2025-09-14T09:44:59,242 Created temporary directory: /tmp/pip-build-tracker-yqv3f_2a 2025-09-14T09:44:59,243 Initialized build tracking at /tmp/pip-build-tracker-yqv3f_2a 2025-09-14T09:44:59,243 Created build tracker: /tmp/pip-build-tracker-yqv3f_2a 2025-09-14T09:44:59,243 Entered build tracker: /tmp/pip-build-tracker-yqv3f_2a 2025-09-14T09:44:59,244 Created temporary directory: /tmp/pip-wheel-_krdgh1x 2025-09-14T09:44:59,247 Created temporary directory: /tmp/pip-ephem-wheel-cache-1vwin69l 2025-09-14T09:44:59,310 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-14T09:44:59,313 2 location(s) to search for versions of kssdtree: 2025-09-14T09:44:59,313 * https://pypi.org/simple/kssdtree/ 2025-09-14T09:44:59,313 * https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:44:59,314 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2025-09-14T09:44:59,314 Getting page https://pypi.org/simple/kssdtree/ 2025-09-14T09:44:59,315 Found index url https://pypi.org/simple/ 2025-09-14T09:44:59,392 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2025-09-14T09:44:59,394 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 2025-09-14T09:44:59,395 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 2025-09-14T09:44:59,395 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 2025-09-14T09:44:59,395 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 2025-09-14T09:44:59,395 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 2025-09-14T09:44:59,396 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 2025-09-14T09:44:59,396 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 2025-09-14T09:44:59,396 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 2025-09-14T09:44:59,396 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 2025-09-14T09:44:59,397 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 2025-09-14T09:44:59,397 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 2025-09-14T09:44:59,397 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 2025-09-14T09:44:59,397 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 2025-09-14T09:44:59,398 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 2025-09-14T09:44:59,398 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 2025-09-14T09:44:59,398 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 2025-09-14T09:44:59,398 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 2025-09-14T09:44:59,399 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:44:59,399 Getting page https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:44:59,400 Found index url https://www.piwheels.org/simple/ 2025-09-14T09:44:59,643 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2025-09-14T09:44:59,657 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/) 2025-09-14T09:44:59,657 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/) 2025-09-14T09:44:59,657 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/) 2025-09-14T09:44:59,657 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/) 2025-09-14T09:44:59,658 Skipping link: No binaries permitted for kssdtree: 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https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.5-cp311-cp311-linux_armv7l.whl#sha256=cecf3000ed0ffcd720412023d8de2f213356363c01aa3193441c040ed34353d3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T09:44:59,658 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/) 2025-09-14T09:44:59,658 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/) 2025-09-14T09:44:59,659 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/) 2025-09-14T09:44:59,660 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/) 2025-09-14T09:44:59,660 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/) 2025-09-14T09:44:59,660 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/) 2025-09-14T09:44:59,660 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/) 2025-09-14T09:44:59,660 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/) 2025-09-14T09:44:59,660 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/) 2025-09-14T09:44:59,661 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/) 2025-09-14T09:44:59,661 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/) 2025-09-14T09:44:59,661 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/) 2025-09-14T09:44:59,662 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/) 2025-09-14T09:44:59,663 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/) 2025-09-14T09:44:59,663 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/) 2025-09-14T09:44:59,663 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/) 2025-09-14T09:44:59,663 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,664 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,665 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,666 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/) 2025-09-14T09:44:59,667 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/) 2025-09-14T09:44:59,667 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/) 2025-09-14T09:44:59,667 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/) 2025-09-14T09:44:59,667 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/) 2025-09-14T09:44:59,667 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2025-09-14T09:44:59,667 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2025-09-14T09:44:59,694 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2025-09-14T09:44:59,695 Collecting kssdtree==2.0.1 2025-09-14T09:44:59,696 Created temporary directory: /tmp/pip-unpack-ttmiv9na 2025-09-14T09:44:59,837 Downloading kssdtree-2.0.1.tar.gz (112 kB) 2025-09-14T09:44:59,942 Added kssdtree==2.0.1 from https://files.pythonhosted.org/packages/ba/39/d443cac955912a0371c93b797311cb9ec3a8d6ee0a5d7673376d826aa6b2/kssdtree-2.0.1.tar.gz to build tracker '/tmp/pip-build-tracker-yqv3f_2a' 2025-09-14T09:44:59,944 Running setup.py (path:/tmp/pip-wheel-_krdgh1x/kssdtree_998401a4019c4ea3941045bd2f703fd2/setup.py) egg_info for package kssdtree 2025-09-14T09:44:59,944 Created temporary directory: /tmp/pip-pip-egg-info-gb_o64dv 2025-09-14T09:44:59,944 Preparing metadata (setup.py): started 2025-09-14T09:44:59,945 Running command python setup.py egg_info 2025-09-14T09:45:01,306 running egg_info 2025-09-14T09:45:01,395 