2024-11-19T03:56:18,888 Created temporary directory: /tmp/pip-build-tracker-8st9cmay 2024-11-19T03:56:18,889 Initialized build tracking at /tmp/pip-build-tracker-8st9cmay 2024-11-19T03:56:18,890 Created build tracker: /tmp/pip-build-tracker-8st9cmay 2024-11-19T03:56:18,890 Entered build tracker: /tmp/pip-build-tracker-8st9cmay 2024-11-19T03:56:18,891 Created temporary directory: /tmp/pip-wheel-mtzafcmz 2024-11-19T03:56:18,895 Created temporary directory: /tmp/pip-ephem-wheel-cache-7mi4f5bg 2024-11-19T03:56:18,939 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-11-19T03:56:18,942 2 location(s) to search for versions of kssdtree: 2024-11-19T03:56:18,942 * https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:18,942 * https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:18,943 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:18,943 Getting page https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:18,945 Found index url https://pypi.org/simple/ 2024-11-19T03:56:19,166 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2024-11-19T03:56:19,169 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 2024-11-19T03:56:19,170 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 2024-11-19T03:56:19,171 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 2024-11-19T03:56:19,171 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 2024-11-19T03:56:19,172 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 2024-11-19T03:56:19,172 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 2024-11-19T03:56:19,173 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 2024-11-19T03:56:19,174 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 2024-11-19T03:56:19,175 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 2024-11-19T03:56:19,175 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 2024-11-19T03:56:19,176 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 2024-11-19T03:56:19,177 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 2024-11-19T03:56:19,177 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 2024-11-19T03:56:19,178 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:19,179 Getting page https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:19,181 Found index url https://www.piwheels.org/simple/ 2024-11-19T03:56:19,350 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2024-11-19T03:56:19,364 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/) 2024-11-19T03:56:19,364 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/) 2024-11-19T03:56:19,365 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/) 2024-11-19T03:56:19,365 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/) 2024-11-19T03:56:19,366 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/) 2024-11-19T03:56:19,366 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/) 2024-11-19T03:56:19,367 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/) 2024-11-19T03:56:19,368 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/) 2024-11-19T03:56:19,369 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:19,372 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/) 2024-11-19T03:56:19,373 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/) 2024-11-19T03:56:19,373 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/) 2024-11-19T03:56:19,374 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:19,376 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/) 2024-11-19T03:56:19,376 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/) 2024-11-19T03:56:19,377 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/) 2024-11-19T03:56:19,377 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/) 2024-11-19T03:56:19,378 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/) 2024-11-19T03:56:19,378 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/) 2024-11-19T03:56:19,379 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/) 2024-11-19T03:56:19,379 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/) 2024-11-19T03:56:19,380 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/) 2024-11-19T03:56:19,381 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/) 2024-11-19T03:56:19,381 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2024-11-19T03:56:19,383 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/) 2024-11-19T03:56:19,383 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/) 2024-11-19T03:56:19,384 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/) 2024-11-19T03:56:19,385 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/) 2024-11-19T03:56:19,385 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/) 2024-11-19T03:56:19,386 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/) 2024-11-19T03:56:19,387 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/) 2024-11-19T03:56:19,387 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/) 2024-11-19T03:56:19,388 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/) 2024-11-19T03:56:19,388 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/) 2024-11-19T03:56:19,389 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/) 2024-11-19T03:56:19,390 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/) 2024-11-19T03:56:19,390 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/) 2024-11-19T03:56:19,391 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/) 2024-11-19T03:56:19,391 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/) 2024-11-19T03:56:19,391 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/) 2024-11-19T03:56:19,392 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/) 2024-11-19T03:56:19,392 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2024-11-19T03:56:19,393 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2024-11-19T03:56:19,413 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2024-11-19T03:56:19,415 Collecting kssdtree==2.0.3 2024-11-19T03:56:19,418 Created temporary directory: /tmp/pip-unpack-2l92f8j1 2024-11-19T03:56:19,635 Downloading kssdtree-2.0.3.tar.gz (112 kB) 2024-11-19T03:56:19,853 Added kssdtree==2.0.3 from https://files.pythonhosted.org/packages/c0/0f/effc10c8e76dbe3b9a35a4b4d9e65a0a889ee805e10334541c3ca7ae3b94/kssdtree-2.0.3.tar.gz to build tracker '/tmp/pip-build-tracker-8st9cmay' 2024-11-19T03:56:19,856 Running setup.py (path:/tmp/pip-wheel-mtzafcmz/kssdtree_3ca2a64562d840e9968567c33696f31e/setup.py) egg_info for package kssdtree 2024-11-19T03:56:19,857 Created temporary directory: /tmp/pip-pip-egg-info-5pac6q3a 2024-11-19T03:56:19,857 Preparing metadata (setup.py): started 2024-11-19T03:56:19,859 Running command python setup.py egg_info 2024-11-19T03:56:20,950 running egg_info 2024-11-19T03:56:20,978 creating /tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info 2024-11-19T03:56:20,979 writing /tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/PKG-INFO 2024-11-19T03:56:20,982 writing dependency_links to /tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/dependency_links.txt 2024-11-19T03:56:20,984 writing requirements to /tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/requires.txt 2024-11-19T03:56:20,986 writing top-level names to /tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/top_level.txt 2024-11-19T03:56:20,987 writing manifest file '/tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:56:21,097 reading manifest file '/tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:56:21,099 reading manifest template 'MANIFEST.in' 2024-11-19T03:56:21,117 writing manifest file '/tmp/pip-pip-egg-info-5pac6q3a/kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:56:21,224 Preparing metadata (setup.py): finished with status 'done' 2024-11-19T03:56:21,228 Source in /tmp/pip-wheel-mtzafcmz/kssdtree_3ca2a64562d840e9968567c33696f31e has version 2.0.3, which satisfies requirement kssdtree==2.0.3 from