2025-09-14T05:08:03,877 Created temporary directory: /tmp/pip-build-tracker-6g8f3bbp 2025-09-14T05:08:03,877 Initialized build tracking at /tmp/pip-build-tracker-6g8f3bbp 2025-09-14T05:08:03,878 Created build tracker: /tmp/pip-build-tracker-6g8f3bbp 2025-09-14T05:08:03,878 Entered build tracker: /tmp/pip-build-tracker-6g8f3bbp 2025-09-14T05:08:03,878 Created temporary directory: /tmp/pip-wheel-wyfzkb9d 2025-09-14T05:08:03,882 Created temporary directory: /tmp/pip-ephem-wheel-cache-5508pd9q 2025-09-14T05:08:03,941 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-14T05:08:03,944 2 location(s) to search for versions of kssdtree: 2025-09-14T05:08:03,944 * https://pypi.org/simple/kssdtree/ 2025-09-14T05:08:03,944 * https://www.piwheels.org/simple/kssdtree/ 2025-09-14T05:08:03,944 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2025-09-14T05:08:03,945 Getting page https://pypi.org/simple/kssdtree/ 2025-09-14T05:08:03,946 Found index url https://pypi.org/simple/ 2025-09-14T05:08:04,021 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2025-09-14T05:08:04,023 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 2025-09-14T05:08:04,024 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 2025-09-14T05:08:04,024 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 2025-09-14T05:08:04,025 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 2025-09-14T05:08:04,025 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 2025-09-14T05:08:04,025 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 2025-09-14T05:08:04,025 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 2025-09-14T05:08:04,026 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 2025-09-14T05:08:04,026 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 2025-09-14T05:08:04,026 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 2025-09-14T05:08:04,026 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 2025-09-14T05:08:04,027 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 2025-09-14T05:08:04,027 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 2025-09-14T05:08:04,027 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 2025-09-14T05:08:04,027 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 2025-09-14T05:08:04,028 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 2025-09-14T05:08:04,028 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 2025-09-14T05:08:04,028 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2025-09-14T05:08:04,029 Getting page https://www.piwheels.org/simple/kssdtree/ 2025-09-14T05:08:04,030 Found index url https://www.piwheels.org/simple/ 2025-09-14T05:08:04,116 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2025-09-14T05:08:04,129 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/) 2025-09-14T05:08:04,129 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/) 2025-09-14T05:08:04,129 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/) 2025-09-14T05:08:04,129 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/) 2025-09-14T05:08:04,129 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/) 2025-09-14T05:08:04,130 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/) 2025-09-14T05:08:04,130 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/) 2025-09-14T05:08:04,130 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/) 2025-09-14T05:08:04,130 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/) 2025-09-14T05:08:04,130 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/) 2025-09-14T05:08:04,130 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/) 2025-09-14T05:08:04,131 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/) 2025-09-14T05:08:04,131 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/) 2025-09-14T05:08:04,131 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp39-cp39-linux_armv7l.whl#sha256=00938a03bead64e58bc1928832b7952b04d844e79b41da12160490c7edbb9e9f (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,131 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp311-cp311-linux_armv6l.whl#sha256=d70b4b00c6bf4ff5b294b9ad2594aa1e32981df4b9869be9d13aafa0ff614bc3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,131 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp311-cp311-linux_armv7l.whl#sha256=d70b4b00c6bf4ff5b294b9ad2594aa1e32981df4b9869be9d13aafa0ff614bc3 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,131 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp39-cp39-linux_armv6l.whl#sha256=f629766f3426bb8a83c6f4adca8b02b03cb85452c129c9694cef65efd715fabd (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,132 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/) 2025-09-14T05:08:04,133 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/) 2025-09-14T05:08:04,133 Skipping link: No binaries permitted for kssdtree: 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https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp311-cp311-linux_armv6l.whl#sha256=d4c397f5fcb0af48dbb11b9fb7d7b399cc180d65355b794a8fcc7327e9a7dde1 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,133 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp311-cp311-linux_armv7l.whl#sha256=d4c397f5fcb0af48dbb11b9fb7d7b399cc180d65355b794a8fcc7327e9a7dde1 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,133 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp39-cp39-linux_armv6l.whl#sha256=ab11dc15aca2923fe0d60bf11deb134bed4df89280b4ce40ca8e9bf3ca46b168 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,134 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/) 2025-09-14T05:08:04,134 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/) 2025-09-14T05:08:04,134 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/) 2025-09-14T05:08:04,134 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp311-cp311-linux_armv7l.whl#sha256=388a8dabd657ea83e6d22b52300337c74e9d84e506806cfd4d2a76eb98777e17 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,134 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp39-cp39-linux_armv6l.whl#sha256=e1df896451d30c12e01aceb3eb91f0f7dfe0ee6f16fd66864fdefbc21cc54856 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,135 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp39-cp39-linux_armv7l.whl#sha256=e1df896451d30c12e01aceb3eb91f0f7dfe0ee6f16fd66864fdefbc21cc54856 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,135 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv6l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-14T05:08:04,135 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/) 2025-09-14T05:08:04,135 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/) 2025-09-14T05:08:04,135 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/) 