2025-09-14T09:24:08,646 Created temporary directory: /tmp/pip-build-tracker-239ll3y8 2025-09-14T09:24:08,647 Initialized build tracking at /tmp/pip-build-tracker-239ll3y8 2025-09-14T09:24:08,647 Created build tracker: /tmp/pip-build-tracker-239ll3y8 2025-09-14T09:24:08,647 Entered build tracker: /tmp/pip-build-tracker-239ll3y8 2025-09-14T09:24:08,647 Created temporary directory: /tmp/pip-wheel-q5_l1f9e 2025-09-14T09:24:08,651 Created temporary directory: /tmp/pip-ephem-wheel-cache-wmttk2aw 2025-09-14T09:24:08,711 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-14T09:24:08,714 2 location(s) to search for versions of kssdtree: 2025-09-14T09:24:08,714 * https://pypi.org/simple/kssdtree/ 2025-09-14T09:24:08,714 * https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:24:08,714 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2025-09-14T09:24:08,715 Getting page https://pypi.org/simple/kssdtree/ 2025-09-14T09:24:08,716 Found index url https://pypi.org/simple/ 2025-09-14T09:24:08,792 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2025-09-14T09:24:08,795 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 2025-09-14T09:24:08,795 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 2025-09-14T09:24:08,795 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 2025-09-14T09:24:08,796 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 2025-09-14T09:24:08,796 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 2025-09-14T09:24:08,796 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 2025-09-14T09:24:08,796 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 2025-09-14T09:24:08,797 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 2025-09-14T09:24:08,797 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 2025-09-14T09:24:08,797 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 2025-09-14T09:24:08,797 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 2025-09-14T09:24:08,798 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 2025-09-14T09:24:08,798 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 2025-09-14T09:24:08,798 Found link https://files.pythonhosted.org/packages/b5/f8/19480a4c57704944f973ebf534f9582054949cca20170a33c6f874974440/kssdtree-2.0.5.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.5 2025-09-14T09:24:08,798 Found link https://files.pythonhosted.org/packages/46/ef/2d920d5d2fceded48c7add363e04f49ae85414bcd4360e1295d6fddc4a24/kssdtree-2.0.6.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.6 2025-09-14T09:24:08,799 Found link https://files.pythonhosted.org/packages/9c/1c/c6b3f05465d145856ac992328bd59e776286a59b120254620c1dbffcf67f/kssdtree-2.0.7.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.7 2025-09-14T09:24:08,799 Found link https://files.pythonhosted.org/packages/82/9b/dac2af6572f0c4421e5ba8341dcfddac466de30c62acfa019d9ef70b2670/kssdtree-2.0.8.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.8 2025-09-14T09:24:08,799 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:24:08,800 Getting page https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:24:08,801 Found index url https://www.piwheels.org/simple/ 2025-09-14T09:24:08,896 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2025-09-14T09:24:08,909 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.8-cp311-cp311-linux_armv6l.whl#sha256=af8a0b06198bfd1ce24b078cdad070d5c587b126973ade98efa6ab13b9c2fc32 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,910 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.8-cp311-cp311-linux_armv7l.whl#sha256=af8a0b06198bfd1ce24b078cdad070d5c587b126973ade98efa6ab13b9c2fc32 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,910 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.7-cp311-cp311-linux_armv6l.whl#sha256=f267901a8f679be9a77fc090fb1c15f5144a295e5158a4ff2e62e2ba29fec967 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,910 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.7-cp311-cp311-linux_armv7l.whl#sha256=f267901a8f679be9a77fc090fb1c15f5144a295e5158a4ff2e62e2ba29fec967 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,910 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.6-cp311-cp311-linux_armv6l.whl#sha256=e1e02281e0fc8ed3b80b596a811ca2a9b50cb7affb3649479228d59c074c1f94 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,910 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.6-cp311-cp311-linux_armv7l.whl#sha256=e1e02281e0fc8ed3b80b596a811ca2a9b50cb7affb3649479228d59c074c1f94 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.5-cp311-cp311-linux_armv6l.whl#sha256=cecf3000ed0ffcd720412023d8de2f213356363c01aa3193441c040ed34353d3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.5-cp311-cp311-linux_armv7l.whl#sha256=cecf3000ed0ffcd720412023d8de2f213356363c01aa3193441c040ed34353d3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.5-cp39-cp39-linux_armv6l.whl#sha256=db08595adc89347b61965ba36e918055e8a0dc5f6a2b0bdfe16133eb363412d3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.5-cp39-cp39-linux_armv7l.whl#sha256=db08595adc89347b61965ba36e918055e8a0dc5f6a2b0bdfe16133eb363412d3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp311-cp311-linux_armv6l.whl#sha256=97a69f799c2d1b7024a9033b8a1e3fc17af4748a1ed726f52397d884303eb870 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp311-cp311-linux_armv7l.whl#sha256=97a69f799c2d1b7024a9033b8a1e3fc17af4748a1ed726f52397d884303eb870 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,911 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp39-cp39-linux_armv6l.whl#sha256=00938a03bead64e58bc1928832b7952b04d844e79b41da12160490c7edbb9e9f (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,912 Skipping link: No binaries permitted for kssdtree: 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https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp39-cp39-linux_armv6l.whl#sha256=f629766f3426bb8a83c6f4adca8b02b03cb85452c129c9694cef65efd715fabd (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,912 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp39-cp39-linux_armv7l.whl#sha256=f629766f3426bb8a83c6f4adca8b02b03cb85452c129c9694cef65efd715fabd (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,912 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp311-cp311-linux_armv6l.whl#sha256=ae7417e30efd12d8c6800d4167141c94a93f1ce51afd5ae9196cdfb6057ca7d2 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp311-cp311-linux_armv7l.whl#sha256=ae7417e30efd12d8c6800d4167141c94a93f1ce51afd5ae9196cdfb6057ca7d2 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp39-cp39-linux_armv6l.whl#sha256=599ca3576cae9c0ef5ce475baaee98faa1478f8fd034062ddf88f823c9c91b10 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp39-cp39-linux_armv7l.whl#sha256=599ca3576cae9c0ef5ce475baaee98faa1478f8fd034062ddf88f823c9c91b10 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.1-cp311-cp311-linux_armv6l.whl#sha256=8b8c3190a5a4a010758772e9d53c3c12436541437bc9c503bec9a8f6a007cdcc (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.1-cp311-cp311-linux_armv7l.whl#sha256=8b8c3190a5a4a010758772e9d53c3c12436541437bc9c503bec9a8f6a007cdcc (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp311-cp311-linux_armv6l.whl#sha256=16a2e46376ed2874435371fd57a97405d4b631b35c014b9e395a4528a1e655b8 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,913 Skipping link: No binaries permitted for kssdtree: 