https://files.pythonhosted.org/packages/c0/0f/effc10c8e76dbe3b9a35a4b4d9e65a0a889ee805e10334541c3ca7ae3b94/kssdtree-2.0.3.tar.gz 2024-11-19T03:56:21,229 Removed kssdtree==2.0.3 from https://files.pythonhosted.org/packages/c0/0f/effc10c8e76dbe3b9a35a4b4d9e65a0a889ee805e10334541c3ca7ae3b94/kssdtree-2.0.3.tar.gz from build tracker '/tmp/pip-build-tracker-8st9cmay' 2024-11-19T03:56:21,234 Created temporary directory: /tmp/pip-unpack-xmg446wz 2024-11-19T03:56:21,235 Created temporary directory: /tmp/pip-unpack-l2ac41j4 2024-11-19T03:56:21,235 Building wheels for collected packages: kssdtree 2024-11-19T03:56:21,239 Created temporary directory: /tmp/pip-wheel-fwell1_1 2024-11-19T03:56:21,240 Building wheel for kssdtree (setup.py): started 2024-11-19T03:56:21,241 Destination directory: /tmp/pip-wheel-fwell1_1 2024-11-19T03:56:21,241 Running command python setup.py bdist_wheel 2024-11-19T03:56:22,260 running bdist_wheel 2024-11-19T03:56:22,392 running build 2024-11-19T03:56:22,393 running build_py 2024-11-19T03:56:22,422 creating build/lib.linux-armv7l-cpython-311 2024-11-19T03:56:22,423 copying kssdtree.py -> build/lib.linux-armv7l-cpython-311 2024-11-19T03:56:22,426 copying toolutils.py -> build/lib.linux-armv7l-cpython-311 2024-11-19T03:56:22,428 running egg_info 2024-11-19T03:56:22,456 writing kssdtree.egg-info/PKG-INFO 2024-11-19T03:56:22,458 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2024-11-19T03:56:22,460 writing requirements to kssdtree.egg-info/requires.txt 2024-11-19T03:56:22,462 writing top-level names to kssdtree.egg-info/top_level.txt 2024-11-19T03:56:22,491 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:56:22,496 reading manifest template 'MANIFEST.in' 2024-11-19T03:56:22,514 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2024-11-19T03:56:22,516 running build_ext 2024-11-19T03:56:22,972 building 'kssd' extension 2024-11-19T03:56:22,974 creating build/temp.linux-armv7l-cpython-311 2024-11-19T03:56:22,975 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 2024-11-19T03:56:23,156 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2024-11-19T03:56:23,157 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:23,157 109 | for (unsigned int i = 0; i < comp_num; i++) { 2024-11-19T03:56:23,158 | ^ 2024-11-19T03:56:23,162 co2mco.c: In function ‘co2unitllmco’: 2024-11-19T03:56:23,162 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:23,163 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2024-11-19T03:56:23,164 | ^ 2024-11-19T03:56:23,869 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 2024-11-19T03:56:24,253 command_composite.c: In function ‘get_species_abundance’: 2024-11-19T03:56:24,253 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-11-19T03:56:24,254 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2024-11-19T03:56:24,255 | ^~ 2024-11-19T03:56:24,256 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-11-19T03:56:24,257 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2024-11-19T03:56:24,257 | ^~ 2024-11-19T03:56:24,257 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:24,258 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-11-19T03:56:24,258 | ^ 2024-11-19T03:56:24,259 command_composite.c:64:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:24,259 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-11-19T03:56:24,260 | ^~~~~~~~~~ 2024-11-19T03:56:24,260 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:56:24,261 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-11-19T03:56:24,261 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,262 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:24,262 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-11-19T03:56:24,263 | ^ 2024-11-19T03:56:24,263 command_composite.c:70:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:24,264 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-11-19T03:56:24,265 | ^~~~~~~~~~ 2024-11-19T03:56:24,265 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:56:24,266 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-11-19T03:56:24,267 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,267 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:24,268 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:56:24,269 | ^ 2024-11-19T03:56:24,269 command_composite.c:76:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:24,270 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:56:24,270 | ^~~~~~~~~~ 2024-11-19T03:56:24,271 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:56:24,272 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:56:24,272 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,273 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:24,273 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-11-19T03:56:24,274 | ^ 2024-11-19T03:56:24,275 command_composite.c:82:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:24,275 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-11-19T03:56:24,276 | ^~~~~~~~~~ 2024-11-19T03:56:24,276 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-11-19T03:56:24,277 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-11-19T03:56:24,278 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,278 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:24,279 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:56:24,279 | ^ 2024-11-19T03:56:24,280 command_composite.c:88:31: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:24,280 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:56:24,281 | ^~~~~~~~~~~~ 2024-11-19T03:56:24,281 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2024-11-19T03:56:24,282 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-11-19T03:56:24,282 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,524 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 2024-11-19T03:56:24,769 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-11-19T03:56:24,770 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=] 2024-11-19T03:56:24,770 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:56:24,771 | ~~^ 2024-11-19T03:56:24,771 | | 2024-11-19T03:56:24,772 | long unsigned int 2024-11-19T03:56:24,773 | %u 2024-11-19T03:56:24,773 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:56:24,774 | ~~~~~~~ 2024-11-19T03:56:24,775 | | 2024-11-19T03:56:24,775 | size_t {aka unsigned int} 2024-11-19T03:56:24,776 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=] 2024-11-19T03:56:24,777 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:56:24,777 | ~~^ 2024-11-19T03:56:24,778 | | 2024-11-19T03:56:24,779 | long unsigned int 2024-11-19T03:56:24,779 | %u 2024-11-19T03:56:24,780 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:56:24,781 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:56:24,781 | ~~~~~~~~~ 2024-11-19T03:56:24,782 | | 2024-11-19T03:56:24,783 | size_t {aka unsigned int} 2024-11-19T03:56:24,783 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-11-19T03:56:24,784 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:56:24,785 | ~~^ 2024-11-19T03:56:24,786 | | 2024-11-19T03:56:24,786 | long unsigned int 2024-11-19T03:56:24,787 | %u 2024-11-19T03:56:24,788 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:56:24,788 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:56:24,789 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,790 | | 2024-11-19T03:56:24,790 | unsigned int 2024-11-19T03:56:24,791 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-11-19T03:56:24,792 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2024-11-19T03:56:24,792 | ^ 2024-11-19T03:56:24,793 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-11-19T03:56:24,793 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=] 2024-11-19T03:56:24,794 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-11-19T03:56:24,794 | ~~^ ~~~~~~~ 2024-11-19T03:56:24,795 | | | 2024-11-19T03:56:24,796 | long unsigned int size_t {aka unsigned int} 