2025-09-14T05:08:04,135 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/) 2025-09-14T05:08:04,135 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,136 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,137 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,138 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/) 2025-09-14T05:08:04,139 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/) 2025-09-14T05:08:04,139 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2025-09-14T05:08:04,139 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2025-09-14T05:08:04,165 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2025-09-14T05:08:04,166 Collecting kssdtree==1.1.3 2025-09-14T05:08:04,168 Created temporary directory: /tmp/pip-unpack-a6d8oeyt 2025-09-14T05:08:04,307 Downloading kssdtree-1.1.3.tar.gz (113 kB) 2025-09-14T05:08:04,413 Added kssdtree==1.1.3 from https://files.pythonhosted.org/packages/a4/cd/f2954686c636e853cc3fda197c459195377b78288874cf7d68218a8bdbf4/kssdtree-1.1.3.tar.gz to build tracker '/tmp/pip-build-tracker-6g8f3bbp' 2025-09-14T05:08:04,414 Running setup.py (path:/tmp/pip-wheel-wyfzkb9d/kssdtree_5f0d98970fb24dcbac1185e70e3263d1/setup.py) egg_info for package kssdtree 2025-09-14T05:08:04,414 Created temporary directory: /tmp/pip-pip-egg-info-lm0ivvxu 2025-09-14T05:08:04,414 Preparing metadata (setup.py): started 2025-09-14T05:08:04,415 Running command python setup.py egg_info 2025-09-14T05:08:05,717 running egg_info 2025-09-14T05:08:05,806 creating /tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info 2025-09-14T05:08:05,806 writing /tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/PKG-INFO 2025-09-14T05:08:05,807 writing dependency_links to /tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/dependency_links.txt 2025-09-14T05:08:05,808 writing requirements to /tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/requires.txt 2025-09-14T05:08:05,808 writing top-level names to /tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/top_level.txt 2025-09-14T05:08:05,809 writing manifest file '/tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/SOURCES.txt' 2025-09-14T05:08:06,159 reading manifest file '/tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/SOURCES.txt' 2025-09-14T05:08:06,160 reading manifest template 'MANIFEST.in' 2025-09-14T05:08:06,167 writing manifest file '/tmp/pip-pip-egg-info-lm0ivvxu/kssdtree.egg-info/SOURCES.txt' 2025-09-14T05:08:06,301 Preparing metadata (setup.py): finished with status 'done' 2025-09-14T05:08:06,306 Source in /tmp/pip-wheel-wyfzkb9d/kssdtree_5f0d98970fb24dcbac1185e70e3263d1 has version 1.1.3, which satisfies requirement kssdtree==1.1.3 from https://files.pythonhosted.org/packages/a4/cd/f2954686c636e853cc3fda197c459195377b78288874cf7d68218a8bdbf4/kssdtree-1.1.3.tar.gz 2025-09-14T05:08:06,306 Removed kssdtree==1.1.3 from https://files.pythonhosted.org/packages/a4/cd/f2954686c636e853cc3fda197c459195377b78288874cf7d68218a8bdbf4/kssdtree-1.1.3.tar.gz from build tracker '/tmp/pip-build-tracker-6g8f3bbp' 2025-09-14T05:08:06,310 Created temporary directory: /tmp/pip-unpack-f2wfotgr 2025-09-14T05:08:06,310 Created temporary directory: /tmp/pip-unpack-ow6bveyq 2025-09-14T05:08:06,310 Building wheels for collected packages: kssdtree 2025-09-14T05:08:06,312 Created temporary directory: /tmp/pip-wheel-ncl5yz9p 2025-09-14T05:08:06,312 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 2025-09-14T05:08:06,314 Building wheel for kssdtree (setup.py): started 2025-09-14T05:08:06,315 Destination directory: /tmp/pip-wheel-ncl5yz9p 2025-09-14T05:08:06,315 Running command python setup.py bdist_wheel 2025-09-14T05:08:07,553 running bdist_wheel 2025-09-14T05:08:08,017 running build 2025-09-14T05:08:08,017 running build_py 2025-09-14T05:08:08,109 creating build/lib.linux-armv7l-cpython-313 2025-09-14T05:08:08,109 copying kssdtree.py -> build/lib.linux-armv7l-cpython-313 2025-09-14T05:08:08,110 copying toolutils.py -> build/lib.linux-armv7l-cpython-313 2025-09-14T05:08:08,111 running egg_info 2025-09-14T05:08:08,202 writing kssdtree.egg-info/PKG-INFO 2025-09-14T05:08:08,203 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2025-09-14T05:08:08,204 writing requirements to kssdtree.egg-info/requires.txt 2025-09-14T05:08:08,204 writing top-level names to kssdtree.egg-info/top_level.txt 2025-09-14T05:08:08,297 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-14T05:08:08,302 reading manifest template 'MANIFEST.in' 2025-09-14T05:08:08,309 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-14T05:08:08,310 running build_ext 2025-09-14T05:08:08,666 building 'kssd' extension 2025-09-14T05:08:08,668 creating build/temp.linux-armv7l-cpython-313 2025-09-14T05:08:08,669 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 2025-09-14T05:08:08,852 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-09-14T05:08:08,852 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-14T05:08:08,852 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-09-14T05:08:08,852 | ^ 2025-09-14T05:08:08,856 co2mco.c: In function ‘co2unitllmco’: 2025-09-14T05:08:08,857 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-14T05:08:08,857 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-09-14T05:08:08,857 | ^ 2025-09-14T05:08:09,633 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 2025-09-14T05:08:10,054 command_composite.c: In function ‘get_species_abundance’: 2025-09-14T05:08:10,054 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-14T05:08:10,055 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-09-14T05:08:10,055 | ^~ 2025-09-14T05:08:10,055 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-14T05:08:10,055 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-09-14T05:08:10,055 | ^~ 2025-09-14T05:08:10,055 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:10,055 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T05:08:10,055 | ^ 2025-09-14T05:08:10,056 command_composite.c:64:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:10,056 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T05:08:10,056 | ^~~~~~~~~~ 2025-09-14T05:08:10,056 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T05:08:10,056 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-14T05:08:10,056 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,056 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:10,056 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T05:08:10,056 | ^ 2025-09-14T05:08:10,057 command_composite.c:70:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:10,057 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T05:08:10,057 | ^~~~~~~~~~ 2025-09-14T05:08:10,057 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T05:08:10,057 