creating /tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info 2025-09-14T09:45:01,396 writing /tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/PKG-INFO 2025-09-14T09:45:01,397 writing dependency_links to /tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/dependency_links.txt 2025-09-14T09:45:01,398 writing requirements to /tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/requires.txt 2025-09-14T09:45:01,398 writing top-level names to /tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/top_level.txt 2025-09-14T09:45:01,399 writing manifest file '/tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:45:01,760 reading manifest file '/tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:45:01,761 reading manifest template 'MANIFEST.in' 2025-09-14T09:45:01,768 writing manifest file '/tmp/pip-pip-egg-info-gb_o64dv/kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:45:01,899 Preparing metadata (setup.py): finished with status 'done' 2025-09-14T09:45:01,904 Source in /tmp/pip-wheel-_krdgh1x/kssdtree_998401a4019c4ea3941045bd2f703fd2 has version 2.0.1, which satisfies requirement kssdtree==2.0.1 from https://files.pythonhosted.org/packages/ba/39/d443cac955912a0371c93b797311cb9ec3a8d6ee0a5d7673376d826aa6b2/kssdtree-2.0.1.tar.gz 2025-09-14T09:45:01,905 Removed kssdtree==2.0.1 from https://files.pythonhosted.org/packages/ba/39/d443cac955912a0371c93b797311cb9ec3a8d6ee0a5d7673376d826aa6b2/kssdtree-2.0.1.tar.gz from build tracker '/tmp/pip-build-tracker-yqv3f_2a' 2025-09-14T09:45:01,909 Created temporary directory: /tmp/pip-unpack-pyx0b9of 2025-09-14T09:45:01,909 Created temporary directory: /tmp/pip-unpack-gx0isa16 2025-09-14T09:45:01,909 Building wheels for collected packages: kssdtree 2025-09-14T09:45:01,911 Created temporary directory: /tmp/pip-wheel-zg97lm0p 2025-09-14T09:45:01,911 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 2025-09-14T09:45:01,913 Building wheel for kssdtree (setup.py): started 2025-09-14T09:45:01,913 Destination directory: /tmp/pip-wheel-zg97lm0p 2025-09-14T09:45:01,914 Running command python setup.py bdist_wheel 2025-09-14T09:45:03,108 running bdist_wheel 2025-09-14T09:45:03,542 running build 2025-09-14T09:45:03,542 running build_py 2025-09-14T09:45:03,632 creating build/lib.linux-armv7l-cpython-313 2025-09-14T09:45:03,633 copying kssdtree.py -> build/lib.linux-armv7l-cpython-313 2025-09-14T09:45:03,634 copying toolutils.py -> build/lib.linux-armv7l-cpython-313 2025-09-14T09:45:03,634 running egg_info 2025-09-14T09:45:03,722 writing kssdtree.egg-info/PKG-INFO 2025-09-14T09:45:03,723 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2025-09-14T09:45:03,724 writing requirements to kssdtree.egg-info/requires.txt 2025-09-14T09:45:03,724 writing top-level names to kssdtree.egg-info/top_level.txt 2025-09-14T09:45:03,814 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:45:03,819 reading manifest template 'MANIFEST.in' 2025-09-14T09:45:03,827 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-14T09:45:03,828 running build_ext 2025-09-14T09:45:04,206 building 'kssd' extension 2025-09-14T09:45:04,208 creating build/temp.linux-armv7l-cpython-313 2025-09-14T09:45:04,210 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 2025-09-14T09:45:04,388 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-09-14T09:45:04,388 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-14T09:45:04,388 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-09-14T09:45:04,388 | ^ 2025-09-14T09:45:04,393 co2mco.c: In function ‘co2unitllmco’: 2025-09-14T09:45:04,393 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-14T09:45:04,393 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-09-14T09:45:04,394 | ^ 2025-09-14T09:45:05,165 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 2025-09-14T09:45:05,588 command_composite.c: In function ‘get_species_abundance’: 2025-09-14T09:45:05,589 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-14T09:45:05,589 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-09-14T09:45:05,589 | ^~ 2025-09-14T09:45:05,589 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-14T09:45:05,589 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-09-14T09:45:05,589 | ^~ 2025-09-14T09:45:05,589 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:05,590 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T09:45:05,590 | ^ 2025-09-14T09:45:05,590 command_composite.c:64:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:05,590 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T09:45:05,590 | ^~~~~~~~~~ 2025-09-14T09:45:05,590 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:45:05,590 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T09:45:05,590 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:05,590 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:05,591 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T09:45:05,591 | ^ 2025-09-14T09:45:05,591 command_composite.c:70:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:05,591 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T09:45:05,591 | ^~~~~~~~~~ 2025-09-14T09:45:05,591 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:45:05,591 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T09:45:05,592 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:05,592 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:05,592 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:45:05,592 | ^ 2025-09-14T09:45:05,592 command_composite.c:76:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:05,592 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:45:05,592 | ^~~~~~~~~~ 2025-09-14T09:45:05,592 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:45:05,593 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:45:05,593 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:05,593 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:05,593 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T09:45:05,593 | ^ 2025-09-14T09:45:05,593 command_composite.c:82:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:05,593 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T09:45:05,593 | ^~~~~~~~~~ 2025-09-14T09:45:05,594 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T09:45:05,594 