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https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp311-cp311-linux_armv6l.whl#sha256=717afc6606ad3045caac8f3f1cd01a37edd2f01f1cc38bc1bc6c3320882bd392 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,915 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp311-cp311-linux_armv7l.whl#sha256=717afc6606ad3045caac8f3f1cd01a37edd2f01f1cc38bc1bc6c3320882bd392 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,915 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp311-cp311-linux_armv6l.whl#sha256=388a8dabd657ea83e6d22b52300337c74e9d84e506806cfd4d2a76eb98777e17 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,915 Skipping link: No binaries permitted for kssdtree: 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https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv6l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,916 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv7l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,916 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp39-cp39-linux_armv6l.whl#sha256=9defb70b5162efc2c0eb6e415a7e37c604aa9b248a006af86af8f59a3bce5d2b (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,916 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp39-cp39-linux_armv7l.whl#sha256=9defb70b5162efc2c0eb6e415a7e37c604aa9b248a006af86af8f59a3bce5d2b (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,916 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp37-cp37m-linux_armv6l.whl#sha256=ffef4ae0f634dd977cc2ec6798b9f36f73d788aca27bb7199f552d5513c34413 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,916 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp37-cp37m-linux_armv7l.whl#sha256=ffef4ae0f634dd977cc2ec6798b9f36f73d788aca27bb7199f552d5513c34413 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,916 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp311-cp311-linux_armv6l.whl#sha256=64b685362c3f9027bfeafdffb6a5d58c349a76fd551eeb7b98de146827463e75 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp311-cp311-linux_armv7l.whl#sha256=64b685362c3f9027bfeafdffb6a5d58c349a76fd551eeb7b98de146827463e75 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp39-cp39-linux_armv6l.whl#sha256=34527068d84569095aefee41a353c5dfc0dfa55b68097890da9a1eca2ee9b726 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp39-cp39-linux_armv7l.whl#sha256=34527068d84569095aefee41a353c5dfc0dfa55b68097890da9a1eca2ee9b726 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp311-cp311-linux_armv6l.whl#sha256=6b76f3b3f532934ad49a829e7bf8176af580f4687f1491c49c3f571bf081f961 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp311-cp311-linux_armv7l.whl#sha256=6b76f3b3f532934ad49a829e7bf8176af580f4687f1491c49c3f571bf081f961 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp37-cp37m-linux_armv6l.whl#sha256=d179f6c6c0ad4e0f06950e1609118b065b3476c47446325f6614bdbef5ede0d0 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,917 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp37-cp37m-linux_armv7l.whl#sha256=d179f6c6c0ad4e0f06950e1609118b065b3476c47446325f6614bdbef5ede0d0 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp39-cp39-linux_armv6l.whl#sha256=6df2298fa80eefa823153fa0b9db67e35da72da7f88c5949f4f637872ff22c3b (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp39-cp39-linux_armv7l.whl#sha256=6df2298fa80eefa823153fa0b9db67e35da72da7f88c5949f4f637872ff22c3b (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp311-cp311-linux_armv6l.whl#sha256=146b572fde14b0d0770e1c1cd90870ad6db4af293ade814fed7a49e3857f1444 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp311-cp311-linux_armv7l.whl#sha256=146b572fde14b0d0770e1c1cd90870ad6db4af293ade814fed7a49e3857f1444 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp37-cp37m-linux_armv6l.whl#sha256=8c0cc1974033765d6eeefdb635a506385b5f38e00361bd6de47ff1a83b07e12a (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp37-cp37m-linux_armv7l.whl#sha256=8c0cc1974033765d6eeefdb635a506385b5f38e00361bd6de47ff1a83b07e12a (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,918 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp39-cp39-linux_armv6l.whl#sha256=9f3fe3d3b4b4bde8b34a8f964ebde72f1efcc7833b9a0b34f6b9c8ff3ed595db (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp39-cp39-linux_armv7l.whl#sha256=9f3fe3d3b4b4bde8b34a8f964ebde72f1efcc7833b9a0b34f6b9c8ff3ed595db (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp311-cp311-linux_armv6l.whl#sha256=29b8e7f4a3e60084db855e6d587231253771ad57184a3265922d659512e136fb (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp311-cp311-linux_armv7l.whl#sha256=29b8e7f4a3e60084db855e6d587231253771ad57184a3265922d659512e136fb (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp37-cp37m-linux_armv6l.whl#sha256=34b00b40f17a95b2cc5cbabd880acc2c56996457b0acd265cace6966c10b9575 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp37-cp37m-linux_armv7l.whl#sha256=34b00b40f17a95b2cc5cbabd880acc2c56996457b0acd265cace6966c10b9575 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp39-cp39-linux_armv6l.whl#sha256=04471408d60c00f568404b1ab01ca89567b36a1aa50ef6041aceef07ed1e45f4 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,919 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp39-cp39-linux_armv7l.whl#sha256=04471408d60c00f568404b1ab01ca89567b36a1aa50ef6041aceef07ed1e45f4 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:24:08,920 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:24:08,920 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2025-09-14T09:24:08,946 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2025-09-14T09:24:08,947 Collecting kssdtree==1.1.7 2025-09-14T09:24:08,949 Created temporary directory: /tmp/pip-unpack-nhtp6vzw 2025-09-14T09:24:09,089 Downloading kssdtree-1.1.7.tar.gz (112 kB) 2025-09-14T09:24:09,192 Added kssdtree==1.1.7 from https://files.pythonhosted.org/packages/cd/4b/d886cbcc573ff0969da7d9c756049925b86141e60ee6708dfbbe0644d008/kssdtree-1.1.7.tar.gz to build tracker '/tmp/pip-build-tracker-239ll3y8' 2025-09-14T09:24:09,193 Running setup.py (path:/tmp/pip-wheel-q5_l1f9e/kssdtree_1732c1e94b5d4772b1f702d206503b94/setup.py) egg_info for package kssdtree 2025-09-14T09:24:09,194 Created temporary directory: /tmp/pip-pip-egg-info-sv9wtpm0 2025-09-14T09:24:09,194 Preparing metadata (setup.py): started 2025-09-14T09:24:09,195 Running command python setup.py egg_info 2025-09-14T09:24:10,581 running egg_info 2025-09-14T09:24:10,678 creating /tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info 2025-09-14T09:24:10,679 writing /tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/PKG-INFO 2025-09-14T09:24:10,680 writing dependency_links to /tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/dependency_links.txt 2025-09-14T09:24:10,681 writing requirements to /tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/requires.txt 2025-09-14T09:24:10,682 writing top-level names to /tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/top_level.txt 2025-09-14T09:24:10,682 writing manifest file '/tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:24:11,064 reading manifest file '/tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:24:11,065 reading manifest template 'MANIFEST.in' 2025-09-14T09:24:11,073 writing manifest file '/tmp/pip-pip-egg-info-sv9wtpm0/kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:24:11,212 Preparing metadata (setup.py): finished with status 'done' 2025-09-14T09:24:11,217 Source in /tmp/pip-wheel-q5_l1f9e/kssdtree_1732c1e94b5d4772b1f702d206503b94 has version 1.1.7, which satisfies requirement kssdtree==1.1.7 from https://files.pythonhosted.org/packages/cd/4b/d886cbcc573ff0969da7d9c756049925b86141e60ee6708dfbbe0644d008/kssdtree-1.1.7.tar.gz 2025-09-14T09:24:11,217 Removed kssdtree==1.1.7 from https://files.pythonhosted.org/packages/cd/4b/d886cbcc573ff0969da7d9c756049925b86141e60ee6708dfbbe0644d008/kssdtree-1.1.7.tar.gz from build tracker '/tmp/pip-build-tracker-239ll3y8' 2025-09-14T09:24:11,221 Created temporary directory: /tmp/pip-unpack-mx29qixf 2025-09-14T09:24:11,222 Created temporary directory: /tmp/pip-unpack-48g_9d5x 2025-09-14T09:24:11,222 Building wheels for collected packages: kssdtree 2025-09-14T09:24:11,223 Created temporary directory: /tmp/pip-wheel-0p3224nv 2025-09-14T09:24:11,224 DEPRECATION: Building 'kssdtree' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'kssdtree'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-09-14T09:24:11,225 Building wheel for kssdtree (setup.py): started 2025-09-14T09:24:11,226 Destination directory: /tmp/pip-wheel-0p3224nv 2025-09-14T09:24:11,226 Running command python setup.py bdist_wheel 2025-09-14T09:24:12,513 running bdist_wheel 2025-09-14T09:24:12,989 running build 2025-09-14T09:24:12,990 running build_py 2025-09-14T09:24:13,091 creating build/lib.linux-armv7l-cpython-313 2025-09-14T09:24:13,092 copying kssdtree.py -> build/lib.linux-armv7l-cpython-313 2025-09-14T09:24:13,093 copying toolutils.py -> build/lib.linux-armv7l-cpython-313 2025-09-14T09:24:13,094 running egg_info 2025-09-14T09:24:13,190 writing kssdtree.egg-info/PKG-INFO 2025-09-14T09:24:13,192 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2025-09-14T09:24:13,192 writing requirements to kssdtree.egg-info/requires.txt 2025-09-14T09:24:13,193 writing top-level names to kssdtree.egg-info/top_level.txt 2025-09-14T09:24:13,290 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:24:13,296 reading manifest template 'MANIFEST.in' 2025-09-14T09:24:13,304 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:24:13,305 running build_ext 2025-09-14T09:24:13,715 building 'kssd' extension 2025-09-14T09:24:13,718 creating build/temp.linux-armv7l-cpython-313 2025-09-14T09:24:13,719 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c co2mco.c -o build/temp.linux-armv7l-cpython-313/co2mco.o -fopenmp 2025-09-14T09:24:13,896 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-09-14T09:24:13,896 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-14T09:24:13,896 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-09-14T09:24:13,896 | ^ 2025-09-14T09:24:13,900 co2mco.c: In function ‘co2unitllmco’: 2025-09-14T09:24:13,900 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-14T09:24:13,900 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-09-14T09:24:13,900 | ^ 2025-09-14T09:24:14,669 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c command_composite.c -o build/temp.linux-armv7l-cpython-313/command_composite.o -fopenmp 2025-09-14T09:24:15,126 command_composite.c: In function ‘get_species_abundance’: 2025-09-14T09:24:15,126 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-14T09:24:15,127 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-09-14T09:24:15,127 | ^~ 2025-09-14T09:24:15,127 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-14T09:24:15,127 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-09-14T09:24:15,127 | ^~ 2025-09-14T09:24:15,127 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:15,127 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T09:24:15,127 | ^ 2025-09-14T09:24:15,127 command_composite.c:64:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:15,128 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T09:24:15,128 | ^~~~~~~~~~ 2025-09-14T09:24:15,128 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:24:15,128 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T09:24:15,128 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,128 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:15,128 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T09:24:15,128 | ^ 2025-09-14T09:24:15,128 command_composite.c:70:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:15,128 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T09:24:15,129 | ^~~~~~~~~~ 2025-09-14T09:24:15,129 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:24:15,129 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T09:24:15,129 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,129 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:15,129 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:24:15,129 | ^ 2025-09-14T09:24:15,129 command_composite.c:76:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:15,129 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:24:15,129 | ^~~~~~~~~~ 2025-09-14T09:24:15,130 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:24:15,130 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:24:15,130 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,130 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:15,130 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T09:24:15,130 | ^ 2025-09-14T09:24:15,130 command_composite.c:82:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:15,131 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T09:24:15,131 | ^~~~~~~~~~ 2025-09-14T09:24:15,131 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:24:15,131 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T09:24:15,131 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,131 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:15,131 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:24:15,131 | ^ 2025-09-14T09:24:15,131 command_composite.c:88:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:15,131 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:24:15,131 | ^~~~~~~~~~~~ 2025-09-14T09:24:15,132 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2025-09-14T09:24:15,132 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:24:15,132 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,428 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c command_dist.c -o build/temp.linux-armv7l-cpython-313/command_dist.o -fopenmp 2025-09-14T09:24:15,666 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-14T09:24:15,668 command_dist.c:678:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-14T09:24:15,668 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:24:15,668 | ~~^ 2025-09-14T09:24:15,668 | | 2025-09-14T09:24:15,668 | long unsigned int 2025-09-14T09:24:15,669 | %u 2025-09-14T09:24:15,669 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:24:15,669 | ~~~~~~~ 2025-09-14T09:24:15,669 | | 2025-09-14T09:24:15,669 | size_t {aka unsigned int} 2025-09-14T09:24:15,670 command_dist.c:678:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-14T09:24:15,670 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:24:15,670 | ~~^ 2025-09-14T09:24:15,670 | | 2025-09-14T09:24:15,670 | long unsigned int 2025-09-14T09:24:15,671 | %u 2025-09-14T09:24:15,671 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:24:15,671 680 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:24:15,671 | ~~~~~~~~~ 2025-09-14T09:24:15,671 | | 2025-09-14T09:24:15,671 | size_t {aka unsigned int} 2025-09-14T09:24:15,672 command_dist.c:678:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T09:24:15,672 