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-14T05:08:10,057 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,057 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:10,057 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T05:08:10,058 | ^ 2025-09-14T05:08:10,058 command_composite.c:76:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:10,058 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T05:08:10,058 | ^~~~~~~~~~ 2025-09-14T05:08:10,058 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T05:08:10,058 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-14T05:08:10,058 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,058 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:10,059 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T05:08:10,059 | ^ 2025-09-14T05:08:10,059 command_composite.c:82:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:10,059 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T05:08:10,059 | ^~~~~~~~~~ 2025-09-14T05:08:10,059 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-14T05:08:10,059 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-14T05:08:10,059 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,059 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:10,060 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T05:08:10,060 | ^ 2025-09-14T05:08:10,060 command_composite.c:88:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:10,060 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T05:08:10,060 | ^~~~~~~~~~~~ 2025-09-14T05:08:10,060 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2025-09-14T05:08:10,060 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-14T05:08:10,061 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,336 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 2025-09-14T05:08:10,622 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-14T05:08:10,623 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=] 2025-09-14T05:08:10,623 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T05:08:10,624 | ~~^ 2025-09-14T05:08:10,624 | | 2025-09-14T05:08:10,624 | long unsigned int 2025-09-14T05:08:10,624 | %u 2025-09-14T05:08:10,624 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T05:08:10,624 | ~~~~~~~ 2025-09-14T05:08:10,624 | | 2025-09-14T05:08:10,624 | size_t {aka unsigned int} 2025-09-14T05:08:10,625 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=] 2025-09-14T05:08:10,625 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T05:08:10,626 | ~~^ 2025-09-14T05:08:10,626 | | 2025-09-14T05:08:10,626 | long unsigned int 2025-09-14T05:08:10,626 | %u 2025-09-14T05:08:10,626 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T05:08:10,626 680 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T05:08:10,626 | ~~~~~~~~~ 2025-09-14T05:08:10,626 | | 2025-09-14T05:08:10,626 | size_t {aka unsigned int} 2025-09-14T05:08:10,627 command_dist.c:678:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T05:08:10,627 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T05:08:10,627 | ~~^ 2025-09-14T05:08:10,628 | | 2025-09-14T05:08:10,628 | long unsigned int 2025-09-14T05:08:10,628 | %u 2025-09-14T05:08:10,628 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T05:08:10,628 680 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T05:08:10,628 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,628 | | 2025-09-14T05:08:10,628 | unsigned int 2025-09-14T05:08:10,631 command_dist.c:716:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T05:08:10,631 716 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-09-14T05:08:10,631 | ^ 2025-09-14T05:08:10,638 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-14T05:08:10,641 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=] 2025-09-14T05:08:10,641 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T05:08:10,641 | ~~^ ~~~~~~~ 2025-09-14T05:08:10,641 | | | 2025-09-14T05:08:10,641 | long unsigned int size_t {aka unsigned int} 2025-09-14T05:08:10,641 | %u 2025-09-14T05:08:10,643 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=] 2025-09-14T05:08:10,643 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T05:08:10,643 | ~~^ 2025-09-14T05:08:10,643 | | 2025-09-14T05:08:10,644 | long unsigned int 2025-09-14T05:08:10,644 | %u 2025-09-14T05:08:10,644 865 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-14T05:08:10,644 | ~~~~~~~~~ 2025-09-14T05:08:10,644 | | 2025-09-14T05:08:10,644 | size_t {aka unsigned int} 2025-09-14T05:08:10,646 command_dist.c:864:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T05:08:10,646 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-14T05:08:10,646 | ~~^ 2025-09-14T05:08:10,646 | | 2025-09-14T05:08:10,646 | long unsigned int 2025-09-14T05:08:10,646 | %u 2025-09-14T05:08:10,646 865 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-14T05:08:10,646 866 | (size_t) b * unitsz_distf_mapped); 2025-09-14T05:08:10,646 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,647 | | 2025-09-14T05:08:10,647 | unsigned int 2025-09-14T05:08:10,648 command_dist.c:811:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-09-14T05:08:10,649 811 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-09-14T05:08:10,649 | ^~~~~~~ 2025-09-14T05:08:10,649 command_dist.c:810:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-09-14T05:08:10,650 810 | struct stat cbd_fcode_stat; 2025-09-14T05:08:10,650 | ^~~~~~~~~~~~~~ 2025-09-14T05:08:10,651 command_dist.c:809:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-09-14T05:08:10,651 809 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-14T05:08:10,651 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,652 command_dist.c:809:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-09-14T05:08:10,652 809 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-14T05:08:10,652 | ^~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,659 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-14T05:08:10,662 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=] 2025-09-14T05:08:10,662 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T05:08:10,662 | ~~^ 2025-09-14T05:08:10,662 | | 2025-09-14T05:08:10,662 | long unsigned int 2025-09-14T05:08:10,662 | %u 2025-09-14T05:08:10,662 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T05:08:10,662 | ~~~~~~~ 2025-09-14T05:08:10,662 | | 2025-09-14T05:08:10,662 | size_t {aka unsigned int} 2025-09-14T05:08:10,664 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=] 2025-09-14T05:08:10,665 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T05:08:10,665 | ~~^ 2025-09-14T05:08:10,665 | | 2025-09-14T05:08:10,665 | long unsigned int 2025-09-14T05:08:10,665 | %u 2025-09-14T05:08:10,665 