2025-09-13T22:31:17,290 Created temporary directory: /tmp/pip-build-tracker-fi7bkc6k 2025-09-13T22:31:17,291 Initialized build tracking at /tmp/pip-build-tracker-fi7bkc6k 2025-09-13T22:31:17,291 Created build tracker: /tmp/pip-build-tracker-fi7bkc6k 2025-09-13T22:31:17,291 Entered build tracker: /tmp/pip-build-tracker-fi7bkc6k 2025-09-13T22:31:17,292 Created temporary directory: /tmp/pip-wheel-sjwn5v94 2025-09-13T22:31:17,296 Created temporary directory: /tmp/pip-ephem-wheel-cache-e3ryn6k4 2025-09-13T22:31:17,364 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-09-13T22:31:17,366 2 location(s) to search for versions of kssdtree: 2025-09-13T22:31:17,366 * https://pypi.org/simple/kssdtree/ 2025-09-13T22:31:17,366 * https://www.piwheels.org/simple/kssdtree/ 2025-09-13T22:31:17,367 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2025-09-13T22:31:17,367 Getting page https://pypi.org/simple/kssdtree/ 2025-09-13T22:31:17,369 Found index url https://pypi.org/simple/ 2025-09-13T22:31:17,524 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2025-09-13T22:31:17,526 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 2025-09-13T22:31:17,527 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 2025-09-13T22:31:17,527 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 2025-09-13T22:31:17,527 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 2025-09-13T22:31:17,528 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 2025-09-13T22:31:17,528 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 2025-09-13T22:31:17,528 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 2025-09-13T22:31:17,529 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 2025-09-13T22:31:17,529 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 2025-09-13T22:31:17,529 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 2025-09-13T22:31:17,529 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 2025-09-13T22:31:17,530 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 2025-09-13T22:31:17,530 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 2025-09-13T22:31:17,530 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 2025-09-13T22:31:17,531 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 2025-09-13T22:31:17,531 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 2025-09-13T22:31:17,531 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 2025-09-13T22:31:17,532 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2025-09-13T22:31:17,532 Getting page https://www.piwheels.org/simple/kssdtree/ 2025-09-13T22:31:17,533 Found index url https://www.piwheels.org/simple/ 2025-09-13T22:31:17,633 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2025-09-13T22:31:17,645 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/) 2025-09-13T22:31:17,646 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/) 2025-09-13T22:31:17,646 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/) 2025-09-13T22:31:17,646 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/) 2025-09-13T22:31:17,646 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/) 2025-09-13T22:31:17,646 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/) 2025-09-13T22:31:17,646 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/) 2025-09-13T22:31:17,647 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/) 2025-09-13T22:31:17,647 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/) 2025-09-13T22:31:17,647 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/) 2025-09-13T22:31:17,647 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/) 2025-09-13T22:31:17,647 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/) 2025-09-13T22:31:17,647 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/) 2025-09-13T22:31:17,648 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/) 2025-09-13T22:31:17,648 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/) 2025-09-13T22:31:17,648 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/) 2025-09-13T22:31:17,648 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/) 2025-09-13T22:31:17,648 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/) 2025-09-13T22:31:17,648 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/) 2025-09-13T22:31:17,649 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/) 2025-09-13T22:31:17,649 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/) 2025-09-13T22:31:17,649 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/) 2025-09-13T22:31:17,649 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/) 2025-09-13T22:31:17,649 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/) 2025-09-13T22:31:17,649 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/) 2025-09-13T22:31:17,649 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp311-cp311-linux_armv7l.whl#sha256=16a2e46376ed2874435371fd57a97405d4b631b35c014b9e395a4528a1e655b8 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,650 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp39-cp39-linux_armv6l.whl#sha256=131de046d905a575216e4344f66d988df06c39a828f970e791ab2dd8ce7c204c (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,650 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp39-cp39-linux_armv7l.whl#sha256=131de046d905a575216e4344f66d988df06c39a828f970e791ab2dd8ce7c204c (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,650 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp311-cp311-linux_armv6l.whl#sha256=d4c397f5fcb0af48dbb11b9fb7d7b399cc180d65355b794a8fcc7327e9a7dde1 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,650 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/) 2025-09-13T22:31:17,650 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/) 2025-09-13T22:31:17,650 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp39-cp39-linux_armv7l.whl#sha256=ab11dc15aca2923fe0d60bf11deb134bed4df89280b4ce40ca8e9bf3ca46b168 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,651 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp39-cp39-linux_armv6l.whl#sha256=6b3f5b0e827056c7b589f4fb02c353408efa5892ef4df1c8a54b4cb30331754a (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,651 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp39-cp39-linux_armv7l.whl#sha256=6b3f5b0e827056c7b589f4fb02c353408efa5892ef4df1c8a54b4cb30331754a (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,651 Skipping link: No binaries permitted for kssdtree: https://archive1.