2024-11-19T03:56:24,796 | %u 2024-11-19T03:56:24,797 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=] 2024-11-19T03:56:24,798 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-11-19T03:56:24,799 | ~~^ 2024-11-19T03:56:24,799 | | 2024-11-19T03:56:24,800 | long unsigned int 2024-11-19T03:56:24,801 | %u 2024-11-19T03:56:24,801 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-11-19T03:56:24,802 | ~~~~~~~~~ 2024-11-19T03:56:24,803 | | 2024-11-19T03:56:24,803 | size_t {aka unsigned int} 2024-11-19T03:56:24,804 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-11-19T03:56:24,805 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-11-19T03:56:24,805 | ~~^ 2024-11-19T03:56:24,806 | | 2024-11-19T03:56:24,806 | long unsigned int 2024-11-19T03:56:24,806 | %u 2024-11-19T03:56:24,807 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-11-19T03:56:24,807 865 | (size_t) b * unitsz_distf_mapped); 2024-11-19T03:56:24,808 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,808 | | 2024-11-19T03:56:24,809 | unsigned int 2024-11-19T03:56:24,809 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2024-11-19T03:56:24,810 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2024-11-19T03:56:24,810 | ^~~~~~~ 2024-11-19T03:56:24,810 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2024-11-19T03:56:24,811 809 | struct stat cbd_fcode_stat; 2024-11-19T03:56:24,812 | ^~~~~~~~~~~~~~ 2024-11-19T03:56:24,812 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2024-11-19T03:56:24,813 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-11-19T03:56:24,814 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,814 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2024-11-19T03:56:24,815 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-11-19T03:56:24,815 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,816 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-11-19T03:56:24,817 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=] 2024-11-19T03:56:24,817 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:56:24,818 | ~~^ 2024-11-19T03:56:24,819 | | 2024-11-19T03:56:24,819 | long unsigned int 2024-11-19T03:56:24,820 | %u 2024-11-19T03:56:24,821 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:56:24,821 | ~~~~~~~ 2024-11-19T03:56:24,822 | | 2024-11-19T03:56:24,823 | size_t {aka unsigned int} 2024-11-19T03:56:24,823 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=] 2024-11-19T03:56:24,824 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:56:24,825 | ~~^ 2024-11-19T03:56:24,826 | | 2024-11-19T03:56:24,826 | long unsigned int 2024-11-19T03:56:24,827 | %u 2024-11-19T03:56:24,828 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:56:24,828 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:56:24,829 | ~~~~~~~~~ 2024-11-19T03:56:24,829 | | 2024-11-19T03:56:24,829 | size_t {aka unsigned int} 2024-11-19T03:56:24,830 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-11-19T03:56:24,830 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-11-19T03:56:24,831 | ~~^ 2024-11-19T03:56:24,831 | | 2024-11-19T03:56:24,832 | long unsigned int 2024-11-19T03:56:24,832 | %u 2024-11-19T03:56:24,833 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-11-19T03:56:24,833 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-11-19T03:56:24,834 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:24,835 | | 2024-11-19T03:56:24,835 | unsigned int 2024-11-19T03:56:24,836 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:24,837 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2024-11-19T03:56:24,837 | ^ 2024-11-19T03:56:24,838 command_dist.c: In function ‘mco_co_dist_core’: 2024-11-19T03:56:24,838 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-11-19T03:56:24,839 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2024-11-19T03:56:24,839 | ^ 2024-11-19T03:56:24,840 command_dist.c: In function ‘koc_dist_print_nobin’: 2024-11-19T03:56:24,841 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:24,841 1239 | for (int rid = 0; rid < ref_num; rid++) 2024-11-19T03:56:24,842 | ^ 2024-11-19T03:56:24,842 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:24,843 1245 | for (int rid = 0; rid < ref_num; rid++) { 2024-11-19T03:56:24,843 | ^ 2024-11-19T03:56:24,844 command_dist.c: In function ‘dist_print_nobin’: 2024-11-19T03:56:24,845 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:24,845 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2024-11-19T03:56:24,846 | ^ 2024-11-19T03:56:24,847 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:24,848 1356 | for (int rid = 0; rid < ref_num; rid++) { 2024-11-19T03:56:24,849 | ^ 2024-11-19T03:56:24,849 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:24,850 1382 | for (int rid = 0; rid < ref_num; rid++) 2024-11-19T03:56:24,850 | ^ 2024-11-19T03:56:25,206 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2024-11-19T03:56:25,207 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2024-11-19T03:56:25,207 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2024-11-19T03:56:25,208 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:25,208 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2024-11-19T03:56:25,209 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2024-11-19T03:56:25,210 | ^~~~~~~~~~~~ 2024-11-19T03:56:26,042 command_dist.c: In function ‘get_dim_shuffle’: 2024-11-19T03:56:26,043 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2024-11-19T03:56:26,043 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-11-19T03:56:26,044 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:26,045 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2024-11-19T03:56:26,045 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-11-19T03:56:26,046 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:26,942 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-11-19T03:56:26,942 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:26,943 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:56:26,944 | ^~ ~~~~~~~~~ 2024-11-19T03:56:26,944 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-11-19T03:56:26,945 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:56:26,946 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:26,946 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:26,947 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:56:26,948 | ^~~~~~~~~~~~~~~ 2024-11-19T03:56:26,948 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-11-19T03:56:26,949 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:56:26,949 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:26,950 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:26,950 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:56:26,951 | ^~~~~~~~~~~ 2024-11-19T03:56:26,952 command_dist.c:681:38: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:26,952 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:56:26,953 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:56:26,954 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-11-19T03:56:26,955 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:56:26,956 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:26,956 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:26,957 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:56:26,957 | ^~~~~ 2024-11-19T03:56:26,958 command_dist.c:682:32: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:26,958 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:56:26,959 | ^~~~~~~~~~~ 2024-11-19T03:56:26,959 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:56:26,960 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:56:26,960 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,192 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-11-19T03:56:27,193 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:27,194 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:56:27,194 | ^~ ~~~~~~~~~ 2024-11-19T03:56:27,195 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-11-19T03:56:27,195 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:56:27,196 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,197 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:27,197 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:56:27,198 | ^~~~~~~~~~~~~~~ 2024-11-19T03:56:27,199 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-11-19T03:56:27,199 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:56:27,200 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,201 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:27,201 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:56:27,202 | ^~~~~~~~~~~~~ 2024-11-19T03:56:27,202 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-11-19T03:56:27,203 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:56:27,203 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,204 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:27,205 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-11-19T03:56:27,206 | ^ 2024-11-19T03:56:27,206 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2024-11-19T03:56:27,207 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-11-19T03:56:27,208 | ^~~~~~~~~~ 2024-11-19T03:56:27,208 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-11-19T03:56:27,209 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-11-19T03:56:27,210 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,211 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:27,211 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-11-19T03:56:27,212 | ^ 2024-11-19T03:56:27,213 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2024-11-19T03:56:27,213 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-11-19T03:56:27,214 | ^~~~~~~~~~ 2024-11-19T03:56:27,214 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-11-19T03:56:27,215 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-11-19T03:56:27,215 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,471 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-11-19T03:56:27,472 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:27,473 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:56:27,473 | ^~ ~~~~~~~~~ 2024-11-19T03:56:27,474 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-11-19T03:56:27,474 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-11-19T03:56:27,475 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,475 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:27,476 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:56:27,476 | ^~~~~~~~~~~~~~~ 2024-11-19T03:56:27,477 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-11-19T03:56:27,477 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-11-19T03:56:27,478 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,479 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:27,479 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:56:27,480 | ^~~~~~~~~~~~~ 2024-11-19T03:56:27,481 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-11-19T03:56:27,481 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-11-19T03:56:27,482 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,482 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:27,483 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:56:27,483 | ^~~~~~~~~~~ 2024-11-19T03:56:27,484 command_dist.c:1022:38: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:27,485 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:56:27,485 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,486 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-11-19T03:56:27,487 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-11-19T03:56:27,488 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,489 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-11-19T03:56:27,490 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:56:27,490 | ^~~~~ 2024-11-19T03:56:27,491 command_dist.c:1023:32: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:27,491 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:56:27,492 | ^~~~~~~~~~~ 2024-11-19T03:56:27,492 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:56:27,493 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-11-19T03:56:27,493 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,759 command_dist.c: In function ‘combine_queries’: 2024-11-19T03:56:27,761 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:27,761 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-11-19T03:56:27,762 | ^ 2024-11-19T03:56:27,763 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:27,763 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-11-19T03:56:27,763 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,764 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:27,765 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-11-19T03:56:27,765 | ^ 2024-11-19T03:56:27,766 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:27,766 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-11-19T03:56:27,767 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:27,769 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:27,769 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-11-19T03:56:27,770 | ^~ ~~~~~~~~ 2024-11-19T03:56:27,771 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-11-19T03:56:27,771 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-11-19T03:56:27,772 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,255 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 2024-11-19T03:56:28,428 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 2024-11-19T03:56:28,600 command_set.c: In function ‘sketch_operate’: 2024-11-19T03:56:28,600 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-11-19T03:56:28,601 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2024-11-19T03:56:28,602 | ^ 2024-11-19T03:56:28,614 command_set.c: In function ‘combin_subset_pans’: 2024-11-19T03:56:28,615 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-11-19T03:56:28,615 457 | free(co_dstat_fpath); 2024-11-19T03:56:28,616 | ^~~~~~~~~~~~~~ 2024-11-19T03:56:28,616 In file included from kssdheaders/global_basic.h:159, 2024-11-19T03:56:28,617 from command_set.c:15: 2024-11-19T03:56:28,617 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-11-19T03:56:28,618 568 | extern void free (void *__ptr) __THROW; 2024-11-19T03:56:28,619 | ~~~~~~^~~~~ 2024-11-19T03:56:28,623 command_set.c: In function ‘grouping_genomes’: 2024-11-19T03:56:28,624 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-11-19T03:56:28,624 562 | free(co_dstat_fpath); 2024-11-19T03:56:28,625 | ^~~~~~~~~~~~~~ 2024-11-19T03:56:28,625 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-11-19T03:56:28,626 568 | extern void free (void *__ptr) __THROW; 2024-11-19T03:56:28,626 | ~~~~~~^~~~~ 2024-11-19T03:56:28,793 command_set.c: In function ‘sketch_union’: 2024-11-19T03:56:28,793 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:28,794 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:28,794 | ^ 2024-11-19T03:56:28,795 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:28,796 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:28,797 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,798 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,799 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:56:28,799 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:28,800 command_set.c:82:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,801 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:56:28,802 | ^~~~~~~~~~ 2024-11-19T03:56:28,802 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:28,803 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:56:28,804 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,805 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,805 