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T09:45:05,594 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:05,594 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:05,594 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:45:05,594 | ^ 2025-09-14T09:45:05,594 command_composite.c:88:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:05,594 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:45:05,595 | ^~~~~~~~~~~~ 2025-09-14T09:45:05,595 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2025-09-14T09:45:05,595 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T09:45:05,595 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:05,869 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 2025-09-14T09:45:06,104 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-14T09:45:06,106 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=] 2025-09-14T09:45:06,106 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:45:06,106 | ~~^ 2025-09-14T09:45:06,106 | | 2025-09-14T09:45:06,107 | long unsigned int 2025-09-14T09:45:06,107 | %u 2025-09-14T09:45:06,107 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:45:06,107 | ~~~~~~~ 2025-09-14T09:45:06,107 | | 2025-09-14T09:45:06,107 | size_t {aka unsigned int} 2025-09-14T09:45:06,109 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=] 2025-09-14T09:45:06,109 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:45:06,110 | ~~^ 2025-09-14T09:45:06,110 | | 2025-09-14T09:45:06,110 | long unsigned int 2025-09-14T09:45:06,110 | %u 2025-09-14T09:45:06,110 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:45:06,110 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:45:06,110 | ~~~~~~~~~ 2025-09-14T09:45:06,110 | | 2025-09-14T09:45:06,110 | size_t {aka unsigned int} 2025-09-14T09:45:06,113 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T09:45:06,113 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:45:06,113 | ~~^ 2025-09-14T09:45:06,113 | | 2025-09-14T09:45:06,113 | long unsigned int 2025-09-14T09:45:06,113 | %u 2025-09-14T09:45:06,113 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:45:06,113 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:45:06,113 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:06,113 | | 2025-09-14T09:45:06,114 | unsigned int 2025-09-14T09:45:06,117 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T09:45:06,117 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-09-14T09:45:06,118 | ^ 2025-09-14T09:45:06,126 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-14T09:45:06,129 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=] 2025-09-14T09:45:06,129 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T09:45:06,129 | ~~^ ~~~~~~~ 2025-09-14T09:45:06,129 | | | 2025-09-14T09:45:06,129 | long unsigned int size_t {aka unsigned int} 2025-09-14T09:45:06,129 | %u 2025-09-14T09:45:06,132 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=] 2025-09-14T09:45:06,132 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T09:45:06,132 | ~~^ 2025-09-14T09:45:06,133 | | 2025-09-14T09:45:06,133 | long unsigned int 2025-09-14T09:45:06,133 | %u 2025-09-14T09:45:06,133 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-14T09:45:06,133 | ~~~~~~~~~ 2025-09-14T09:45:06,133 | | 2025-09-14T09:45:06,133 | size_t {aka unsigned int} 2025-09-14T09:45:06,136 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T09:45:06,136 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T09:45:06,136 | ~~^ 2025-09-14T09:45:06,136 | | 2025-09-14T09:45:06,137 | long unsigned int 2025-09-14T09:45:06,137 | %u 2025-09-14T09:45:06,137 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-14T09:45:06,137 865 | (size_t) b * unitsz_distf_mapped); 2025-09-14T09:45:06,137 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:06,137 | | 2025-09-14T09:45:06,137 | unsigned int 2025-09-14T09:45:06,141 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-09-14T09:45:06,141 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-09-14T09:45:06,141 | ^~~~~~~ 2025-09-14T09:45:06,143 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-09-14T09:45:06,143 809 | struct stat cbd_fcode_stat; 2025-09-14T09:45:06,143 | ^~~~~~~~~~~~~~ 2025-09-14T09:45:06,144 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-09-14T09:45:06,145 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-14T09:45:06,145 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:06,146 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-09-14T09:45:06,146 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-14T09:45:06,146 | ^~~~~~~~~~~~~~~~~ 2025-09-14T09:45:06,154 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-14T09:45:06,157 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=] 2025-09-14T09:45:06,157 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:45:06,157 | ~~^ 2025-09-14T09:45:06,157 | | 2025-09-14T09:45:06,157 | long unsigned int 2025-09-14T09:45:06,157 | %u 2025-09-14T09:45:06,158 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:45:06,158 | ~~~~~~~ 2025-09-14T09:45:06,158 | | 2025-09-14T09:45:06,158 | size_t {aka unsigned int} 2025-09-14T09:45:06,161 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=] 2025-09-14T09:45:06,161 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:45:06,161 | ~~^ 2025-09-14T09:45:06,162 | | 2025-09-14T09:45:06,162 | long unsigned int 2025-09-14T09:45:06,162 | %u 2025-09-14T09:45:06,162 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:45:06,162 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:45:06,162 | ~~~~~~~~~ 2025-09-14T09:45:06,162 | | 2025-09-14T09:45:06,162 | size_t {aka unsigned int} 2025-09-14T09:45:06,165 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T09:45:06,166 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T09:45:06,166 | ~~^ 2025-09-14T09:45:06,166 | | 2025-09-14T09:45:06,166 | long unsigned int 2025-09-14T09:45:06,166 | %u 2025-09-14T09:45:06,166 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T09:45:06,166 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T09:45:06,166 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:06,166 | | 2025-09-14T09:45:06,166 | unsigned int 2025-09-14T09:45:06,173 command_dist.c: In function ‘mco_co_dist_core’: 2025-09-14T09:45:06,175 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T09:45:06,175 