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp311-cp311-linux_armv6l.whl#sha256=717afc6606ad3045caac8f3f1cd01a37edd2f01f1cc38bc1bc6c3320882bd392 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-13T22:31:17,651 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/) 2025-09-13T22:31:17,651 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/) 2025-09-13T22:31:17,651 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/) 2025-09-13T22:31:17,651 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,652 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/) 2025-09-13T22:31:17,653 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/) 2025-09-13T22:31:17,653 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/) 2025-09-13T22:31:17,653 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/) 2025-09-13T22:31:17,653 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/) 2025-09-13T22:31:17,653 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/) 2025-09-13T22:31:17,653 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,654 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/) 2025-09-13T22:31:17,655 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/) 2025-09-13T22:31:17,655 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/) 2025-09-13T22:31:17,655 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/) 2025-09-13T22:31:17,655 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/) 2025-09-13T22:31:17,655 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/) 2025-09-13T22:31:17,655 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/) 2025-09-13T22:31:17,656 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/) 2025-09-13T22:31:17,656 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/) 2025-09-13T22:31:17,656 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/) 2025-09-13T22:31:17,656 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2025-09-13T22:31:17,656 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2025-09-13T22:31:17,683 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2025-09-13T22:31:17,684 Collecting kssdtree==1.1.1 2025-09-13T22:31:17,685 Created temporary directory: /tmp/pip-unpack-jumw3_q5 2025-09-13T22:31:17,826 Downloading kssdtree-1.1.1.tar.gz (114 kB) 2025-09-13T22:31:17,931 Added kssdtree==1.1.1 from https://files.pythonhosted.org/packages/d5/1e/9e5c5945a44bb40002d1c259f734a531999fa6e87db89fe7c7ddcfc583cc/kssdtree-1.1.1.tar.gz to build tracker '/tmp/pip-build-tracker-fi7bkc6k' 2025-09-13T22:31:17,932 Running setup.py (path:/tmp/pip-wheel-sjwn5v94/kssdtree_ebb70e22002c46c2acf304e06b27c90b/setup.py) egg_info for package kssdtree 2025-09-13T22:31:17,933 Created temporary directory: /tmp/pip-pip-egg-info-7btr4md1 2025-09-13T22:31:17,933 Preparing metadata (setup.py): started 2025-09-13T22:31:17,934 Running command python setup.py egg_info 2025-09-13T22:31:19,384 running egg_info 2025-09-13T22:31:19,481 creating /tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info 2025-09-13T22:31:19,481 writing /tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/PKG-INFO 2025-09-13T22:31:19,483 writing dependency_links to /tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/dependency_links.txt 2025-09-13T22:31:19,484 writing requirements to /tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/requires.txt 2025-09-13T22:31:19,484 writing top-level names to /tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/top_level.txt 2025-09-13T22:31:19,485 writing manifest file '/tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/SOURCES.txt' 2025-09-13T22:31:19,873 reading manifest file '/tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/SOURCES.txt' 2025-09-13T22:31:19,874 reading manifest template 'MANIFEST.in' 2025-09-13T22:31:19,882 writing manifest file '/tmp/pip-pip-egg-info-7btr4md1/kssdtree.egg-info/SOURCES.txt' 2025-09-13T22:31:20,022 Preparing metadata (setup.py): finished with status 'done' 2025-09-13T22:31:20,027 Source in /tmp/pip-wheel-sjwn5v94/kssdtree_ebb70e22002c46c2acf304e06b27c90b has version 1.1.1, which satisfies requirement kssdtree==1.1.1 from https://files.pythonhosted.org/packages/d5/1e/9e5c5945a44bb40002d1c259f734a531999fa6e87db89fe7c7ddcfc583cc/kssdtree-1.1.1.tar.gz 2025-09-13T22:31:20,027 Removed kssdtree==1.1.1 from https://files.pythonhosted.org/packages/d5/1e/9e5c5945a44bb40002d1c259f734a531999fa6e87db89fe7c7ddcfc583cc/kssdtree-1.1.1.tar.gz from build tracker '/tmp/pip-build-tracker-fi7bkc6k' 2025-09-13T22:31:20,031 Created temporary directory: /tmp/pip-unpack-9s8pid3y 2025-09-13T22:31:20,031 Created temporary directory: /tmp/pip-unpack-7_gh3070 2025-09-13T22:31:20,031 Building wheels for collected packages: kssdtree 2025-09-13T22:31:20,033 Created temporary directory: /tmp/pip-wheel-sg04_ngd 2025-09-13T22:31:20,034 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 2025-09-13T22:31:20,035 Building wheel for kssdtree (setup.py): started 2025-09-13T22:31:20,036 Destination directory: /tmp/pip-wheel-sg04_ngd 2025-09-13T22:31:20,036 Running command python setup.py bdist_wheel 2025-09-13T22:31:21,324 running bdist_wheel 2025-09-13T22:31:21,812 running build 2025-09-13T22:31:21,812 running build_py 2025-09-13T22:31:21,910 creating build/lib.linux-armv7l-cpython-313 2025-09-13T22:31:21,910 copying kssdtree.py -> build/lib.linux-armv7l-cpython-313 2025-09-13T22:31:21,911 copying toolutils.py -> build/lib.linux-armv7l-cpython-313 2025-09-13T22:31:21,912 running egg_info 2025-09-13T22:31:22,007 writing kssdtree.egg-info/PKG-INFO 2025-09-13T22:31:22,008 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2025-09-13T22:31:22,009 writing requirements to kssdtree.egg-info/requires.txt 2025-09-13T22:31:22,010 writing top-level names to kssdtree.egg-info/top_level.txt 2025-09-13T22:31:22,108 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-13T22:31:22,113 reading manifest template 'MANIFEST.in' 2025-09-13T22:31:22,122 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-13T22:31:22,123 running build_ext 2025-09-13T22:31:22,502 building 'kssd' extension 2025-09-13T22:31:22,505 creating build/temp.linux-armv7l-cpython-313 2025-09-13T22:31:22,506 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 2025-09-13T22:31:22,686 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-09-13T22:31:22,686 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-13T22:31:22,686 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-09-13T22:31:22,686 | ^ 2025-09-13T22:31:22,690 co2mco.c: In function ‘co2unitllmco’: 2025-09-13T22:31:22,691 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-13T22:31:22,691 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-09-13T22:31:22,691 | ^ 2025-09-13T22:31:23,458 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 2025-09-13T22:31:23,874 command_composite.c: In function ‘get_species_abundance’: 2025-09-13T22:31:23,874 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-13T22:31:23,874 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-09-13T22:31:23,874 | ^~ 2025-09-13T22:31:23,874 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-13T22:31:23,874 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-09-13T22:31:23,875 | ^~ 2025-09-13T22:31:23,875 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:23,875 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-13T22:31:23,875 | ^ 2025-09-13T22:31:23,875 command_composite.c:64:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:23,875 