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:24:15,672 | ~~^ 2025-09-14T09:24:15,672 | | 2025-09-14T09:24:15,672 | long unsigned int 2025-09-14T09:24:15,672 | %u 2025-09-14T09:24:15,673 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:24:15,673 680 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:24:15,673 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,673 | | 2025-09-14T09:24:15,673 | unsigned int 2025-09-14T09:24:15,675 command_dist.c:716:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T09:24:15,676 716 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-09-14T09:24:15,676 | ^ 2025-09-14T09:24:15,683 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-14T09:24:15,686 command_dist.c:864:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-14T09:24:15,686 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T09:24:15,686 | ~~^ ~~~~~~~ 2025-09-14T09:24:15,686 | | | 2025-09-14T09:24:15,686 | long unsigned int size_t {aka unsigned int} 2025-09-14T09:24:15,686 | %u 2025-09-14T09:24:15,688 command_dist.c:864:93: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-14T09:24:15,688 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T09:24:15,688 | ~~^ 2025-09-14T09:24:15,689 | | 2025-09-14T09:24:15,689 | long unsigned int 2025-09-14T09:24:15,689 | %u 2025-09-14T09:24:15,689 865 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-14T09:24:15,689 | ~~~~~~~~~ 2025-09-14T09:24:15,689 | | 2025-09-14T09:24:15,689 | size_t {aka unsigned int} 2025-09-14T09:24:15,691 command_dist.c:864:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T09:24:15,691 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T09:24:15,691 | ~~^ 2025-09-14T09:24:15,691 | | 2025-09-14T09:24:15,691 | long unsigned int 2025-09-14T09:24:15,691 | %u 2025-09-14T09:24:15,691 865 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-14T09:24:15,691 866 | (size_t) b * unitsz_distf_mapped); 2025-09-14T09:24:15,692 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,692 | | 2025-09-14T09:24:15,692 | unsigned int 2025-09-14T09:24:15,694 command_dist.c:811:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-09-14T09:24:15,694 811 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-09-14T09:24:15,694 | ^~~~~~~ 2025-09-14T09:24:15,695 command_dist.c:810:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-09-14T09:24:15,695 810 | struct stat cbd_fcode_stat; 2025-09-14T09:24:15,695 | ^~~~~~~~~~~~~~ 2025-09-14T09:24:15,696 command_dist.c:809:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-09-14T09:24:15,696 809 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-14T09:24:15,696 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,697 command_dist.c:809:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-09-14T09:24:15,697 809 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-14T09:24:15,697 | ^~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,704 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-14T09:24:15,707 command_dist.c:1019:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-14T09:24:15,707 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:24:15,707 | ~~^ 2025-09-14T09:24:15,707 | | 2025-09-14T09:24:15,707 | long unsigned int 2025-09-14T09:24:15,707 | %u 2025-09-14T09:24:15,707 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:24:15,708 | ~~~~~~~ 2025-09-14T09:24:15,708 | | 2025-09-14T09:24:15,708 | size_t {aka unsigned int} 2025-09-14T09:24:15,710 command_dist.c:1019:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-14T09:24:15,710 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:24:15,710 | ~~^ 2025-09-14T09:24:15,710 | | 2025-09-14T09:24:15,710 | long unsigned int 2025-09-14T09:24:15,710 | %u 2025-09-14T09:24:15,711 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:24:15,711 1021 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:24:15,711 | ~~~~~~~~~ 2025-09-14T09:24:15,711 | | 2025-09-14T09:24:15,711 | size_t {aka unsigned int} 2025-09-14T09:24:15,713 command_dist.c:1019:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T09:24:15,713 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:24:15,713 | ~~^ 2025-09-14T09:24:15,713 | | 2025-09-14T09:24:15,713 | long unsigned int 2025-09-14T09:24:15,713 | %u 2025-09-14T09:24:15,713 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:24:15,714 1021 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:24:15,714 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:15,714 | | 2025-09-14T09:24:15,714 | unsigned int 2025-09-14T09:24:15,719 command_dist.c: In function ‘mco_co_dist_core’: 2025-09-14T09:24:15,720 command_dist.c:1117:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T09:24:15,720 1117 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-09-14T09:24:15,721 | ^ 2025-09-14T09:24:15,722 command_dist.c: In function ‘fname_dist_print’: 2025-09-14T09:24:15,723 command_dist.c:1164:25: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘__off64_t’ {aka ‘long long int’} [-Wsign-compare] 2025-09-14T09:24:15,723 1164 | for (llong i = 0; i < s.st_size / sizeof(ctx_obj_ct_t); i++) { 2025-09-14T09:24:15,723 | ^ 2025-09-14T09:24:15,729 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-09-14T09:24:15,731 command_dist.c:1240:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:24:15,731 1240 | for (int rid = 0; rid < ref_num; rid++) 2025-09-14T09:24:15,731 | ^ 2025-09-14T09:24:15,733 command_dist.c:1246:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:24:15,734 1246 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-14T09:24:15,734 | ^ 2025-09-14T09:24:15,741 command_dist.c: In function ‘dist_print_nobin’: 2025-09-14T09:24:15,743 command_dist.c:1336:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:24:15,743 1336 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-09-14T09:24:15,743 | ^ 2025-09-14T09:24:15,746 command_dist.c:1357:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:24:15,746 1357 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-14T09:24:15,746 | ^ 2025-09-14T09:24:15,749 command_dist.c:1383:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:24:15,749 1383 | for (int rid = 0; rid < ref_num; rid++) 2025-09-14T09:24:15,749 | ^ 2025-09-14T09:24:16,195 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-09-14T09:24:16,195 command_dist.c:404:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2025-09-14T09:24:16,196 404 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-09-14T09:24:16,196 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:16,196 command_dist.c:376:40: note: ‘com_abund_fp’ was declared here 2025-09-14T09:24:16,196 376 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-09-14T09:24:16,196 | ^~~~~~~~~~~~ 2025-09-14T09:24:17,102 command_dist.c: In function ‘get_dim_shuffle’: 2025-09-14T09:24:17,103 command_dist.c:268:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-09-14T09:24:17,103 268 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-14T09:24:17,103 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:17,103 command_dist.c:268:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-09-14T09:24:17,103 268 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-14T09:24:17,103 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,133 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-14T09:24:18,134 command_dist.c:597:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:18,134 597 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:24:18,134 | ^~ ~~~~~~~~~ 