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-11-19T03:56:28,806 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:28,807 command_set.c:92:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,807 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-11-19T03:56:28,808 | ^~~~~~~~~~ 2024-11-19T03:56:28,809 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:56:28,809 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-11-19T03:56:28,810 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,930 command_set.c: In function ‘sketch_operate’: 2024-11-19T03:56:28,931 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,931 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-11-19T03:56:28,932 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:28,932 command_set.c:153:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,933 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-11-19T03:56:28,933 | ^~~~~~~~~~ 2024-11-19T03:56:28,934 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-11-19T03:56:28,934 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-11-19T03:56:28,934 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,935 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,935 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-11-19T03:56:28,936 | ^~ ~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,936 command_set.c:155:29: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,937 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-11-19T03:56:28,937 | ^~~~~~~~~~ 2024-11-19T03:56:28,938 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-11-19T03:56:28,938 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-11-19T03:56:28,939 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,940 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,941 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:56:28,941 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:28,942 command_set.c:165:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,943 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:56:28,944 | ^~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,944 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:56:28,945 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:56:28,946 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,946 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,947 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:56:28,948 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:28,948 command_set.c:169:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,949 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:56:28,949 | ^~~~~~~~~~ 2024-11-19T03:56:28,950 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:28,951 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-11-19T03:56:28,951 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,952 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,953 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:56:28,954 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:28,954 command_set.c:174:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,955 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:56:28,955 | ^~~~~~~~~~ 2024-11-19T03:56:28,956 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:28,956 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:56:28,957 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,957 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:28,958 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:56:28,958 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:28,959 command_set.c:187:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:28,959 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:56:28,960 | ^~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,960 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:56:28,961 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-11-19T03:56:28,961 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:28,962 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:28,963 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:28,963 | ^ 2024-11-19T03:56:28,964 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:28,965 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:28,966 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,117 command_set.c: In function ‘uniq_sketch_union’: 2024-11-19T03:56:29,117 command_set.c:219:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:29,118 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2024-11-19T03:56:29,119 | ^ 2024-11-19T03:56:29,119 command_set.c:219:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2024-11-19T03:56:29,120 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2024-11-19T03:56:29,120 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,121 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:29,121 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,122 | ^ 2024-11-19T03:56:29,122 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:29,123 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,123 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,124 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,125 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:56:29,126 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:29,126 command_set.c:247:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,127 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:56:29,127 | ^~~~~~~~~~ 2024-11-19T03:56:29,128 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:29,128 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-11-19T03:56:29,129 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,129 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,130 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-11-19T03:56:29,130 | ^~ ~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,131 command_set.c:259:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,131 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-11-19T03:56:29,132 | ^~~~~~~~~~ 2024-11-19T03:56:29,132 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-11-19T03:56:29,133 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-11-19T03:56:29,133 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,276 command_set.c: In function ‘combin_pans’: 2024-11-19T03:56:29,277 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,278 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,278 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:29,279 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2024-11-19T03:56:29,280 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,280 | ^~~~~~~~~~ 2024-11-19T03:56:29,281 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2024-11-19T03:56:29,281 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,282 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,283 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,283 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,284 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:29,284 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2024-11-19T03:56:29,285 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,285 | ^~~~~~~~~~ 2024-11-19T03:56:29,286 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2024-11-19T03:56:29,287 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,287 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,288 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:29,288 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,289 | ^ 2024-11-19T03:56:29,289 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:29,290 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,291 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,497 command_set.c: In function ‘combin_subset_pans’: 2024-11-19T03:56:29,497 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,498 