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-13T22:31:23,875 | ^~~~~~~~~~ 2025-09-13T22:31:23,875 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-13T22:31:23,875 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-13T22:31:23,875 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:23,876 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:23,876 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-13T22:31:23,876 | ^ 2025-09-13T22:31:23,876 command_composite.c:70:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:23,876 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-13T22:31:23,876 | ^~~~~~~~~~ 2025-09-13T22:31:23,876 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-13T22:31:23,876 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-13T22:31:23,876 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:23,876 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:23,876 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-13T22:31:23,877 | ^ 2025-09-13T22:31:23,877 command_composite.c:76:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:23,877 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-13T22:31:23,877 | ^~~~~~~~~~ 2025-09-13T22:31:23,877 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-13T22:31:23,877 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-13T22:31:23,877 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:23,877 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:23,877 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-13T22:31:23,878 | ^ 2025-09-13T22:31:23,878 command_composite.c:82:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:23,878 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-13T22:31:23,878 | ^~~~~~~~~~ 2025-09-13T22:31:23,878 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-09-13T22:31:23,878 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-13T22:31:23,878 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:23,878 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:23,878 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-13T22:31:23,878 | ^ 2025-09-13T22:31:23,878 command_composite.c:88:31: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:23,879 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-13T22:31:23,879 | ^~~~~~~~~~~~ 2025-09-13T22:31:23,879 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2025-09-13T22:31:23,879 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-13T22:31:23,879 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,153 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 2025-09-13T22:31:24,397 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-13T22:31:24,399 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=] 2025-09-13T22:31:24,399 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-13T22:31:24,399 | ~~^ 2025-09-13T22:31:24,399 | | 2025-09-13T22:31:24,400 | long unsigned int 2025-09-13T22:31:24,400 | %u 2025-09-13T22:31:24,400 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-13T22:31:24,400 | ~~~~~~~ 2025-09-13T22:31:24,400 | | 2025-09-13T22:31:24,400 | size_t {aka unsigned int} 2025-09-13T22:31:24,401 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=] 2025-09-13T22:31:24,401 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-13T22:31:24,401 | ~~^ 2025-09-13T22:31:24,401 | | 2025-09-13T22:31:24,401 | long unsigned int 2025-09-13T22:31:24,402 | %u 2025-09-13T22:31:24,402 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-13T22:31:24,402 680 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-13T22:31:24,402 | ~~~~~~~~~ 2025-09-13T22:31:24,402 | | 2025-09-13T22:31:24,402 | size_t {aka unsigned int} 2025-09-13T22:31:24,403 command_dist.c:678:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-13T22:31:24,403 678 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-13T22:31:24,403 | ~~^ 2025-09-13T22:31:24,403 | | 2025-09-13T22:31:24,403 | long unsigned int 2025-09-13T22:31:24,404 | %u 2025-09-13T22:31:24,404 679 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-13T22:31:24,404 680 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-13T22:31:24,404 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,404 | | 2025-09-13T22:31:24,404 | unsigned int 2025-09-13T22:31:24,406 command_dist.c:716:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-13T22:31:24,407 716 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-09-13T22:31:24,407 | ^ 2025-09-13T22:31:24,415 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-13T22:31:24,417 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=] 2025-09-13T22:31:24,418 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-13T22:31:24,418 | ~~^ ~~~~~~~ 2025-09-13T22:31:24,418 | | | 2025-09-13T22:31:24,418 | long unsigned int size_t {aka unsigned int} 2025-09-13T22:31:24,418 | %u 2025-09-13T22:31:24,420 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=] 2025-09-13T22:31:24,420 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-13T22:31:24,420 | ~~^ 2025-09-13T22:31:24,420 | | 2025-09-13T22:31:24,420 | long unsigned int 2025-09-13T22:31:24,420 | %u 2025-09-13T22:31:24,421 865 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-13T22:31:24,421 | ~~~~~~~~~ 2025-09-13T22:31:24,421 | | 2025-09-13T22:31:24,421 | size_t {aka unsigned int} 2025-09-13T22:31:24,422 command_dist.c:864:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-13T22:31:24,423 864 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-13T22:31:24,423 | ~~^ 2025-09-13T22:31:24,423 | | 2025-09-13T22:31:24,423 | long unsigned int 2025-09-13T22:31:24,423 | %u 2025-09-13T22:31:24,423 865 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-13T22:31:24,423 866 | (size_t) b * unitsz_distf_mapped); 2025-09-13T22:31:24,423 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,423 | | 2025-09-13T22:31:24,423 | unsigned int 2025-09-13T22:31:24,425 command_dist.c:811:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-09-13T22:31:24,426 811 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-09-13T22:31:24,426 | ^~~~~~~ 2025-09-13T22:31:24,427 command_dist.c:810:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-09-13T22:31:24,427 810 | struct stat cbd_fcode_stat; 2025-09-13T22:31:24,427 | ^~~~~~~~~~~~~~ 2025-09-13T22:31:24,428 command_dist.c:809:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-09-13T22:31:24,428 809 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-13T22:31:24,428 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,429 command_dist.c:809:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-09-13T22:31:24,429 809 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-13T22:31:24,429 | ^~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,437 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-13T22:31:24,439 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=] 2025-09-13T22:31:24,439 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-13T22:31:24,440 | ~~^ 2025-09-13T22:31:24,440 | | 2025-09-13T22:31:24,440 | long unsigned int 2025-09-13T22:31:24,440 | %u 2025-09-13T22:31:24,440 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-13T22:31:24,440 | ~~~~~~~ 2025-09-13T22:31:24,440 | | 2025-09-13T22:31:24,440 | size_t {aka unsigned int} 2025-09-13T22:31:24,442 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=] 2025-09-13T22:31:24,442 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-13T22:31:24,442 | ~~^ 2025-09-13T22:31:24,442 | | 2025-09-13T22:31:24,443 | long unsigned int 2025-09-13T22:31:24,443 | %u 2025-09-13T22:31:24,443 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-13T22:31:24,443 1021 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-13T22:31:24,443 | ~~~~~~~~~ 2025-09-13T22:31:24,443 | | 2025-09-13T22:31:24,443 | size_t {aka unsigned int} 2025-09-13T22:31:24,445 command_dist.c:1019:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-13T22:31:24,445 1019 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-13T22:31:24,445 | ~~^ 2025-09-13T22:31:24,445 | | 2025-09-13T22:31:24,446 | long unsigned int 2025-09-13T22:31:24,446 | %u 2025-09-13T22:31:24,446 1020 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-13T22:31:24,446 1021 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-13T22:31:24,446 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,446 | | 2025-09-13T22:31:24,446 | unsigned int 2025-09-13T22:31:24,452 command_dist.c: In function ‘mco_co_dist_core’: 2025-09-13T22:31:24,453 command_dist.c:1117:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-13T22:31:24,453 1117 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-09-13T22:31:24,453 | ^ 2025-09-13T22:31:24,454 command_dist.c: In function ‘fname_dist_print’: 2025-09-13T22:31:24,456 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] 2025-09-13T22:31:24,456 1164 | for (llong i = 0; i < s.st_size / sizeof(ctx_obj_ct_t); i++) { 2025-09-13T22:31:24,456 | ^ 2025-09-13T22:31:24,462 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-09-13T22:31:24,463 command_dist.c:1240:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-13T22:31:24,464 1240 | for (int rid = 0; rid < ref_num; rid++) 2025-09-13T22:31:24,464 | ^ 2025-09-13T22:31:24,466 command_dist.c:1246:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-13T22:31:24,466 1246 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-13T22:31:24,466 | ^ 2025-09-13T22:31:24,473 command_dist.c: In function ‘dist_print_nobin’: 2025-09-13T22:31:24,475 command_dist.c:1336:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-13T22:31:24,475 1336 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-09-13T22:31:24,475 | ^ 2025-09-13T22:31:24,478 command_dist.c:1357:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-13T22:31:24,479 1357 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-13T22:31:24,479 | ^ 2025-09-13T22:31:24,481 command_dist.c:1383:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-13T22:31:24,481 1383 | for (int rid = 0; rid < ref_num; rid++) 2025-09-13T22:31:24,482 | ^ 2025-09-13T22:31:24,955 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-09-13T22:31:24,955 command_dist.c:404:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2025-09-13T22:31:24,955 404 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-09-13T22:31:24,956 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:24,956 command_dist.c:376:40: note: ‘com_abund_fp’ was declared here 2025-09-13T22:31:24,956 376 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-09-13T22:31:24,956 | ^~~~~~~~~~~~ 2025-09-13T22:31:25,846 command_dist.c: In function ‘get_dim_shuffle’: 2025-09-13T22:31:25,846 command_dist.c:268:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-09-13T22:31:25,846 268 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-13T22:31:25,846 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:25,846 command_dist.c:268:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-09-13T22:31:25,847 268 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-13T22:31:25,847 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:26,877 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-13T22:31:26,878 command_dist.c:597:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:26,879 597 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-13T22:31:26,879 | ^~ ~~~~~~~~~ 2025-09-13T22:31:26,879 command_dist.c:597:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-13T22:31:26,879 597 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-13T22:31:26,879 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:26,880 command_dist.c:626:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:26,880 626 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-13T22:31:26,880 | ^~~~~~~~~~~~~~~ 2025-09-13T22:31:26,881 command_dist.c:626:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-13T22:31:26,881 626 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-13T22:31:26,881 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:26,883 command_dist.c:682:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:26,884 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-13T22:31:26,884 | ^~~~~~~~~~~ 2025-09-13T22:31:26,884 command_dist.c:682:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:26,885 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-13T22:31:26,885 | ^~~~~~~~~~~~~~~~~ 2025-09-13T22:31:26,885 command_dist.c:682:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-13T22:31:26,885 682 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-13T22:31:26,885 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:26,886 command_dist.c:683:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:26,886 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-13T22:31:26,886 | ^~~~~ 2025-09-13T22:31:26,887 command_dist.c:683:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:26,887 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-13T22:31:26,887 | ^~~~~~~~~~~ 2025-09-13T22:31:26,888 command_dist.c:683:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-13T22:31:26,888 683 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-13T22:31:26,888 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,154 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-13T22:31:27,155 command_dist.c:764:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:27,155 764 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-13T22:31:27,155 | ^~ ~~~~~~~~~ 2025-09-13T22:31:27,156 command_dist.c:764:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-13T22:31:27,156 764 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-13T22:31:27,156 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,157 command_dist.c:791:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:27,157 791 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-13T22:31:27,157 | ^~~~~~~~~~~~~~~ 2025-09-13T22:31:27,158 command_dist.c:791:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-13T22:31:27,158 791 