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T05:08:10,665 1021 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T05:08:10,665 | ~~~~~~~~~ 2025-09-14T05:08:10,665 | | 2025-09-14T05:08:10,665 | size_t {aka unsigned int} 2025-09-14T05:08:10,667 command_dist.c:1019:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-14T05:08:10,668 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-14T05:08:10,668 | ~~^ 2025-09-14T05:08:10,668 | | 2025-09-14T05:08:10,668 | long unsigned int 2025-09-14T05:08:10,668 | %u 2025-09-14T05:08:10,668 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-14T05:08:10,668 1021 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-14T05:08:10,668 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:10,668 | | 2025-09-14T05:08:10,668 | unsigned int 2025-09-14T05:08:10,674 command_dist.c: In function ‘mco_co_dist_core’: 2025-09-14T05:08:10,675 command_dist.c:1117:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T05:08:10,675 1117 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-09-14T05:08:10,675 | ^ 2025-09-14T05:08:10,676 command_dist.c: In function ‘fname_dist_print’: 2025-09-14T05:08:10,678 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] 2025-09-14T05:08:10,678 1164 | for (llong i = 0; i < s.st_size / sizeof(ctx_obj_ct_t); i++) { 2025-09-14T05:08:10,678 | ^ 2025-09-14T05:08:10,683 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-09-14T05:08:10,685 command_dist.c:1240:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T05:08:10,685 1240 | for (int rid = 0; rid < ref_num; rid++) 2025-09-14T05:08:10,685 | ^ 2025-09-14T05:08:10,688 command_dist.c:1246:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T05:08:10,688 1246 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-14T05:08:10,688 | ^ 2025-09-14T05:08:10,694 command_dist.c: In function ‘dist_print_nobin’: 2025-09-14T05:08:10,696 command_dist.c:1336:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T05:08:10,696 1336 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-09-14T05:08:10,696 | ^ 2025-09-14T05:08:10,699 command_dist.c:1357:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T05:08:10,699 1357 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-14T05:08:10,699 | ^ 2025-09-14T05:08:10,702 command_dist.c:1383:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-14T05:08:10,702 1383 | for (int rid = 0; rid < ref_num; rid++) 2025-09-14T05:08:10,702 | ^ 2025-09-14T05:08:11,144 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-09-14T05:08:11,144 command_dist.c:404:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2025-09-14T05:08:11,144 404 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-09-14T05:08:11,144 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:11,145 command_dist.c:376:40: note: ‘com_abund_fp’ was declared here 2025-09-14T05:08:11,145 376 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-09-14T05:08:11,145 | ^~~~~~~~~~~~ 2025-09-14T05:08:12,057 command_dist.c: In function ‘get_dim_shuffle’: 2025-09-14T05:08:12,057 command_dist.c:268:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-09-14T05:08:12,057 268 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-14T05:08:12,057 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:12,058 command_dist.c:268:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-09-14T05:08:12,058 268 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-14T05:08:12,058 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,076 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-14T05:08:13,077 command_dist.c:597:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:13,077 597 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T05:08:13,078 | ^~ ~~~~~~~~~ 2025-09-14T05:08:13,078 command_dist.c:597:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T05:08:13,078 597 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T05:08:13,078 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,079 command_dist.c:626:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,079 626 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T05:08:13,079 | ^~~~~~~~~~~~~~~ 2025-09-14T05:08:13,080 command_dist.c:626:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T05:08:13,080 626 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T05:08:13,080 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,082 command_dist.c:682:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,082 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T05:08:13,082 | ^~~~~~~~~~~ 2025-09-14T05:08:13,083 command_dist.c:682:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:13,083 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T05:08:13,083 | ^~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,084 command_dist.c:682:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-14T05:08:13,084 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T05:08:13,084 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,085 command_dist.c:683:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,085 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T05:08:13,085 | ^~~~~ 2025-09-14T05:08:13,086 command_dist.c:683:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:13,086 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T05:08:13,086 | ^~~~~~~~~~~ 2025-09-14T05:08:13,087 command_dist.c:683:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T05:08:13,087 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T05:08:13,087 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,358 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-14T05:08:13,359 command_dist.c:764:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:13,360 764 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T05:08:13,360 | ^~ ~~~~~~~~~ 2025-09-14T05:08:13,360 command_dist.c:764:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T05:08:13,361 764 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T05:08:13,361 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,362 command_dist.c:791:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,362 791 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T05:08:13,362 | ^~~~~~~~~~~~~~~ 2025-09-14T05:08:13,363 command_dist.c:791:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T05:08:13,363 791 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T05:08:13,363 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,364 command_dist.c:824:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,364 824 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T05:08:13,364 | ^~~~~~~~~~~~~ 2025-09-14T05:08:13,365 command_dist.c:824:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T05:08:13,365 824 