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:56:29,498 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:29,499 command_set.c:469:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,499 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:56:29,499 | ^~~~~~~~~~ 2024-11-19T03:56:29,500 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:29,500 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:56:29,501 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,501 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,502 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:56:29,502 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:29,503 command_set.c:475:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,503 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:56:29,504 | ^~~~~~~~~~ 2024-11-19T03:56:29,505 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:56:29,505 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:56:29,506 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,507 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,507 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,508 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:29,509 command_set.c:481:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,509 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,510 | ^~~~~~~~~~ 2024-11-19T03:56:29,511 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:29,511 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,512 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,513 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,513 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,514 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:29,515 command_set.c:512:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,515 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,516 | ^~~~~~~~~~ 2024-11-19T03:56:29,517 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:56:29,517 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,518 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,519 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:29,519 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,520 | ^ 2024-11-19T03:56:29,521 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:29,521 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,522 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,745 command_set.c: In function ‘grouping_genomes’: 2024-11-19T03:56:29,746 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,746 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:56:29,747 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:29,747 command_set.c:574:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,747 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:56:29,748 | ^~~~~~~~~~ 2024-11-19T03:56:29,748 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:29,749 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-11-19T03:56:29,749 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,750 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,750 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:56:29,751 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:29,752 command_set.c:580:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,752 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:56:29,753 | ^~~~~~~~~~ 2024-11-19T03:56:29,753 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:56:29,754 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-11-19T03:56:29,755 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,755 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,756 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,756 | ^~ ~~~~~~~~~~~ 2024-11-19T03:56:29,757 command_set.c:612:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,757 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,758 | ^~~~~~~~~~ 2024-11-19T03:56:29,759 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-11-19T03:56:29,759 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-11-19T03:56:29,760 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,761 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-11-19T03:56:29,762 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,762 | ^~ ~~~~~~~~~~ 2024-11-19T03:56:29,763 command_set.c:634:25: note: directive argument in the range [-2147483644, 2147483646] 2024-11-19T03:56:29,764 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,765 | ^~~~~~~~~~ 2024-11-19T03:56:29,765 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-11-19T03:56:29,766 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-11-19T03:56:29,766 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:29,767 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-11-19T03:56:29,767 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,768 | ^ 2024-11-19T03:56:29,769 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-11-19T03:56:29,769 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-11-19T03:56:29,770 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:30,045 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 2024-11-19T03:56:30,360 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 2024-11-19T03:56:30,531 global_basic.c: In function ‘organize_infile_list’: 2024-11-19T03:56:30,531 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2024-11-19T03:56:30,532 195 | while (isspace(*buf)) buf++; 2024-11-19T03:56:30,533 | ^~~~~~~ 2024-11-19T03:56:30,534 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2024-11-19T03:56:30,534 34 | #include 2024-11-19T03:56:30,535 +++ |+#include 2024-11-19T03:56:30,535 35 | 2024-11-19T03:56:30,536 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=] 2024-11-19T03:56:30,537 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-11-19T03:56:30,537 | ~~^ 2024-11-19T03:56:30,538 | | 2024-11-19T03:56:30,539 | long unsigned int 2024-11-19T03:56:30,539 | %u 2024-11-19T03:56:30,540 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-11-19T03:56:30,541 | ~~~~~~~~~~~ 2024-11-19T03:56:30,541 | | 2024-11-19T03:56:30,542 | size_t {aka unsigned int} 2024-11-19T03:56:30,543 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=] 2024-11-19T03:56:30,544 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-11-19T03:56:30,545 | ~~^ 2024-11-19T03:56:30,546 | | 2024-11-19T03:56:30,546 | long unsigned int 2024-11-19T03:56:30,547 | %u 2024-11-19T03:56:30,547 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-11-19T03:56:30,548 | ~~~~~~~~~~~ 2024-11-19T03:56:30,548 | | 2024-11-19T03:56:30,549 | size_t {aka unsigned int} 2024-11-19T03:56:31,323 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 2024-11-19T03:56:31,500 iseq2comem.c: In function ‘reads2mco’: 2024-11-19T03:56:31,501 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,502 156 | if (base > TL) { 2024-11-19T03:56:31,502 | ^ 2024-11-19T03:56:31,503 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,503 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,504 | ^~ 2024-11-19T03:56:31,504 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,505 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,506 | ^ 2024-11-19T03:56:31,508 iseq2comem.c: In function ‘fasta2co’: 2024-11-19T03:56:31,508 iseq2comem.c:239:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,509 239 | if (base > TL) { 2024-11-19T03:56:31,510 | ^ 2024-11-19T03:56:31,510 iseq2comem.c:243:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,511 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,512 | ^~ 2024-11-19T03:56:31,513 iseq2comem.c:243:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,513 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,514 | ^ 2024-11-19T03:56:31,515 iseq2comem.c: In function ‘fastq2co’: 2024-11-19T03:56:31,515 iseq2comem.c:272:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2024-11-19T03:56:31,516 272 