2025-09-14T09:24:18,135 command_dist.c:597:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T09:24:18,135 597 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:24:18,135 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,136 command_dist.c:626:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,136 626 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:24:18,137 | ^~~~~~~~~~~~~~~ 2025-09-14T09:24:18,137 command_dist.c:626:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T09:24:18,137 626 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:24:18,137 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,140 command_dist.c:682:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,140 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:24:18,140 | ^~~~~~~~~~~ 2025-09-14T09:24:18,141 command_dist.c:682:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:18,141 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:24:18,142 | ^~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,142 command_dist.c:682:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-14T09:24:18,142 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:24:18,142 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,143 command_dist.c:683:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,143 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:24:18,143 | ^~~~~ 2025-09-14T09:24:18,144 command_dist.c:683:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:18,144 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:24:18,144 | ^~~~~~~~~~~ 2025-09-14T09:24:18,145 command_dist.c:683:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:24:18,145 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:24:18,145 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,428 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-14T09:24:18,429 command_dist.c:764:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:18,430 764 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:24:18,430 | ^~ ~~~~~~~~~ 2025-09-14T09:24:18,430 command_dist.c:764:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T09:24:18,431 764 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:24:18,431 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,432 command_dist.c:791:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,432 791 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:24:18,432 | ^~~~~~~~~~~~~~~ 2025-09-14T09:24:18,433 command_dist.c:791:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T09:24:18,433 791 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:24:18,433 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,434 command_dist.c:824:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,434 824 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:24:18,434 | ^~~~~~~~~~~~~ 2025-09-14T09:24:18,435 command_dist.c:824:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T09:24:18,435 824 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:24:18,435 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,436 command_dist.c:850:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:18,437 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T09:24:18,437 | ^ 2025-09-14T09:24:18,438 command_dist.c:850:33: note: directive argument in the range [0, 536870912] 2025-09-14T09:24:18,438 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T09:24:18,438 | ^~~~~~~~~~ 2025-09-14T09:24:18,439 command_dist.c:850:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-14T09:24:18,439 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T09:24:18,439 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,440 command_dist.c:852:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:18,440 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T09:24:18,440 | ^ 2025-09-14T09:24:18,441 command_dist.c:852:28: note: directive argument in the range [0, 536870912] 2025-09-14T09:24:18,441 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T09:24:18,441 | ^~~~~~~~~~ 2025-09-14T09:24:18,442 command_dist.c:852:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-14T09:24:18,443 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T09:24:18,443 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,741 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-14T09:24:18,742 command_dist.c:928:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:18,742 928 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:24:18,743 | ^~ ~~~~~~~~~ 2025-09-14T09:24:18,744 command_dist.c:928:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T09:24:18,744 928 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:24:18,744 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,745 command_dist.c:957:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,745 957 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:24:18,745 | ^~~~~~~~~~~~~~~ 2025-09-14T09:24:18,746 command_dist.c:957:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T09:24:18,746 957 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:24:18,747 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,748 command_dist.c:991:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,748 991 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:24:18,748 | ^~~~~~~~~~~~~ 2025-09-14T09:24:18,749 command_dist.c:991:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T09:24:18,749 991 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:24:18,749 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,752 command_dist.c:1023:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,752 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:24:18,752 | ^~~~~~~~~~~ 2025-09-14T09:24:18,753 command_dist.c:1023:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:18,753 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:24:18,753 | ^~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,754 command_dist.c:1023:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-14T09:24:18,755 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:24:18,755 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:18,756 command_dist.c:1024:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:24:18,756 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:24:18,756 | ^~~~~ 2025-09-14T09:24:18,757 command_dist.c:1024:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:18,757 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:24:18,757 | ^~~~~~~~~~~ 2025-09-14T09:24:18,759 command_dist.c:1024:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:24:18,759 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:24:18,759 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:19,069 command_dist.c: In function ‘combine_queries’: 2025-09-14T09:24:19,071 command_dist.c:1493:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:19,071 1493 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-14T09:24:19,071 | ^ 2025-09-14T09:24:19,073 command_dist.c:1493:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:19,073 1493 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-14T09:24:19,073 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:19,075 command_dist.c:1500:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:19,075 1500 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-14T09:24:19,075 | ^ 2025-09-14T09:24:19,077 command_dist.c:1500:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:19,077 1500 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-14T09:24:19,078 