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-09-14T09:45:06,175 | ^ 2025-09-14T09:45:06,178 command_dist.c: In function ‘fname_dist_print’: 2025-09-14T09:45:06,179 command_dist.c:1163:25: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘__off64_t’ {aka ‘long long int’} [-Wsign-compare] 2025-09-14T09:45:06,180 1163 | for (llong i = 0; i < s.st_size / sizeof(ctx_obj_ct_t); i++) { 2025-09-14T09:45:06,180 | ^ 2025-09-14T09:45:06,187 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-09-14T09:45:06,188 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:45:06,189 1239 | for (int rid = 0; rid < ref_num; rid++) 2025-09-14T09:45:06,189 | ^ 2025-09-14T09:45:06,192 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:45:06,192 1245 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-14T09:45:06,192 | ^ 2025-09-14T09:45:06,199 command_dist.c: In function ‘dist_print_nobin’: 2025-09-14T09:45:06,200 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:45:06,201 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-09-14T09:45:06,201 | ^ 2025-09-14T09:45:06,204 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:45:06,205 1356 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-14T09:45:06,205 | ^ 2025-09-14T09:45:06,208 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T09:45:06,208 1382 | for (int rid = 0; rid < ref_num; rid++) 2025-09-14T09:45:06,208 | ^ 2025-09-14T09:45:06,654 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-09-14T09:45:06,655 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2025-09-14T09:45:06,655 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-09-14T09:45:06,655 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:06,656 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2025-09-14T09:45:06,656 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-09-14T09:45:06,656 | ^~~~~~~~~~~~ 2025-09-14T09:45:07,574 command_dist.c: In function ‘get_dim_shuffle’: 2025-09-14T09:45:07,575 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-09-14T09:45:07,575 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-14T09:45:07,576 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:07,576 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-09-14T09:45:07,576 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-14T09:45:07,576 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,618 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-14T09:45:08,619 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:08,620 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:45:08,620 | ^~ ~~~~~~~~~ 2025-09-14T09:45:08,621 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T09:45:08,621 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:45:08,621 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,623 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:08,623 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:45:08,623 | ^~~~~~~~~~~~~~~ 2025-09-14T09:45:08,624 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T09:45:08,624 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:45:08,624 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,628 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:08,628 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:45:08,628 | ^~~~~~~~~~~ 2025-09-14T09:45:08,629 command_dist.c:681:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:08,630 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:45:08,630 | ^~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,631 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-14T09:45:08,631 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:45:08,631 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,632 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:08,632 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:45:08,632 | ^~~~~ 2025-09-14T09:45:08,633 command_dist.c:682:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:08,633 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:45:08,633 | ^~~~~~~~~~~ 2025-09-14T09:45:08,634 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:45:08,634 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:45:08,634 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,913 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-14T09:45:08,914 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:08,914 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:45:08,914 | ^~ ~~~~~~~~~ 2025-09-14T09:45:08,915 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T09:45:08,915 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:45:08,915 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,916 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:08,917 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:45:08,917 | ^~~~~~~~~~~~~~~ 2025-09-14T09:45:08,917 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T09:45:08,918 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:45:08,918 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,919 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:08,919 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:45:08,919 | ^~~~~~~~~~~~~ 2025-09-14T09:45:08,920 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T09:45:08,920 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:45:08,920 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,921 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:08,922 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T09:45:08,922 | ^ 2025-09-14T09:45:08,923 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2025-09-14T09:45:08,923 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T09:45:08,923 | ^~~~~~~~~~ 2025-09-14T09:45:08,924 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-14T09:45:08,924 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T09:45:08,924 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:08,925 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:08,925 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T09:45:08,925 | ^ 2025-09-14T09:45:08,926 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2025-09-14T09:45:08,926 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T09:45:08,926 | ^~~~~~~~~~ 2025-09-14T09:45:08,927 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-14T09:45:08,927 