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2024-11-19T03:56:31,517 | ^~ 2024-11-19T03:56:31,517 iseq2comem.c:318:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,518 318 | if (base > TL) { 2024-11-19T03:56:31,519 | ^ 2024-11-19T03:56:31,519 iseq2comem.c:322:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,520 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,521 | ^~ 2024-11-19T03:56:31,521 iseq2comem.c:322:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,522 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,522 | ^ 2024-11-19T03:56:31,523 iseq2comem.c:341:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,523 341 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2024-11-19T03:56:31,524 | ^ 2024-11-19T03:56:31,525 iseq2comem.c: In function ‘fastq2koc’: 2024-11-19T03:56:31,525 iseq2comem.c:402:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,526 402 | if (base > TL) { 2024-11-19T03:56:31,527 | ^ 2024-11-19T03:56:31,527 iseq2comem.c:406:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,528 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,528 | ^~ 2024-11-19T03:56:31,529 iseq2comem.c:406:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,529 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,530 | ^ 2024-11-19T03:56:31,531 iseq2comem.c: In function ‘mt_shortreads2koc’: 2024-11-19T03:56:31,531 iseq2comem.c:582:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,532 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,533 | ^~ 2024-11-19T03:56:31,534 iseq2comem.c:582:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:31,535 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-11-19T03:56:31,536 | ^ 2024-11-19T03:56:32,874 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 2024-11-19T03:56:32,929 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 2024-11-19T03:56:33,052 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 2024-11-19T03:56:33,443 pykssd.c: In function ‘py_dist_dispatch’: 2024-11-19T03:56:33,444 pykssd.c:329:13: warning: unused variable ‘state1’ [-Wunused-variable] 2024-11-19T03:56:33,445 329 | int state1 = dist_dispatch(&dist_opt_val1); 2024-11-19T03:56:33,445 | ^~~~~~ 2024-11-19T03:56:33,446 pykssd.c:386:13: warning: unused variable ‘state2’ [-Wunused-variable] 2024-11-19T03:56:33,447 386 | int state2 = dist_dispatch(&dist_opt_val2); 2024-11-19T03:56:33,447 | ^~~~~~ 2024-11-19T03:56:33,448 pykssd.c:510:13: warning: unused variable ‘state4’ [-Wunused-variable] 2024-11-19T03:56:33,448 510 | int state4 = dist_dispatch(&dist_opt_val4); 2024-11-19T03:56:33,449 | ^~~~~~ 2024-11-19T03:56:34,095 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 2024-11-19T03:56:34,243 building 'nj' extension 2024-11-19T03:56:34,243 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 2024-11-19T03:56:34,701 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 2024-11-19T03:56:34,851 buildtree.c: In function ‘UPGMA_buildtree’: 2024-11-19T03:56:34,851 buildtree.c:716:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:34,852 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2024-11-19T03:56:34,853 | ^~ 2024-11-19T03:56:34,854 buildtree.c:716:62: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:34,855 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2024-11-19T03:56:34,855 | ^~ 2024-11-19T03:56:35,553 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 2024-11-19T03:56:35,926 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 2024-11-19T03:56:36,069 distancemat.c: In function ‘clone_DistanceMatrix’: 2024-11-19T03:56:36,070 distancemat.c:226:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:36,071 226 | for( i=0; i < dest->size; i++) { 2024-11-19T03:56:36,071 | ^ 2024-11-19T03:56:36,072 distancemat.c: In function ‘empty_DistanceMatrix’: 2024-11-19T03:56:36,073 distancemat.c:260:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:36,074 260 | for( i=0; i < mat->size; i++) { 2024-11-19T03:56:36,074 | ^ 2024-11-19T03:56:36,075 distancemat.c: In function ‘print_DistanceMatrix’: 2024-11-19T03:56:36,075 distancemat.c:349:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:36,077 349 | for(row=0; row < mat->size; row++) { 2024-11-19T03:56:36,077 | ^ 2024-11-19T03:56:36,078 distancemat.c: In function ‘read_phylip_DistanceMatrix’: 2024-11-19T03:56:36,078 distancemat.c:410:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 2024-11-19T03:56:36,079 410 | while(c = fgetc(handle)) { 2024-11-19T03:56:36,079 | ^ 2024-11-19T03:56:36,468 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 pynj.c -o build/temp.linux-armv7l-cpython-311/pynj.o 2024-11-19T03:56:36,907 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 2024-11-19T03:56:37,125 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 2024-11-19T03:56:37,971 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 2024-11-19T03:56:38,150 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 2024-11-19T03:56:38,263 building 'dnj' extension 2024-11-19T03:56:38,264 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 2024-11-19T03:56:38,319 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 2024-11-19T03:56:38,458 dnj.c: In function ‘minQpair’: 2024-11-19T03:56:38,459 dnj.c:70:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,459 70 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,460 | ^~~ 2024-11-19T03:56:38,461 dnj.c:126:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,461 126 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,462 | ^~~ 2024-11-19T03:56:38,463 dnj.c: In function ‘maxQpair’: 2024-11-19T03:56:38,463 dnj.c:157:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,464 157 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,465 | ^~~ 2024-11-19T03:56:38,465 dnj.c:213:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,466 213 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,467 | ^~~ 2024-11-19T03:56:38,467 dnj.c: In function ‘UPGMApair’: 2024-11-19T03:56:38,468 dnj.c:237:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,469 237 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,469 | ^~~ 2024-11-19T03:56:38,470 dnj.c:284:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,470 284 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,471 | ^~~ 2024-11-19T03:56:38,471 dnj.c:291:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,472 291 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,472 | ^~~ 2024-11-19T03:56:38,473 dnj.c: In function ‘minQrow’: 2024-11-19T03:56:38,473 dnj.c:374:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,474 374 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,474 | ^~~ 2024-11-19T03:56:38,475 dnj.c: In function ‘maxQrow’: 2024-11-19T03:56:38,475 dnj.c:435:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,476 435 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,477 | ^~~ 2024-11-19T03:56:38,478 dnj.c: In function ‘UPGMArow’: 2024-11-19T03:56:38,478 dnj.c:488:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,479 488 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,479 | ^~~ 2024-11-19T03:56:38,480 dnj.c:494:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,480 494 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,481 | ^~~ 2024-11-19T03:56:38,481 dnj.c: In function ‘minQ_thread’: 2024-11-19T03:56:38,482 dnj.c:553:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:38,482 553 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:38,483 | ^~~ 2024-11-19T03:56:39,841 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 2024-11-19T03:56:39,963 filebuff.c: In function ‘BuffgzFileBuff’: 2024-11-19T03:56:39,964 filebuff.c:99:54: warning: comparison of integer expressions of different signedness: ‘uInt’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:39,969 99 | if(status == Z_STREAM_END && strm->avail_out == dest->buffSize) { 2024-11-19T03:56:39,969 | ^~ 2024-11-19T03:56:40,297 