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T05:08:13,365 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,367 command_dist.c:850:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:13,367 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T05:08:13,367 | ^ 2025-09-14T05:08:13,368 command_dist.c:850:33: note: directive argument in the range [0, 536870912] 2025-09-14T05:08:13,368 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T05:08:13,368 | ^~~~~~~~~~ 2025-09-14T05:08:13,369 command_dist.c:850:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-14T05:08:13,369 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-14T05:08:13,369 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,370 command_dist.c:852:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:13,370 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T05:08:13,370 | ^ 2025-09-14T05:08:13,371 command_dist.c:852:28: note: directive argument in the range [0, 536870912] 2025-09-14T05:08:13,371 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T05:08:13,372 | ^~~~~~~~~~ 2025-09-14T05:08:13,372 command_dist.c:852:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-14T05:08:13,373 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-14T05:08:13,373 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,672 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-14T05:08:13,674 command_dist.c:928:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:13,674 928 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T05:08:13,674 | ^~ ~~~~~~~~~ 2025-09-14T05:08:13,675 command_dist.c:928:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-14T05:08:13,675 928 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-14T05:08:13,675 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,676 command_dist.c:957:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,676 957 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T05:08:13,677 | ^~~~~~~~~~~~~~~ 2025-09-14T05:08:13,677 command_dist.c:957:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-14T05:08:13,678 957 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-14T05:08:13,678 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,679 command_dist.c:991:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,679 991 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T05:08:13,679 | ^~~~~~~~~~~~~ 2025-09-14T05:08:13,680 command_dist.c:991:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T05:08:13,681 991 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-14T05:08:13,681 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,683 command_dist.c:1023:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,683 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T05:08:13,683 | ^~~~~~~~~~~ 2025-09-14T05:08:13,684 command_dist.c:1023:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:13,684 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T05:08:13,685 | ^~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,686 command_dist.c:1023:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-14T05:08:13,686 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-14T05:08:13,686 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:13,687 command_dist.c:1024:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-14T05:08:13,687 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T05:08:13,687 | ^~~~~ 2025-09-14T05:08:13,689 command_dist.c:1024:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:13,689 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T05:08:13,689 | ^~~~~~~~~~~ 2025-09-14T05:08:13,690 command_dist.c:1024:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T05:08:13,690 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-14T05:08:13,690 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:14,008 command_dist.c: In function ‘combine_queries’: 2025-09-14T05:08:14,010 command_dist.c:1493:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:14,010 1493 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-14T05:08:14,010 | ^ 2025-09-14T05:08:14,012 command_dist.c:1493:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:14,012 1493 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-14T05:08:14,012 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:14,014 command_dist.c:1500:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:14,014 1500 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-14T05:08:14,014 | ^ 2025-09-14T05:08:14,016 command_dist.c:1500:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:14,016 1500 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-14T05:08:14,016 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:14,019 command_dist.c:1604:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:14,020 1604 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-14T05:08:14,020 | ^~ ~~~~~~~~ 2025-09-14T05:08:14,021 command_dist.c:1604:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-14T05:08:14,022 1604 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-14T05:08:14,022 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:14,560 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 2025-09-14T05:08:14,750 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 2025-09-14T05:08:14,933 command_set.c: In function ‘sketch_operate’: 2025-09-14T05:08:14,933 command_set.c:179:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-14T05:08:14,934 179 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-09-14T05:08:14,934 | ^ 2025-09-14T05:08:14,947 command_set.c: In function ‘combin_subset_pans’: 2025-09-14T05:08:14,948 command_set.c:458:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-14T05:08:14,948 458 | free(co_dstat_fpath); 2025-09-14T05:08:14,948 | ^~~~~~~~~~~~~~ 2025-09-14T05:08:14,948 In file included from kssdheaders/global_basic.h:159, 2025-09-14T05:08:14,949 from command_set.c:15: 2025-09-14T05:08:14,949 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-14T05:08:14,949 687 | extern void free (void *__ptr) __THROW; 2025-09-14T05:08:14,949 | ~~~~~~^~~~~ 2025-09-14T05:08:14,956 command_set.c: In function ‘grouping_genomes’: 2025-09-14T05:08:14,956 command_set.c:563:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-14T05:08:14,957 563 | free(co_dstat_fpath); 2025-09-14T05:08:14,957 | ^~~~~~~~~~~~~~ 2025-09-14T05:08:14,957 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-14T05:08:14,957 687 | extern void free (void *__ptr) __THROW; 2025-09-14T05:08:14,957 | ~~~~~~^~~~~ 2025-09-14T05:08:15,158 command_set.c: In function ‘sketch_union’: 2025-09-14T05:08:15,158 command_set.c:72:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:15,158 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,158 | ^ 2025-09-14T05:08:15,159 