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:19,081 command_dist.c:1604:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:19,081 1604 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-14T09:24:19,081 | ^~ ~~~~~~~~ 2025-09-14T09:24:19,083 command_dist.c:1604:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T09:24:19,083 1604 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-14T09:24:19,083 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:19,640 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-313/command_dist_wrapper.o -fopenmp 2025-09-14T09:24:19,834 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c command_set.c -o build/temp.linux-armv7l-cpython-313/command_set.o -fopenmp 2025-09-14T09:24:20,012 command_set.c: In function ‘sketch_operate’: 2025-09-14T09:24:20,013 command_set.c:179:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T09:24:20,013 179 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-09-14T09:24:20,013 | ^ 2025-09-14T09:24:20,027 command_set.c: In function ‘combin_subset_pans’: 2025-09-14T09:24:20,027 command_set.c:458:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-14T09:24:20,027 458 | free(co_dstat_fpath); 2025-09-14T09:24:20,027 | ^~~~~~~~~~~~~~ 2025-09-14T09:24:20,028 In file included from kssdheaders/global_basic.h:159, 2025-09-14T09:24:20,028 from command_set.c:15: 2025-09-14T09:24:20,028 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-14T09:24:20,028 687 | extern void free (void *__ptr) __THROW; 2025-09-14T09:24:20,028 | ~~~~~~^~~~~ 2025-09-14T09:24:20,035 command_set.c: In function ‘grouping_genomes’: 2025-09-14T09:24:20,036 command_set.c:563:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-14T09:24:20,036 563 | free(co_dstat_fpath); 2025-09-14T09:24:20,036 | ^~~~~~~~~~~~~~ 2025-09-14T09:24:20,036 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-14T09:24:20,036 687 | extern void free (void *__ptr) __THROW; 2025-09-14T09:24:20,036 | ~~~~~~^~~~~ 2025-09-14T09:24:20,235 command_set.c: In function ‘sketch_union’: 2025-09-14T09:24:20,235 command_set.c:72:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:20,235 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,235 | ^ 2025-09-14T09:24:20,235 command_set.c:72:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:20,235 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,235 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,235 command_set.c:83:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,236 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:24:20,236 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,236 command_set.c:83:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,236 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:24:20,236 | ^~~~~~~~~~ 2025-09-14T09:24:20,236 command_set.c:83:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:20,236 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:24:20,236 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,236 command_set.c:93:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,236 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T09:24:20,237 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:20,237 command_set.c:93:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,237 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T09:24:20,237 | ^~~~~~~~~~ 2025-09-14T09:24:20,237 command_set.c:93:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:24:20,237 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T09:24:20,237 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,383 command_set.c: In function ‘sketch_operate’: 2025-09-14T09:24:20,383 command_set.c:154:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,383 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T09:24:20,383 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:20,383 command_set.c:154:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,383 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T09:24:20,384 | ^~~~~~~~~~ 2025-09-14T09:24:20,384 command_set.c:154:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:24:20,384 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T09:24:20,384 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,384 command_set.c:156:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,384 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T09:24:20,384 | ^~ ~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,384 command_set.c:156:29: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,384 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T09:24:20,384 | ^~~~~~~~~~ 2025-09-14T09:24:20,385 command_set.c:156:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-14T09:24:20,385 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T09:24:20,385 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,385 command_set.c:166:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,385 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:24:20,385 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,385 command_set.c:166:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,385 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:24:20,385 | ^~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,385 command_set.c:166:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:24:20,385 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:24:20,386 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,386 command_set.c:170:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,386 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:24:20,386 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,386 command_set.c:170:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,386 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:24:20,386 | ^~~~~~~~~~ 2025-09-14T09:24:20,386 command_set.c:170:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:20,386 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:24:20,386 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,386 command_set.c:175:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,387 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:24:20,387 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,387 command_set.c:175:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,387 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:24:20,387 | ^~~~~~~~~~ 2025-09-14T09:24:20,387 command_set.c:175:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:20,387 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:24:20,387 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,387 command_set.c:188:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,387 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:24:20,387 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,387 command_set.c:188:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,388 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:24:20,388 | ^~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,388 command_set.c:188:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:24:20,388 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:24:20,388 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,388 command_set.c:193:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:20,388 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,388 | ^ 2025-09-14T09:24:20,388 command_set.c:193:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:20,389 