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-13T22:31:27,158 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,159 command_dist.c:824:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:27,160 824 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-13T22:31:27,160 | ^~~~~~~~~~~~~ 2025-09-13T22:31:27,160 command_dist.c:824:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-13T22:31:27,161 824 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-13T22:31:27,161 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,162 command_dist.c:850:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:27,162 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-13T22:31:27,162 | ^ 2025-09-13T22:31:27,163 command_dist.c:850:33: note: directive argument in the range [0, 536870912] 2025-09-13T22:31:27,163 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-13T22:31:27,163 | ^~~~~~~~~~ 2025-09-13T22:31:27,164 command_dist.c:850:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-13T22:31:27,164 850 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-13T22:31:27,164 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,165 command_dist.c:852:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:27,165 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-13T22:31:27,166 | ^ 2025-09-13T22:31:27,166 command_dist.c:852:28: note: directive argument in the range [0, 536870912] 2025-09-13T22:31:27,167 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-13T22:31:27,167 | ^~~~~~~~~~ 2025-09-13T22:31:27,168 command_dist.c:852:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-13T22:31:27,168 852 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-13T22:31:27,168 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,458 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-13T22:31:27,460 command_dist.c:928:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:27,460 928 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-13T22:31:27,461 | ^~ ~~~~~~~~~ 2025-09-13T22:31:27,462 command_dist.c:928:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-13T22:31:27,462 928 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-13T22:31:27,462 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,463 command_dist.c:957:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:27,463 957 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-13T22:31:27,463 | ^~~~~~~~~~~~~~~ 2025-09-13T22:31:27,464 command_dist.c:957:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-13T22:31:27,465 957 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-13T22:31:27,465 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,466 command_dist.c:991:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:27,466 991 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-13T22:31:27,466 | ^~~~~~~~~~~~~ 2025-09-13T22:31:27,467 command_dist.c:991:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-13T22:31:27,468 991 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-13T22:31:27,468 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,470 command_dist.c:1023:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:27,470 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-13T22:31:27,470 | ^~~~~~~~~~~ 2025-09-13T22:31:27,472 command_dist.c:1023:38: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:27,472 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-13T22:31:27,472 | ^~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,473 command_dist.c:1023:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-13T22:31:27,473 1023 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-13T22:31:27,473 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,475 command_dist.c:1024:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-13T22:31:27,475 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-13T22:31:27,475 | ^~~~~ 2025-09-13T22:31:27,476 command_dist.c:1024:32: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:27,476 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-13T22:31:27,476 | ^~~~~~~~~~~ 2025-09-13T22:31:27,477 command_dist.c:1024:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-13T22:31:27,478 1024 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-13T22:31:27,478 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,788 command_dist.c: In function ‘combine_queries’: 2025-09-13T22:31:27,790 command_dist.c:1493:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:27,790 1493 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-13T22:31:27,790 | ^ 2025-09-13T22:31:27,791 command_dist.c:1493:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:27,792 1493 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-13T22:31:27,792 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,794 command_dist.c:1500:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:27,794 1500 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-13T22:31:27,794 | ^ 2025-09-13T22:31:27,796 command_dist.c:1500:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:27,796 1500 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-13T22:31:27,796 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:27,799 command_dist.c:1604:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:27,799 1604 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-13T22:31:27,799 | ^~ ~~~~~~~~ 2025-09-13T22:31:27,801 command_dist.c:1604:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-13T22:31:27,801 1604 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-13T22:31:27,802 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:28,352 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 2025-09-13T22:31:28,535 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 2025-09-13T22:31:28,716 command_set.c: In function ‘sketch_operate’: 2025-09-13T22:31:28,716 command_set.c:179:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-13T22:31:28,716 179 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-09-13T22:31:28,716 | ^ 2025-09-13T22:31:28,730 command_set.c: In function ‘combin_subset_pans’: 2025-09-13T22:31:28,731 command_set.c:458:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-13T22:31:28,731 458 | free(co_dstat_fpath); 2025-09-13T22:31:28,731 | ^~~~~~~~~~~~~~ 2025-09-13T22:31:28,731 In file included from kssdheaders/global_basic.h:159, 2025-09-13T22:31:28,732 from command_set.c:15: 2025-09-13T22:31:28,732 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-13T22:31:28,732 687 | extern void free (void *__ptr) __THROW; 2025-09-13T22:31:28,732 | ~~~~~~^~~~~ 2025-09-13T22:31:28,738 command_set.c: In function ‘grouping_genomes’: 2025-09-13T22:31:28,739 command_set.c:563:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-13T22:31:28,739 563 | free(co_dstat_fpath); 2025-09-13T22:31:28,739 | ^~~~~~~~~~~~~~ 2025-09-13T22:31:28,739 /usr/include/stdlib.h:687:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-13T22:31:28,739 687 | extern void free (void *__ptr) __THROW; 