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T09:45:08,927 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,227 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-14T09:45:09,229 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:09,229 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:45:09,230 | ^~ ~~~~~~~~~ 2025-09-14T09:45:09,230 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T09:45:09,231 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T09:45:09,231 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,232 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:09,232 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:45:09,232 | ^~~~~~~~~~~~~~~ 2025-09-14T09:45:09,233 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T09:45:09,234 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T09:45:09,234 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,235 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:09,235 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:45:09,235 | ^~~~~~~~~~~~~ 2025-09-14T09:45:09,236 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T09:45:09,236 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T09:45:09,236 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,239 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:09,239 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:45:09,239 | ^~~~~~~~~~~ 2025-09-14T09:45:09,240 command_dist.c:1022:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:09,240 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:45:09,240 | ^~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,242 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-14T09:45:09,242 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T09:45:09,242 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,243 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T09:45:09,243 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:45:09,243 | ^~~~~ 2025-09-14T09:45:09,244 command_dist.c:1023:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:09,244 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:45:09,245 | ^~~~~~~~~~~ 2025-09-14T09:45:09,246 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:45:09,246 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T09:45:09,246 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,559 command_dist.c: In function ‘combine_queries’: 2025-09-14T09:45:09,561 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:09,561 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-14T09:45:09,561 | ^ 2025-09-14T09:45:09,563 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:09,563 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-14T09:45:09,563 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,565 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:09,565 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-14T09:45:09,565 | ^ 2025-09-14T09:45:09,567 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:09,567 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-14T09:45:09,567 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:09,570 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:09,570 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-14T09:45:09,570 | ^~ ~~~~~~~~ 2025-09-14T09:45:09,572 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T09:45:09,573 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-14T09:45:09,573 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,118 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 2025-09-14T09:45:10,306 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 2025-09-14T09:45:10,485 command_set.c: In function ‘sketch_operate’: 2025-09-14T09:45:10,485 command_set.c:179:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T09:45:10,485 179 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-09-14T09:45:10,485 | ^ 2025-09-14T09:45:10,499 command_set.c: In function ‘combin_subset_pans’: 2025-09-14T09:45:10,499 command_set.c:458:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-14T09:45:10,499 458 | free(co_dstat_fpath); 2025-09-14T09:45:10,500 | ^~~~~~~~~~~~~~ 2025-09-14T09:45:10,500 In file included from kssdheaders/global_basic.h:159, 2025-09-14T09:45:10,500 from command_set.c:15: 2025-09-14T09:45:10,500 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-14T09:45:10,500 687 | extern void free (void *__ptr) __THROW; 2025-09-14T09:45:10,500 | ~~~~~~^~~~~ 2025-09-14T09:45:10,507 command_set.c: In function ‘grouping_genomes’: 2025-09-14T09:45:10,508 command_set.c:563:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-14T09:45:10,508 563 | free(co_dstat_fpath); 2025-09-14T09:45:10,508 | ^~~~~~~~~~~~~~ 2025-09-14T09:45:10,508 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-14T09:45:10,508 687 | extern void free (void *__ptr) __THROW; 2025-09-14T09:45:10,508 | ~~~~~~^~~~~ 2025-09-14T09:45:10,707 command_set.c: In function ‘sketch_union’: 2025-09-14T09:45:10,707 command_set.c:72:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:10,707 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:10,708 | ^ 2025-09-14T09:45:10,708 command_set.c:72:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:10,708 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:10,708 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,708 command_set.c:83:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,708 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:45:10,708 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:10,708 command_set.c:83:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,708 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:45:10,708 | ^~~~~~~~~~ 2025-09-14T09:45:10,709 command_set.c:83:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:10,709 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:45:10,709 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,709 command_set.c:93:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,709 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T09:45:10,709 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:10,709 command_set.c:93:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,709 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T09:45:10,709 | ^~~~~~~~~~ 2025-09-14T09:45:10,709 command_set.c:93:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:45:10,710 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T09:45:10,710 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,856 command_set.c: In function ‘sketch_operate’: 2025-09-14T09:45:10,857 command_set.c:154:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,857 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T09:45:10,857 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:10,857 command_set.c:154:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,857 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T09:45:10,858 | ^~~~~~~~~~ 2025-09-14T09:45:10,858 command_set.c:154:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T09:45:10,858 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T09:45:10,858 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,858 command_set.c:156:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,858 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T09:45:10,858 | ^~ ~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,859 command_set.c:156:29: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,859 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T09:45:10,859 | ^~~~~~~~~~ 2025-09-14T09:45:10,859 command_set.c:156:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-14T09:45:10,859 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T09:45:10,859 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,859 command_set.c:166:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,860 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:45:10,860 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:10,860 command_set.c:166:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,860 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:45:10,860 | ^~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,860 command_set.c:166:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:45:10,860 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:45:10,860 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,861 command_set.c:170:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,861 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:45:10,861 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:10,861 command_set.c:170:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,861 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:45:10,861 | ^~~~~~~~~~ 2025-09-14T09:45:10,861 command_set.c:170:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:10,862 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T09:45:10,862 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,862 command_set.c:175:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,862 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:45:10,862 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:10,862 command_set.c:175:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,862 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:45:10,863 | ^~~~~~~~~~ 2025-09-14T09:45:10,863 command_set.c:175:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:10,863 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:45:10,863 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,863 command_set.c:188:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:10,864 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:45:10,864 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:10,864 command_set.c:188:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:10,864 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:45:10,864 | ^~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,864 command_set.c:188:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:45:10,865 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T09:45:10,865 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:10,865 command_set.c:193:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:10,865 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:10,866 | ^ 2025-09-14T09:45:10,866 command_set.c:193:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:10,866 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:10,866 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,060 command_set.c: In function ‘uniq_sketch_union’: 2025-09-14T09:45:11,060 command_set.c:220:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:11,060 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-14T09:45:11,060 | ^ 2025-09-14T09:45:11,060 command_set.c:220:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2025-09-14T09:45:11,061 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-14T09:45:11,061 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,061 command_set.c:235:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:11,061 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,061 | ^ 2025-09-14T09:45:11,061 command_set.c:235:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:11,061 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,061 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,062 command_set.c:248:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,062 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:45:11,062 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:11,062 command_set.c:248:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,062 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:45:11,062 | ^~~~~~~~~~ 2025-09-14T09:45:11,062 command_set.c:248:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:11,063 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T09:45:11,063 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,063 command_set.c:260:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,063 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T09:45:11,063 | ^~ ~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,063 command_set.c:260:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,064 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T09:45:11,064 | ^~~~~~~~~~ 2025-09-14T09:45:11,064 command_set.c:260:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-14T09:45:11,064 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T09:45:11,064 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,223 