command_set.c:72:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:15,159 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,159 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,159 command_set.c:83:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,159 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T05:08:15,160 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,160 command_set.c:83:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,160 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T05:08:15,160 | ^~~~~~~~~~ 2025-09-14T05:08:15,160 command_set.c:83:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:15,161 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T05:08:15,161 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,161 command_set.c:93:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,161 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T05:08:15,161 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:15,162 command_set.c:93:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,162 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T05:08:15,162 | ^~~~~~~~~~ 2025-09-14T05:08:15,162 command_set.c:93:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T05:08:15,162 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-14T05:08:15,162 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,311 command_set.c: In function ‘sketch_operate’: 2025-09-14T05:08:15,312 command_set.c:154:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,312 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T05:08:15,312 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:15,312 command_set.c:154:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,312 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T05:08:15,312 | ^~~~~~~~~~ 2025-09-14T05:08:15,313 command_set.c:154:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-14T05:08:15,313 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-14T05:08:15,313 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,313 command_set.c:156:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,313 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T05:08:15,313 | ^~ ~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,313 command_set.c:156:29: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,313 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T05:08:15,314 | ^~~~~~~~~~ 2025-09-14T05:08:15,314 command_set.c:156:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-14T05:08:15,314 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-14T05:08:15,314 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,314 command_set.c:166:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,314 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T05:08:15,314 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,314 command_set.c:166:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,315 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T05:08:15,315 | ^~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,315 command_set.c:166:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T05:08:15,315 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T05:08:15,315 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,315 command_set.c:170:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,315 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T05:08:15,315 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,316 command_set.c:170:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,316 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T05:08:15,316 | ^~~~~~~~~~ 2025-09-14T05:08:15,316 command_set.c:170:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:15,316 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-14T05:08:15,316 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,316 command_set.c:175:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,316 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T05:08:15,316 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,317 command_set.c:175:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,317 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T05:08:15,317 | ^~~~~~~~~~ 2025-09-14T05:08:15,317 command_set.c:175:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:15,317 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T05:08:15,317 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,317 command_set.c:188:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,318 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T05:08:15,318 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,318 command_set.c:188:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,318 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T05:08:15,318 | ^~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,318 command_set.c:188:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T05:08:15,318 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-14T05:08:15,319 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,319 command_set.c:193:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:15,319 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,319 | ^ 2025-09-14T05:08:15,319 command_set.c:193:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:15,319 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,320 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,507 command_set.c: In function ‘uniq_sketch_union’: 2025-09-14T05:08:15,507 command_set.c:220:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:15,507 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-14T05:08:15,507 | ^ 2025-09-14T05:08:15,507 command_set.c:220:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2025-09-14T05:08:15,508 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-14T05:08:15,508 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,508 command_set.c:235:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:15,508 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,508 | ^ 2025-09-14T05:08:15,508 command_set.c:235:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:15,508 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,508 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,509 command_set.c:248:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,509 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T05:08:15,509 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,509 command_set.c:248:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,509 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T05:08:15,509 | ^~~~~~~~~~ 2025-09-14T05:08:15,509 command_set.c:248:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:15,510 