2025-09-13T22:31:28,739 | ~~~~~~^~~~~ 2025-09-13T22:31:28,931 command_set.c: In function ‘sketch_union’: 2025-09-13T22:31:28,931 command_set.c:72:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:28,931 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:28,931 | ^ 2025-09-13T22:31:28,931 command_set.c:72:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:28,931 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:28,931 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:28,931 command_set.c:83:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:28,932 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-13T22:31:28,932 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:28,932 command_set.c:83:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:28,932 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-13T22:31:28,932 | ^~~~~~~~~~ 2025-09-13T22:31:28,932 command_set.c:83:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:28,932 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-13T22:31:28,932 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:28,932 command_set.c:93:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:28,932 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-13T22:31:28,933 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:28,933 command_set.c:93:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:28,933 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-13T22:31:28,933 | ^~~~~~~~~~ 2025-09-13T22:31:28,933 command_set.c:93:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-13T22:31:28,933 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-13T22:31:28,933 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,061 command_set.c: In function ‘sketch_operate’: 2025-09-13T22:31:29,062 command_set.c:154:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,062 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-13T22:31:29,062 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:29,062 command_set.c:154:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,062 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-13T22:31:29,062 | ^~~~~~~~~~ 2025-09-13T22:31:29,062 command_set.c:154:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-13T22:31:29,062 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-13T22:31:29,062 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,063 command_set.c:156:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,063 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-13T22:31:29,063 | ^~ ~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,063 command_set.c:156:29: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,063 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-13T22:31:29,063 | ^~~~~~~~~~ 2025-09-13T22:31:29,063 command_set.c:156:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-13T22:31:29,063 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-13T22:31:29,063 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,063 command_set.c:166:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,063 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-13T22:31:29,064 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,064 command_set.c:166:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,064 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-13T22:31:29,064 | ^~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,064 command_set.c:166:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-13T22:31:29,064 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-13T22:31:29,064 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,064 command_set.c:170:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,064 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-13T22:31:29,064 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,064 command_set.c:170:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,065 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-13T22:31:29,065 | ^~~~~~~~~~ 2025-09-13T22:31:29,065 command_set.c:170:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,065 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-13T22:31:29,065 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,065 command_set.c:175:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,065 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-13T22:31:29,065 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,065 command_set.c:175:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,065 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-13T22:31:29,065 | ^~~~~~~~~~ 2025-09-13T22:31:29,065 command_set.c:175:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,066 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-13T22:31:29,066 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,066 command_set.c:188:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,066 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-13T22:31:29,066 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,066 command_set.c:188:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,066 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-13T22:31:29,066 | ^~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,066 command_set.c:188:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-13T22:31:29,066 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-13T22:31:29,066 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,067 command_set.c:193:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:29,067 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,067 | ^ 2025-09-13T22:31:29,067 command_set.c:193:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:29,067 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,067 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,246 command_set.c: In function ‘uniq_sketch_union’: 2025-09-13T22:31:29,247 command_set.c:220:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:29,247 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-13T22:31:29,247 | ^ 2025-09-13T22:31:29,247 command_set.c:220:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2025-09-13T22:31:29,247 220 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-09-13T22:31:29,247 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,247 command_set.c:235:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:29,247 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,247 | ^ 2025-09-13T22:31:29,248 command_set.c:235:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:29,248 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,248 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,248 command_set.c:248:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,248 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-13T22:31:29,248 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,248 command_set.c:248:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,249 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-13T22:31:29,249 | ^~~~~~~~~~ 2025-09-13T22:31:29,249 command_set.c:248:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,249 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-13T22:31:29,249 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,249 command_set.c:260:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,249 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-13T22:31:29,250 | ^~ ~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,250 command_set.c:260:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,250 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-13T22:31:29,250 | ^~~~~~~~~~ 2025-09-13T22:31:29,250 command_set.c:260:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-13T22:31:29,250 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-13T22:31:29,250 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,407 command_set.c: In function ‘combin_pans’: 2025-09-13T22:31:29,407 command_set.c:298:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,407 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,408 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,408 command_set.c:298:25: note: directive argument in the range [0, 1073741823] 2025-09-13T22:31:29,408 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,408 | ^~~~~~~~~~ 2025-09-13T22:31:29,408 command_set.c:298:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-09-13T22:31:29,408 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,408 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,409 command_set.c:301:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,409 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,409 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:29,409 command_set.c:301:25: note: directive argument in the range [0, 1073741823] 2025-09-13T22:31:29,409 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,409 | ^~~~~~~~~~ 2025-09-13T22:31:29,409 command_set.c:301:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-09-13T22:31:29,410 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,410 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,411 command_set.c:343:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:29,411 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,411 | ^ 2025-09-13T22:31:29,411 command_set.c:343:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:29,411 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,411 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,630 command_set.c: In function ‘combin_subset_pans’: 2025-09-13T22:31:29,631 command_set.c:470:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,631 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-13T22:31:29,631 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,631 command_set.c:470:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,631 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-13T22:31:29,631 | ^~~~~~~~~~ 2025-09-13T22:31:29,632 command_set.c:470:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,632 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-13T22:31:29,632 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,633 command_set.c:476:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,633 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-13T22:31:29,633 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:29,633 command_set.c:476:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,633 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-13T22:31:29,634 | ^~~~~~~~~~ 2025-09-13T22:31:29,634 command_set.c:476:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-13T22:31:29,634 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-13T22:31:29,634 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,635 command_set.c:482:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,635 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,635 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,635 command_set.c:482:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,636 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,636 | ^~~~~~~~~~ 2025-09-13T22:31:29,636 command_set.c:482:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,636 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,636 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,637 command_set.c:513:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,637 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,637 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:29,638 command_set.c:513:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,638 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,638 | ^~~~~~~~~~ 2025-09-13T22:31:29,639 command_set.c:513:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-13T22:31:29,639 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,639 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,639 command_set.c:524:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:29,639 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,639 | ^ 2025-09-13T22:31:29,640 command_set.c:524:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:29,640 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,640 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,886 command_set.c: In function ‘grouping_genomes’: 2025-09-13T22:31:29,887 command_set.c:575:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,887 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-13T22:31:29,887 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,888 command_set.c:575:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,888 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-13T22:31:29,888 | ^~~~~~~~~~ 2025-09-13T22:31:29,888 command_set.c:575:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,888 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-13T22:31:29,889 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,889 command_set.c:581:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,890 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-13T22:31:29,890 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:29,890 command_set.c:581:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,890 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-13T22:31:29,890 | ^~~~~~~~~~ 2025-09-13T22:31:29,891 command_set.c:581:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-13T22:31:29,891 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-13T22:31:29,891 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,892 command_set.c:613:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,892 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,893 | ^~ ~~~~~~~~~~~ 2025-09-13T22:31:29,893 command_set.c:613:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,893 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,893 | ^~~~~~~~~~ 2025-09-13T22:31:29,894 command_set.c:613:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-13T22:31:29,894 