command_set.c: In function ‘combin_pans’: 2025-09-14T09:45:11,224 command_set.c:298:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,224 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,224 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:11,224 command_set.c:298:25: note: directive argument in the range [0, 1073741823] 2025-09-14T09:45:11,225 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,225 | ^~~~~~~~~~ 2025-09-14T09:45:11,225 command_set.c:298:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-09-14T09:45:11,225 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,225 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,225 command_set.c:301:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,226 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,226 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:11,226 command_set.c:301:25: note: directive argument in the range [0, 1073741823] 2025-09-14T09:45:11,226 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,226 | ^~~~~~~~~~ 2025-09-14T09:45:11,226 command_set.c:301:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-09-14T09:45:11,227 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,227 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,227 command_set.c:343:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:11,227 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,228 | ^ 2025-09-14T09:45:11,228 command_set.c:343:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:11,228 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,228 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,472 command_set.c: In function ‘combin_subset_pans’: 2025-09-14T09:45:11,473 command_set.c:470:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,473 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:45:11,473 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:11,473 command_set.c:470:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,473 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:45:11,474 | ^~~~~~~~~~ 2025-09-14T09:45:11,474 command_set.c:470:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:11,474 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:45:11,474 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,475 command_set.c:476:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,475 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:45:11,475 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:11,476 command_set.c:476:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,476 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:45:11,476 | ^~~~~~~~~~ 2025-09-14T09:45:11,476 command_set.c:476:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:45:11,476 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:45:11,476 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,477 command_set.c:482:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,477 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,477 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:11,478 command_set.c:482:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,478 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,478 | ^~~~~~~~~~ 2025-09-14T09:45:11,478 command_set.c:482:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:11,479 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,479 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,480 command_set.c:513:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,480 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,480 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:11,480 command_set.c:513:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,480 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,481 | ^~~~~~~~~~ 2025-09-14T09:45:11,481 command_set.c:513:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:45:11,481 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,481 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,482 command_set.c:524:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:11,482 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,482 | ^ 2025-09-14T09:45:11,482 command_set.c:524:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:11,483 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,483 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,749 command_set.c: In function ‘grouping_genomes’: 2025-09-14T09:45:11,750 command_set.c:575:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,750 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:45:11,750 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:11,751 command_set.c:575:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,751 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:45:11,751 | ^~~~~~~~~~ 2025-09-14T09:45:11,752 command_set.c:575:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:11,752 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T09:45:11,752 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,753 command_set.c:581:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,753 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:45:11,753 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:11,754 command_set.c:581:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,754 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:45:11,754 | ^~~~~~~~~~ 2025-09-14T09:45:11,755 command_set.c:581:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:45:11,755 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T09:45:11,755 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,756 command_set.c:613:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,756 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,756 | ^~ ~~~~~~~~~~~ 2025-09-14T09:45:11,757 command_set.c:613:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,757 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,757 | ^~~~~~~~~~ 2025-09-14T09:45:11,758 command_set.c:613:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T09:45:11,758 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T09:45:11,758 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,759 command_set.c:635:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T09:45:11,759 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,759 | ^~ ~~~~~~~~~~ 2025-09-14T09:45:11,760 command_set.c:635:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T09:45:11,760 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,760 | ^~~~~~~~~~ 2025-09-14T09:45:11,761 command_set.c:635:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T09:45:11,761 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T09:45:11,761 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:11,762 command_set.c:646:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T09:45:11,762 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,762 | ^ 2025-09-14T09:45:11,763 command_set.c:646:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T09:45:11,763 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T09:45:11,763 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T09:45:12,074 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 2025-09-14T09:45:12,412 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 2025-09-14T09:45:12,588 global_basic.c: In function ‘organize_infile_list’: 2025-09-14T09:45:12,588 global_basic.c:195:20: error: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-09-14T09:45:12,589 195 | while (isspace(*buf)) buf++; 2025-09-14T09:45:12,589 | ^~~~~~~ 2025-09-14T09:45:12,589 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2025-09-14T09:45:12,589 34 | #include 2025-09-14T09:45:12,589 +++ |+#include 2025-09-14T09:45:12,589 35 | 2025-09-14T09:45:12,589 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=] 2025-09-14T09:45:12,589 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-14T09:45:12,590 | ~~^ 2025-09-14T09:45:12,590 | | 2025-09-14T09:45:12,590 | long unsigned int 2025-09-14T09:45:12,590 | %u 2025-09-14T09:45:12,590 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-14T09:45:12,590 | ~~~~~~~~~~~ 2025-09-14T09:45:12,590 | | 2025-09-14T09:45:12,590 | size_t {aka unsigned int} 2025-09-14T09:45:12,591 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=] 2025-09-14T09:45:12,591 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-14T09:45:12,591 | ~~^ 2025-09-14T09:45:12,592 | | 2025-09-14T09:45:12,592 | long unsigned int 2025-09-14T09:45:12,592 | %u 2025-09-14T09:45:12,592 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-14T09:45:12,592 | ~~~~~~~~~~~ 2025-09-14T09:45:12,592 | | 2025-09-14T09:45:12,592 | size_t {aka unsigned int} 2025-09-14T09:45:12,614 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-14T09:45:12,783 ERROR: python setup.py bdist_wheel exited with 1 2025-09-14T09:45:12,798 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-14T09:45:12,798 exec(compile('"'"''"'"''"'"' 2025-09-14T09:45:12,798 # This is -- a caller that pip uses to run setup.py 2025-09-14T09:45:12,798 # 2025-09-14T09:45:12,798 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-14T09:45:12,798 # import from `distutils.core` to work with newer packaging standards. 2025-09-14T09:45:12,798 # - It provides a clear error message when setuptools is not installed. 2025-09-14T09:45:12,798 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-14T09:45:12,798 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-14T09:45:12,798 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-14T09:45:12,798 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-14T09:45:12,798 import os, sys, tokenize, traceback 2025-09-14T09:45:12,798 2025-09-14T09:45:12,798 try: 2025-09-14T09:45:12,798 import setuptools 2025-09-14T09:45:12,798 except ImportError: 2025-09-14T09:45:12,798 print( 2025-09-14T09:45:12,798 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-14T09:45:12,798 "the build environment with exception:", 2025-09-14T09:45:12,798 file=sys.stderr, 2025-09-14T09:45:12,798 ) 2025-09-14T09:45:12,798 traceback.print_exc() 2025-09-14T09:45:12,798 sys.exit(1) 2025-09-14T09:45:12,798 2025-09-14T09:45:12,798 __file__ = %r 2025-09-14T09:45:12,798 sys.argv[0] = __file__ 2025-09-14T09:45:12,798 2025-09-14T09:45:12,798 if os.path.exists(__file__): 2025-09-14T09:45:12,798 filename = __file__ 2025-09-14T09:45:12,798 with tokenize.open(__file__) as f: 2025-09-14T09:45:12,798 setup_py_code = f.read() 2025-09-14T09:45:12,798 else: 2025-09-14T09:45:12,798 filename = "" 2025-09-14T09:45:12,798 setup_py_code = "from setuptools import setup; setup()" 2025-09-14T09:45:12,798 2025-09-14T09:45:12,798 exec(compile(setup_py_code, filename, "exec")) 2025-09-14T09:45:12,798 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-_krdgh1x/kssdtree_998401a4019c4ea3941045bd2f703fd2/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-zg97lm0p[/] 2025-09-14T09:45:12,798 [bold magenta]cwd[/]: /tmp/pip-wheel-_krdgh1x/kssdtree_998401a4019c4ea3941045bd2f703fd2/ 2025-09-14T09:45:12,798 Building wheel for kssdtree (setup.py): finished with status 'error' 2025-09-14T09:45:12,799 ERROR: Failed building wheel for kssdtree 2025-09-14T09:45:12,801 Running setup.py clean for kssdtree 2025-09-14T09:45:12,802 Running command python setup.py clean 2025-09-14T09:45:14,073 running clean 2025-09-14T09:45:14,246 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-14T09:45:14,246 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-14T09:45:14,246 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-14T09:45:14,247 'build/scripts-3.13' does not exist -- can't clean it 2025-09-14T09:45:14,247 removing 'build' 2025-09-14T09:45:14,376 Failed to build kssdtree 2025-09-14T09:45:14,377 ERROR: Failed to build one or more wheels 2025-09-14T09:45:14,378 Exception information: 2025-09-14T09:45:14,378 Traceback (most recent call last): 2025-09-14T09:45:14,378 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-14T09:45:14,378 status = _inner_run() 2025-09-14T09:45:14,378 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-14T09:45:14,378 return self.run(options, args) 2025-09-14T09:45:14,378 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-14T09:45:14,378 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-14T09:45:14,378 return func(self, options, args) 2025-09-14T09:45:14,378 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-14T09:45:14,378 raise CommandError("Failed to build one or more wheels") 2025-09-14T09:45:14,378 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-14T09:45:14,383 Removed build tracker: '/tmp/pip-build-tracker-yqv3f_2a'