssdtree-2.0.4.dist-info/top_level.txt' 2024-11-19T03:57:29,654 adding 'kssdtree-2.0.4.dist-info/RECORD' 2024-11-19T03:57:29,658 removing build/bdist.linux-armv7l/wheel 2024-11-19T03:57:29,805 Building wheel for kssdtree (setup.py): finished with status 'done' 2024-11-19T03:57:29,811 Created wheel for kssdtree: filename=kssdtree-2.0.4-cp311-cp311-linux_armv7l.whl size=380884 sha256=97a69f799c2d1b7024a9033b8a1e3fc17af4748a1ed726f52397d884303eb870 2024-11-19T03:57:29,812 Stored in directory: /tmp/pip-ephem-wheel-cache-6b4a46b4/wheels/9b/fe/87/da1a4f3a8a622b0439d3067037368f2025585af5e9abcd2baa 2024-11-19T03:57:29,821 Successfully built kssdtree 2024-11-19T03:57:29,837 Removed build tracker: '/tmp/pip-build-tracker-2880jsxl'