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,389 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,579 command_set.c: In function ‘uniq_sketch_union’: 2025-09-14T09:24:20,579 command_set.c:220:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:20,579 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-14T09:24:20,579 | ^ 2025-09-14T09:24:20,580 command_set.c:220:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2025-09-14T09:24:20,580 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-14T09:24:20,580 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,580 command_set.c:235:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:20,580 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,580 | ^ 2025-09-14T09:24:20,580 command_set.c:235:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:20,581 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,581 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,581 command_set.c:248:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,581 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:24:20,581 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,582 command_set.c:248:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,582 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:24:20,582 | ^~~~~~~~~~ 2025-09-14T09:24:20,582 command_set.c:248:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:20,582 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:24:20,582 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,583 command_set.c:260:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,583 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T09:24:20,583 | ^~ ~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,583 command_set.c:260:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,583 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T09:24:20,583 | ^~~~~~~~~~ 2025-09-14T09:24:20,583 command_set.c:260:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-14T09:24:20,583 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T09:24:20,584 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,744 command_set.c: In function ‘combin_pans’: 2025-09-14T09:24:20,744 command_set.c:298:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,745 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:20,745 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,745 command_set.c:298:25: note: directive argument in the range [0, 1073741823] 2025-09-14T09:24:20,745 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:20,745 | ^~~~~~~~~~ 2025-09-14T09:24:20,745 command_set.c:298:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-09-14T09:24:20,745 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:20,745 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,746 command_set.c:301:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,746 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:20,746 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:20,746 command_set.c:301:25: note: directive argument in the range [0, 1073741823] 2025-09-14T09:24:20,746 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:20,746 | ^~~~~~~~~~ 2025-09-14T09:24:20,747 command_set.c:301:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-09-14T09:24:20,747 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:20,747 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,748 command_set.c:343:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:20,748 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,748 | ^ 2025-09-14T09:24:20,748 command_set.c:343:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:20,748 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:20,748 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,990 command_set.c: In function ‘combin_subset_pans’: 2025-09-14T09:24:20,991 command_set.c:470:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,991 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:24:20,991 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,992 command_set.c:470:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,992 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:24:20,992 | ^~~~~~~~~~ 2025-09-14T09:24:20,993 command_set.c:470:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:20,993 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:24:20,993 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,993 command_set.c:476:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,994 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:24:20,994 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:20,994 command_set.c:476:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,994 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:24:20,994 | ^~~~~~~~~~ 2025-09-14T09:24:20,995 command_set.c:476:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:24:20,995 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:24:20,995 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,996 command_set.c:482:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,996 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:20,996 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:20,996 command_set.c:482:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,996 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:20,996 | ^~~~~~~~~~ 2025-09-14T09:24:20,997 command_set.c:482:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:20,997 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:20,997 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:20,998 command_set.c:513:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:20,998 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:20,998 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:20,999 command_set.c:513:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:20,999 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:20,999 | ^~~~~~~~~~ 2025-09-14T09:24:20,999 command_set.c:513:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:24:21,000 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:21,000 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,000 command_set.c:524:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:21,000 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:21,000 | ^ 2025-09-14T09:24:21,001 command_set.c:524:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:21,001 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:21,001 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,267 command_set.c: In function ‘grouping_genomes’: 2025-09-14T09:24:21,268 command_set.c:575:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:21,268 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:24:21,268 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:21,269 command_set.c:575:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:21,269 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:24:21,269 | ^~~~~~~~~~ 2025-09-14T09:24:21,270 command_set.c:575:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:21,270 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:24:21,270 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,271 command_set.c:581:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:21,271 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:24:21,271 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:21,271 command_set.c:581:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:21,272 