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-14T05:08:15,510 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,510 command_set.c:260:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,510 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T05:08:15,510 | ^~ ~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,510 command_set.c:260:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,510 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T05:08:15,511 | ^~~~~~~~~~ 2025-09-14T05:08:15,511 command_set.c:260:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-14T05:08:15,511 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-14T05:08:15,511 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,671 command_set.c: In function ‘combin_pans’: 2025-09-14T05:08:15,671 command_set.c:298:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,671 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:15,672 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,672 command_set.c:298:25: note: directive argument in the range [0, 1073741823] 2025-09-14T05:08:15,672 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:15,672 | ^~~~~~~~~~ 2025-09-14T05:08:15,672 command_set.c:298:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-09-14T05:08:15,672 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:15,672 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,673 command_set.c:301:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,673 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:15,673 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:15,673 command_set.c:301:25: note: directive argument in the range [0, 1073741823] 2025-09-14T05:08:15,673 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:15,673 | ^~~~~~~~~~ 2025-09-14T05:08:15,674 command_set.c:301:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-09-14T05:08:15,674 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:15,674 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,675 command_set.c:343:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:15,675 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,675 | ^ 2025-09-14T05:08:15,675 command_set.c:343:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:15,675 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,675 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,920 command_set.c: In function ‘combin_subset_pans’: 2025-09-14T05:08:15,921 command_set.c:470:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,921 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T05:08:15,921 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,922 command_set.c:470:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,922 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T05:08:15,922 | ^~~~~~~~~~ 2025-09-14T05:08:15,922 command_set.c:470:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:15,923 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T05:08:15,923 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,923 command_set.c:476:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,924 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T05:08:15,924 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:15,924 command_set.c:476:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,924 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T05:08:15,924 | ^~~~~~~~~~ 2025-09-14T05:08:15,925 command_set.c:476:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T05:08:15,925 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T05:08:15,925 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,926 command_set.c:482:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,926 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:15,926 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:15,926 command_set.c:482:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,926 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:15,926 | ^~~~~~~~~~ 2025-09-14T05:08:15,927 command_set.c:482:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:15,927 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:15,927 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,928 command_set.c:513:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:15,928 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:15,928 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:15,929 command_set.c:513:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:15,929 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:15,929 | ^~~~~~~~~~ 2025-09-14T05:08:15,929 command_set.c:513:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T05:08:15,930 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:15,930 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:15,930 command_set.c:524:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:15,930 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,931 | ^ 2025-09-14T05:08:15,931 command_set.c:524:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:15,931 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:15,931 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:16,198 command_set.c: In function ‘grouping_genomes’: 2025-09-14T05:08:16,199 command_set.c:575:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:16,199 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T05:08:16,199 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:16,200 command_set.c:575:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:16,200 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T05:08:16,200 | ^~~~~~~~~~ 2025-09-14T05:08:16,200 command_set.c:575:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:16,201 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-14T05:08:16,201 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:16,202 command_set.c:581:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:16,202 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T05:08:16,202 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:16,202 command_set.c:581:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:16,202 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T05:08:16,203 | ^~~~~~~~~~ 2025-09-14T05:08:16,203 command_set.c:581:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T05:08:16,203 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-14T05:08:16,203 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:16,205 command_set.c:613:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:16,205 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:16,205 | ^~ ~~~~~~~~~~~ 2025-09-14T05:08:16,205 command_set.c:613:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:16,206 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:16,206 | ^~~~~~~~~~ 2025-09-14T05:08:16,206 command_set.c:613:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-14T05:08:16,206 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-14T05:08:16,207 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:16,208 command_set.c:635:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-14T05:08:16,208 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:16,208 | ^~ ~~~~~~~~~~ 2025-09-14T05:08:16,208 command_set.c:635:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-14T05:08:16,209 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:16,209 | ^~~~~~~~~~ 2025-09-14T05:08:16,209 command_set.c:635:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-14T05:08:16,210 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-14T05:08:16,210 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:16,210 command_set.c:646:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-14T05:08:16,211 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:16,211 | ^ 2025-09-14T05:08:16,211 command_set.c:646:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-14T05:08:16,211 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-14T05:08:16,211 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-14T05:08:16,528 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 2025-09-14T05:08:16,889 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 2025-09-14T05:08:17,068 global_basic.c: In function ‘organize_infile_list’: 2025-09-14T05:08:17,069 global_basic.c:195:20: error: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-09-14T05:08:17,069 195 | while (isspace(*buf)) buf++; 2025-09-14T05:08:17,069 | ^~~~~~~ 2025-09-14T05:08:17,069 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2025-09-14T05:08:17,069 34 | #include 2025-09-14T05:08:17,070 +++ |+#include 2025-09-14T05:08:17,070 35 | 2025-09-14T05:08:17,070 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=] 2025-09-14T05:08:17,070 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-14T05:08:17,070 | ~~^ 2025-09-14T05:08:17,071 | | 2025-09-14T05:08:17,071 | long unsigned int 2025-09-14T05:08:17,071 | %u 2025-09-14T05:08:17,071 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-14T05:08:17,071 | ~~~~~~~~~~~ 2025-09-14T05:08:17,071 | | 2025-09-14T05:08:17,072 | size_t {aka unsigned int} 2025-09-14T05:08:17,072 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=] 2025-09-14T05:08:17,072 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-14T05:08:17,072 | ~~^ 2025-09-14T05:08:17,072 | | 2025-09-14T05:08:17,072 | long unsigned int 2025-09-14T05:08:17,072 | %u 2025-09-14T05:08:17,073 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-14T05:08:17,073 | ~~~~~~~~~~~ 2025-09-14T05:08:17,073 | | 2025-09-14T05:08:17,073 | size_t {aka unsigned int} 2025-09-14T05:08:17,095 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-14T05:08:17,268 ERROR: python setup.py bdist_wheel exited with 1 2025-09-14T05:08:17,283 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-14T05:08:17,283 exec(compile('"'"''"'"''"'"' 2025-09-14T05:08:17,283 # This is -- a caller that pip uses to run setup.py 2025-09-14T05:08:17,283 # 2025-09-14T05:08:17,283 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-14T05:08:17,283 # import from `distutils.core` to work with newer packaging standards. 2025-09-14T05:08:17,283 # - It provides a clear error message when setuptools is not installed. 2025-09-14T05:08:17,283 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-14T05:08:17,283 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-14T05:08:17,283 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-14T05:08:17,283 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-14T05:08:17,283 import os, sys, tokenize, traceback 2025-09-14T05:08:17,283 2025-09-14T05:08:17,283 try: 2025-09-14T05:08:17,283 import setuptools 2025-09-14T05:08:17,283 except ImportError: 2025-09-14T05:08:17,283 print( 2025-09-14T05:08:17,283 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-14T05:08:17,283 "the build environment with exception:", 2025-09-14T05:08:17,283 file=sys.stderr, 2025-09-14T05:08:17,283 ) 2025-09-14T05:08:17,283 traceback.print_exc() 2025-09-14T05:08:17,283 sys.exit(1) 2025-09-14T05:08:17,283 2025-09-14T05:08:17,283 __file__ = %r 2025-09-14T05:08:17,283 sys.argv[0] = __file__ 2025-09-14T05:08:17,283 2025-09-14T05:08:17,283 if os.path.exists(__file__): 2025-09-14T05:08:17,283 filename = __file__ 2025-09-14T05:08:17,283 with tokenize.open(__file__) as f: 2025-09-14T05:08:17,283 setup_py_code = f.read() 2025-09-14T05:08:17,283 else: 2025-09-14T05:08:17,283 filename = "" 2025-09-14T05:08:17,283 setup_py_code = "from setuptools import setup; setup()" 2025-09-14T05:08:17,283 2025-09-14T05:08:17,283 exec(compile(setup_py_code, filename, "exec")) 2025-09-14T05:08:17,283 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-wyfzkb9d/kssdtree_5f0d98970fb24dcbac1185e70e3263d1/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-ncl5yz9p[/] 2025-09-14T05:08:17,283 [bold magenta]cwd[/]: /tmp/pip-wheel-wyfzkb9d/kssdtree_5f0d98970fb24dcbac1185e70e3263d1/ 2025-09-14T05:08:17,284 Building wheel for kssdtree (setup.py): finished with status 'error' 2025-09-14T05:08:17,285 ERROR: Failed building wheel for kssdtree 2025-09-14T05:08:17,286 Running setup.py clean for kssdtree 2025-09-14T05:08:17,287 Running command python setup.py clean 2025-09-14T05:08:18,567 running clean 2025-09-14T05:08:18,735 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-14T05:08:18,735 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-14T05:08:18,735 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-14T05:08:18,736 'build/scripts-3.13' does not exist -- can't clean it 2025-09-14T05:08:18,736 removing 'build' 2025-09-14T05:08:18,862 Failed to build kssdtree 2025-09-14T05:08:18,863 ERROR: Failed to build one or more wheels 2025-09-14T05:08:18,864 Exception information: 2025-09-14T05:08:18,864 Traceback (most recent call last): 2025-09-14T05:08:18,864 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-14T05:08:18,864 status = _inner_run() 2025-09-14T05:08:18,864 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-14T05:08:18,864 return self.run(options, args) 2025-09-14T05:08:18,864 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-14T05:08:18,864 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-14T05:08:18,864 return func(self, options, args) 2025-09-14T05:08:18,864 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-14T05:08:18,864 raise CommandError("Failed to build one or more wheels") 2025-09-14T05:08:18,864 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-14T05:08:18,869 Removed build tracker: '/tmp/pip-build-tracker-6g8f3bbp'