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 2024-11-19T03:56:40,434 hclust.c: In function ‘minQ’: 2024-11-19T03:56:40,435 hclust.c:364:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:40,436 364 | while(++i < Q->n) { 2024-11-19T03:56:40,436 | ^ 2024-11-19T03:56:40,437 hclust.c:377:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:40,438 377 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:40,438 | ^~~ 2024-11-19T03:56:40,439 hclust.c: In function ‘maxQ’: 2024-11-19T03:56:40,440 hclust.c:394:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-11-19T03:56:40,440 394 | while(++i < Q->n) { 2024-11-19T03:56:40,441 | ^ 2024-11-19T03:56:40,442 hclust.c:407:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:40,442 407 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:40,443 | ^~~ 2024-11-19T03:56:42,832 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 2024-11-19T03:56:42,963 matrix.c: In function ‘ltdMatrix_popArrange’: 2024-11-19T03:56:42,964 matrix.c:538:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-11-19T03:56:42,965 538 | if(pos != n) { 2024-11-19T03:56:42,965 | ^~ 2024-11-19T03:56:43,842 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 2024-11-19T03:56:43,898 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 2024-11-19T03:56:44,030 nj.c: In function ‘initQ’: 2024-11-19T03:56:44,031 nj.c:243:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:44,031 243 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:44,032 | ^~~ 2024-11-19T03:56:44,035 nj.c: In function ‘initQ_MN’: 2024-11-19T03:56:44,036 nj.c:358:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:44,036 358 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:44,037 | ^~~ 2024-11-19T03:56:44,042 nj.c: In function ‘minD’: 2024-11-19T03:56:44,043 nj.c:559:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:44,044 559 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:44,044 | ^~~ 2024-11-19T03:56:44,046 nj.c: In function ‘maxD’: 2024-11-19T03:56:44,047 nj.c:642:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:44,048 642 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:44,048 | ^~~ 2024-11-19T03:56:44,053 nj.c: In function ‘minPair’: 2024-11-19T03:56:44,054 nj.c:826:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-11-19T03:56:44,055 826 | pos <<= sizeof(unsigned) * 8; 2024-11-19T03:56:44,055 | ^~~ 2024-11-19T03:56:46,441 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 2024-11-19T03:56:47,018 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 2024-11-19T03:56:47,127 pherror.c: In function ‘cfread’: 2024-11-19T03:56:47,128 pherror.c:58:56: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2024-11-19T03:56:47,128 58 | } else if(nmemb == 0 || (nmemb == -1 && (errno & EAGAIN))) { 2024-11-19T03:56:47,130 | ^~ 2024-11-19T03:56:47,225 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 2024-11-19T03:56:48,302 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 2024-11-19T03:56:48,681 In file included from pydnj.c:11: 2024-11-19T03:56:48,682 dnjheaders/pherror.h:20: warning: "_XOPEN_SOURCE" redefined 2024-11-19T03:56:48,682 20 | #define _XOPEN_SOURCE 600 2024-11-19T03:56:48,683 | 2024-11-19T03:56:48,683 In file included from /usr/include/arm-linux-gnueabihf/bits/libc-header-start.h:33, 2024-11-19T03:56:48,684 from /usr/include/stdlib.h:26, 2024-11-19T03:56:48,685 from /usr/include/python3.11/Python.h:23, 2024-11-19T03:56:48,685 from pydnj.c:1: 2024-11-19T03:56:48,686 /usr/include/features.h:214: note: this is the location of the previous definition 2024-11-19T03:56:48,686 214 | # define _XOPEN_SOURCE 700 2024-11-19T03:56:48,687 | 2024-11-19T03:56:48,706 pydnj.c: In function ‘py_build’: 2024-11-19T03:56:48,706 pydnj.c:165:9: warning: implicit declaration of function ‘omp_get_num_procs’ [-Wimplicit-function-declaration] 2024-11-19T03:56:48,707 165 | p = omp_get_num_procs(); 2024-11-19T03:56:48,709 | ^~~~~~~~~~~~~~~~~ 2024-11-19T03:56:48,826 pydnj.c:169:5: warning: ‘free’ called on pointer returned from a mismatched allocation function [-Wmismatched-dealloc] 2024-11-19T03:56:49,077 169 | free(file); 2024-11-19T03:56:49,645 | ^~~~~~~~~~ 2024-11-19T03:56:49,646 pydnj.c:125:12: note: returned from ‘fopen’ 2024-11-19T03:56:49,657 125 | file = fopen(inputfilename, "r"); 2024-11-19T03:56:49,753 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2024-11-19T03:56:50,497 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 2024-11-19T03:56:50,774 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 2024-11-19T03:56:50,886 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 2024-11-19T03:56:51,083 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 2024-11-19T03:56:51,246 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 2024-11-19T03:56:51,446 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-11-19T03:56:51,447 !! 2024-11-19T03:56:51,448 ******************************************************************************** 2024-11-19T03:56:51,449 Please avoid running ``setup.py`` directly. 2024-11-19T03:56:51,450 Instead, use pypa/build, pypa/installer or other 2024-11-19T03:56:51,451 standards-based tools. 2024-11-19T03:56:51,452 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-11-19T03:56:51,452 ******************************************************************************** 2024-11-19T03:56:51,454 !! 2024-11-19T03:56:51,454 self.initialize_options() 2024-11-19T03:56:51,483 installing to build/bdist.linux-armv7l/wheel 2024-11-19T03:56:51,483 running install 2024-11-19T03:56:51,509 running install_lib 2024-11-19T03:56:51,537 creating build/bdist.linux-armv7l/wheel 2024-11-19T03:56:51,539 copying build/lib.linux-armv7l-cpython-311/kssdtree.py -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:56:51,543 copying build/lib.linux-armv7l-cpython-311/toolutils.py -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:56:51,546 copying build/lib.linux-armv7l-cpython-311/kssd.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:56:51,555 copying build/lib.linux-armv7l-cpython-311/nj.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:56:51,560 copying build/lib.linux-armv7l-cpython-311/dnj.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-11-19T03:56:51,569 running install_egg_info 2024-11-19T03:56:51,604 Copying kssdtree.egg-info to build/bdist.linux-armv7l/wheel/./kssdtree-2.0.3-py3.11.egg-info 2024-11-19T03:56:51,617 running install_scripts 2024-11-19T03:56:51,676 creating build/bdist.linux-armv7l/wheel/kssdtree-2.0.3.dist-info/WHEEL 2024-11-19T03:56:51,680 creating '/tmp/pip-wheel-fwell1_1/kssdtree-2.0.3-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-11-19T03:56:51,747 adding 'dnj.cpython-311-arm-linux-gnueabihf.so' 2024-11-19T03:56:51,831 adding 'kssd.cpython-311-arm-linux-gnueabihf.so' 2024-11-19T03:56:51,836 adding 'kssdtree.py' 2024-11-19T03:56:51,857 adding 'nj.cpython-311-arm-linux-gnueabihf.so' 2024-11-19T03:56:51,860 adding 'toolutils.py' 2024-11-19T03:56:51,863 adding 'kssdtree-2.0.3.dist-info/METADATA' 2024-11-19T03:56:51,864 adding 'kssdtree-2.0.3.dist-info/WHEEL' 2024-11-19T03:56:51,866 adding 'kssdtree-2.0.3.dist-info/dependency_links.txt' 2024-11-19T03:56:51,867 adding 'kssdtree-2.0.3.dist-info/top_level.txt' 2024-11-19T03:56:51,868 adding 'kssdtree-2.0.3.dist-info/RECORD' 2024-11-19T03:56:51,880 removing build/bdist.linux-armv7l/wheel 2024-11-19T03:56:52,035 Building wheel for kssdtree (setup.py): finished with status 'done' 2024-11-19T03:56:52,042 Created wheel for kssdtree: filename=kssdtree-2.0.3-cp311-cp311-linux_armv7l.whl size=380899 sha256=d70b4b00c6bf4ff5b294b9ad2594aa1e32981df4b9869be9d13aafa0ff614bc3 2024-11-19T03:56:52,043 Stored in directory: /tmp/pip-ephem-wheel-cache-7mi4f5bg/wheels/2c/63/49/a6bfa59b09979548ffdec1846787a7e0dbdb4eba01fb0f3025 2024-11-19T03:56:52,052 Successfully built kssdtree 2024-11-19T03:56:52,066 Removed build tracker: '/tmp/pip-build-tracker-8st9cmay'