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-13T22:31:29,894 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,895 command_set.c:635:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-13T22:31:29,895 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,895 | ^~ ~~~~~~~~~~ 2025-09-13T22:31:29,896 command_set.c:635:25: note: directive argument in the range [-2147483641, 2147483646] 2025-09-13T22:31:29,896 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,896 | ^~~~~~~~~~ 2025-09-13T22:31:29,897 command_set.c:635:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-13T22:31:29,897 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-13T22:31:29,897 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:29,898 command_set.c:646:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-13T22:31:29,898 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,898 | ^ 2025-09-13T22:31:29,899 command_set.c:646:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-13T22:31:29,899 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-13T22:31:29,899 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-13T22:31:30,184 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 2025-09-13T22:31:30,735 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 2025-09-13T22:31:30,948 global_basic.c: In function ‘organize_infile_list’: 2025-09-13T22:31:30,949 global_basic.c:195:20: error: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-09-13T22:31:30,949 195 | while (isspace(*buf)) buf++; 2025-09-13T22:31:30,949 | ^~~~~~~ 2025-09-13T22:31:30,949 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2025-09-13T22:31:30,949 34 | #include 2025-09-13T22:31:30,949 +++ |+#include 2025-09-13T22:31:30,949 35 | 2025-09-13T22:31:30,949 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=] 2025-09-13T22:31:30,950 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-13T22:31:30,950 | ~~^ 2025-09-13T22:31:30,950 | | 2025-09-13T22:31:30,950 | long unsigned int 2025-09-13T22:31:30,950 | %u 2025-09-13T22:31:30,950 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-13T22:31:30,950 | ~~~~~~~~~~~ 2025-09-13T22:31:30,950 | | 2025-09-13T22:31:30,950 | size_t {aka unsigned int} 2025-09-13T22:31:30,951 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=] 2025-09-13T22:31:30,951 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-13T22:31:30,951 | ~~^ 2025-09-13T22:31:30,951 | | 2025-09-13T22:31:30,951 | long unsigned int 2025-09-13T22:31:30,952 | %u 2025-09-13T22:31:30,952 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-13T22:31:30,952 | ~~~~~~~~~~~ 2025-09-13T22:31:30,952 | | 2025-09-13T22:31:30,952 | size_t {aka unsigned int} 2025-09-13T22:31:30,973 error: command '/usr/bin/arm-linux-gnueabihf-gcc' failed with exit code 1 2025-09-13T22:31:31,141 ERROR: python setup.py bdist_wheel exited with 1 2025-09-13T22:31:31,154 [bold magenta]full command[/]: [blue]/usr/bin/python3 -u -c ' 2025-09-13T22:31:31,154 exec(compile('"'"''"'"''"'"' 2025-09-13T22:31:31,154 # This is -- a caller that pip uses to run setup.py 2025-09-13T22:31:31,154 # 2025-09-13T22:31:31,154 # - It imports setuptools before invoking setup.py, to enable projects that directly 2025-09-13T22:31:31,154 # import from `distutils.core` to work with newer packaging standards. 2025-09-13T22:31:31,154 # - It provides a clear error message when setuptools is not installed. 2025-09-13T22:31:31,154 # - It sets `sys.argv[0]` to the underlying `setup.py`, when invoking `setup.py` so 2025-09-13T22:31:31,154 # setuptools doesn'"'"'t think the script is `-c`. This avoids the following warning: 2025-09-13T22:31:31,154 # manifest_maker: standard file '"'"'-c'"'"' not found". 2025-09-13T22:31:31,154 # - It generates a shim setup.py, for handling setup.cfg-only projects. 2025-09-13T22:31:31,154 import os, sys, tokenize, traceback 2025-09-13T22:31:31,154 2025-09-13T22:31:31,154 try: 2025-09-13T22:31:31,154 import setuptools 2025-09-13T22:31:31,154 except ImportError: 2025-09-13T22:31:31,154 print( 2025-09-13T22:31:31,154 "ERROR: Can not execute `setup.py` since setuptools failed to import in " 2025-09-13T22:31:31,154 "the build environment with exception:", 2025-09-13T22:31:31,154 file=sys.stderr, 2025-09-13T22:31:31,154 ) 2025-09-13T22:31:31,154 traceback.print_exc() 2025-09-13T22:31:31,154 sys.exit(1) 2025-09-13T22:31:31,154 2025-09-13T22:31:31,154 __file__ = %r 2025-09-13T22:31:31,154 sys.argv[0] = __file__ 2025-09-13T22:31:31,154 2025-09-13T22:31:31,154 if os.path.exists(__file__): 2025-09-13T22:31:31,154 filename = __file__ 2025-09-13T22:31:31,154 with tokenize.open(__file__) as f: 2025-09-13T22:31:31,154 setup_py_code = f.read() 2025-09-13T22:31:31,154 else: 2025-09-13T22:31:31,154 filename = "" 2025-09-13T22:31:31,154 setup_py_code = "from setuptools import setup; setup()" 2025-09-13T22:31:31,154 2025-09-13T22:31:31,154 exec(compile(setup_py_code, filename, "exec")) 2025-09-13T22:31:31,154 '"'"''"'"''"'"' % ('"'"'/tmp/pip-wheel-sjwn5v94/kssdtree_ebb70e22002c46c2acf304e06b27c90b/setup.py'"'"',), "", "exec"))' bdist_wheel -d /tmp/pip-wheel-sg04_ngd[/] 2025-09-13T22:31:31,154 [bold magenta]cwd[/]: /tmp/pip-wheel-sjwn5v94/kssdtree_ebb70e22002c46c2acf304e06b27c90b/ 2025-09-13T22:31:31,154 Building wheel for kssdtree (setup.py): finished with status 'error' 2025-09-13T22:31:31,155 ERROR: Failed building wheel for kssdtree 2025-09-13T22:31:31,156 Running setup.py clean for kssdtree 2025-09-13T22:31:31,157 Running command python setup.py clean 2025-09-13T22:31:32,448 running clean 2025-09-13T22:31:32,620 removing 'build/temp.linux-armv7l-cpython-313' (and everything under it) 2025-09-13T22:31:32,621 removing 'build/lib.linux-armv7l-cpython-313' (and everything under it) 2025-09-13T22:31:32,621 'build/bdist.linux-armv7l' does not exist -- can't clean it 2025-09-13T22:31:32,621 'build/scripts-3.13' does not exist -- can't clean it 2025-09-13T22:31:32,622 removing 'build' 2025-09-13T22:31:32,753 Failed to build kssdtree 2025-09-13T22:31:32,754 ERROR: Failed to build one or more wheels 2025-09-13T22:31:32,755 Exception information: 2025-09-13T22:31:32,755 Traceback (most recent call last): 2025-09-13T22:31:32,755 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 105, in _run_wrapper 2025-09-13T22:31:32,755 status = _inner_run() 2025-09-13T22:31:32,755 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 96, in _inner_run 2025-09-13T22:31:32,755 return self.run(options, args) 2025-09-13T22:31:32,755 ~~~~~~~~^^^^^^^^^^^^^^^ 2025-09-13T22:31:32,755 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 68, in wrapper 2025-09-13T22:31:32,755 return func(self, options, args) 2025-09-13T22:31:32,755 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 180, in run 2025-09-13T22:31:32,755 raise CommandError("Failed to build one or more wheels") 2025-09-13T22:31:32,755 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2025-09-13T22:31:32,759 Removed build tracker: '/tmp/pip-build-tracker-fi7bkc6k'