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:24:21,272 | ^~~~~~~~~~ 2025-09-14T09:24:21,272 command_set.c:581:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:24:21,272 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:24:21,272 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,274 command_set.c:613:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:21,274 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:21,274 | ^~ ~~~~~~~~~~~ 2025-09-14T09:24:21,274 command_set.c:613:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:21,275 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:21,275 | ^~~~~~~~~~ 2025-09-14T09:24:21,275 command_set.c:613:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:24:21,275 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:24:21,276 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,277 command_set.c:635:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:24:21,277 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:21,277 | ^~ ~~~~~~~~~~ 2025-09-14T09:24:21,278 command_set.c:635:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:24:21,278 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:21,278 | ^~~~~~~~~~ 2025-09-14T09:24:21,278 command_set.c:635:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:24:21,278 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:24:21,279 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,279 command_set.c:646:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:24:21,280 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:21,280 | ^ 2025-09-14T09:24:21,280 command_set.c:646:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:24:21,280 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:24:21,280 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:24:21,593 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-313/command_shuffle.o -fopenmp 2025-09-14T09:24:21,957 arm-linux-gnueabihf-gcc -fno-strict-overflow -Wsign-compare -DNDEBUG -g -O2 -Wall -fPIC -Ikssdheaders -I/usr/include/python3.13 -c global_basic.c -o build/temp.linux-armv7l-cpython-313/global_basic.o -fopenmp 2025-09-14T09:24:22,141 global_basic.c: In function ‘organize_infile_list’: 2025-09-14T09:24:22,141 global_basic.c:195:20: error: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-09-14T09:24:22,141 195 | while (isspace(*buf)) buf++; 2025-09-14T09:24:22,141 | ^~~~~~~ 2025-09-14T09:24:22,141 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2025-09-14T09:24:22,141 34 | #include 2025-09-14T09:24:22,142 +++ |+#include 2025-09-14T09:24:22,142 35 | 2025-09-14T09:24:22,142 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=] 2025-09-14T09:24:22,142 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-14T09:24:22,142 | ~~^ 2025-09-14T09:24:22,142 | | 2025-09-14T09:24:22,142 | long unsigned int 2025-09-14T09:24:22,142 | %u 2025-09-14T09:24:22,143 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-14T09:24:22,143 | ~~~~~~~~~~~ 2025-09-14T09:24:22,143 | | 2025-09-14T09:24:22,143 | size_t {aka unsigned int} 2025-09-14T09:24:22,143 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=] 2025-09-14T09:24:22,144 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-14T09:24:22,144 | ~~^ 2025-09-14T09:24:22,144 | | 2025-09-14T09:24:22,144 | long unsigned int 2025-09-14T09:24:22,144 | %u 2025-09-14T09:24:22,144 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-14T09:24:22,144 | ~~~~~~~~~~~ 2025-09-14T09:24:22,144 | | 2025-09-14T09:24:22,145 | size_t {aka unsigned int} 2025-09-14T09:24:22,166 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-14T09:24:22,346 ERROR: python setup.py bdist_wheel exited with 1 2025-09-14T09:24:22,360 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-14T09:24:22,360 exec(compile('"'"''"'"''"'"' 2025-09-14T09:24:22,360 # This is -- a caller that pip uses to run setup.py 2025-09-14T09:24:22,360 # 2025-09-14T09:24:22,360 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-14T09:24:22,360 # import from `distutils.core` to work with newer packaging standards. 2025-09-14T09:24:22,360 # - It provides a clear error message when setuptools is not installed. 2025-09-14T09:24:22,360 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-14T09:24:22,360 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-14T09:24:22,360 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-14T09:24:22,360 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-14T09:24:22,360 import os, sys, tokenize, traceback 2025-09-14T09:24:22,360 2025-09-14T09:24:22,360 try: 2025-09-14T09:24:22,360 import setuptools 2025-09-14T09:24:22,360 except ImportError: 2025-09-14T09:24:22,360 print( 2025-09-14T09:24:22,360 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-14T09:24:22,360 "the build environment with exception:", 2025-09-14T09:24:22,360 file=sys.stderr, 2025-09-14T09:24:22,360 ) 2025-09-14T09:24:22,360 traceback.print_exc() 2025-09-14T09:24:22,360 sys.exit(1) 2025-09-14T09:24:22,360 2025-09-14T09:24:22,360 __file__ = %r 2025-09-14T09:24:22,360 sys.argv[0] = __file__ 2025-09-14T09:24:22,360 2025-09-14T09:24:22,360 if os.path.exists(__file__): 2025-09-14T09:24:22,360 filename = __file__ 2025-09-14T09:24:22,360 with tokenize.open(__file__) as f: 2025-09-14T09:24:22,360 setup_py_code = f.read() 2025-09-14T09:24:22,360 else: 2025-09-14T09:24:22,360 filename = "" 2025-09-14T09:24:22,360 setup_py_code = "from setuptools import setup; setup()" 2025-09-14T09:24:22,360 2025-09-14T09:24:22,360 exec(compile(setup_py_code, filename, "exec")) 2025-09-14T09:24:22,360 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-q5_l1f9e/kssdtree_1732c1e94b5d4772b1f702d206503b94/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-0p3224nv[/] 2025-09-14T09:24:22,361 [bold magenta]cwd[/]: /tmp/pip-wheel-q5_l1f9e/kssdtree_1732c1e94b5d4772b1f702d206503b94/ 2025-09-14T09:24:22,361 Building wheel for kssdtree (setup.py): finished with status 'error' 2025-09-14T09:24:22,362 ERROR: Failed building wheel for kssdtree 2025-09-14T09:24:22,363 Running setup.py clean for kssdtree 2025-09-14T09:24:22,364 Running command python setup.py clean 2025-09-14T09:24:23,639 running clean 2025-09-14T09:24:23,813 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-14T09:24:23,814 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-14T09:24:23,814 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-14T09:24:23,815 'build/scripts-3.13' does not exist -- can't clean it 2025-09-14T09:24:23,815 removing 'build' 2025-09-14T09:24:23,944 Failed to build kssdtree 2025-09-14T09:24:23,945 ERROR: Failed to build one or more wheels 2025-09-14T09:24:23,946 Exception information: 2025-09-14T09:24:23,946 Traceback (most recent call last): 2025-09-14T09:24:23,946 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-14T09:24:23,946 status = _inner_run() 2025-09-14T09:24:23,946 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-14T09:24:23,946 return self.run(options, args) 2025-09-14T09:24:23,946 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-14T09:24:23,946 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-14T09:24:23,946 return func(self, options, args) 2025-09-14T09:24:23,946 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-14T09:24:23,946 raise CommandError("Failed to build one or more wheels") 2025-09-14T09:24:23,946 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-14T09:24:23,951 Removed build tracker: '/tmp/pip-build-tracker-239ll3y8'