2025-09-24T04:43:02,587 Created temporary directory: /tmp/pip-ephem-wheel-cache-0_rhyk07 2025-09-24T04:43:02,589 Created temporary directory: /tmp/pip-req-tracker-4dedam0e 2025-09-24T04:43:02,589 Initialized build tracking at /tmp/pip-req-tracker-4dedam0e 2025-09-24T04:43:02,589 Created build tracker: /tmp/pip-req-tracker-4dedam0e 2025-09-24T04:43:02,590 Entered build tracker: /tmp/pip-req-tracker-4dedam0e 2025-09-24T04:43:02,590 Created temporary directory: /tmp/pip-wheel-994pfz5r 2025-09-24T04:43:02,639 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple, https://www.piwheels.org/simple 2025-09-24T04:43:02,640 2 location(s) to search for versions of kssdtree: 2025-09-24T04:43:02,640 * https://pypi.org/simple/kssdtree/ 2025-09-24T04:43:02,640 * https://www.piwheels.org/simple/kssdtree/ 2025-09-24T04:43:02,641 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2025-09-24T04:43:02,641 Getting page https://pypi.org/simple/kssdtree/ 2025-09-24T04:43:02,642 Found index url https://pypi.org/simple 2025-09-24T04:43:02,645 Getting credentials from keyring for https://pypi.org/simple 2025-09-24T04:43:02,796 Loading KWallet 2025-09-24T04:43:02,818 Loading SecretService 2025-09-24T04:43:02,873 Loading Windows 2025-09-24T04:43:02,877 Loading chainer 2025-09-24T04:43:02,878 Loading libsecret 2025-09-24T04:43:02,929 Loading macOS 2025-09-24T04:43:03,151 Getting credentials from keyring for pypi.org 2025-09-24T04:43:03,155 Starting new HTTPS connection (1): pypi.org:443 2025-09-24T04:43:03,271 https://pypi.org:443 "GET /simple/kssdtree/ HTTP/1.1" 200 1802 2025-09-24T04:43:03,347 Found link https://files.pythonhosted.org/packages/d5/1e/9e5c5945a44bb40002d1c259f734a531999fa6e87db89fe7c7ddcfc583cc/kssdtree-1.1.1.tar.gz#sha256=bf3cab86e89b6b582ba9ad245264808902efb41c875aaf6d730fbc10cb019cde (from https://pypi.org/simple/kssdtree/), version: 1.1.1 2025-09-24T04:43:03,348 Found link https://files.pythonhosted.org/packages/9a/4c/6516f734f5860e4b30f9091aaac5811663bfae72c4de4ae6566c89192767/kssdtree-1.1.2.tar.gz#sha256=42effc7c897303a981c9746cd854a6a4fd5ff5905b46c20fbc6ce1f7d45c3ea7 (from https://pypi.org/simple/kssdtree/), version: 1.1.2 2025-09-24T04:43:03,348 Found link https://files.pythonhosted.org/packages/a4/cd/f2954686c636e853cc3fda197c459195377b78288874cf7d68218a8bdbf4/kssdtree-1.1.3.tar.gz#sha256=0ffe4a29d67de8ca6c6cfcca8b7fd9d764b46c62c8d8d0a4bda87cd7a0709775 (from https://pypi.org/simple/kssdtree/), version: 1.1.3 2025-09-24T04:43:03,349 Found link https://files.pythonhosted.org/packages/20/ea/b0301924e3f7d367cbb7b8da66837dba9af2a332bf56ed35e03a33faee76/kssdtree-1.1.4.tar.gz#sha256=741fd7c1babd190fd158a8bd59c22ee769efb8f675d709537c387effb05b6049 (from https://pypi.org/simple/kssdtree/), version: 1.1.4 2025-09-24T04:43:03,349 Found link https://files.pythonhosted.org/packages/41/65/ed35110b84bc0dd02b9add0104f10160754d2ea0882191767d512146a884/kssdtree-1.1.6.tar.gz#sha256=e1a0baf89155dd739cae854bebc7f95220d4b39d8d8e72f8c9165ea3be628406 (from https://pypi.org/simple/kssdtree/), version: 1.1.6 2025-09-24T04:43:03,349 Found link https://files.pythonhosted.org/packages/cd/4b/d886cbcc573ff0969da7d9c756049925b86141e60ee6708dfbbe0644d008/kssdtree-1.1.7.tar.gz#sha256=1662c719840f11eb8d59f87b4a094387e210884c1c563124c7d2446ab45b77e0 (from https://pypi.org/simple/kssdtree/), version: 1.1.7 2025-09-24T04:43:03,349 Found link https://files.pythonhosted.org/packages/7e/8a/a62c8adc92df69ab8cb242827ee64a3e2b6d5c89b83425785dd00605af17/kssdtree-1.1.8.tar.gz#sha256=13e9d672c59aee331866ef4bacade5dce00cc0786e76216cd505c61a745f2d9e (from https://pypi.org/simple/kssdtree/), version: 1.1.8 2025-09-24T04:43:03,350 Found link https://files.pythonhosted.org/packages/da/db/e458cca6427752c05428d2378ccdee631d32f760174fdaba65f73125e71b/kssdtree-1.1.9.tar.gz#sha256=7d2369e6115ef2cfa4661b11353ad5d8c3f240da20c005ec0e0b7388ebc3b1df (from https://pypi.org/simple/kssdtree/), version: 1.1.9 2025-09-24T04:43:03,350 Found link https://files.pythonhosted.org/packages/9d/47/017180a30e73e421372377cbe6d01c5e51a5108ea2177f20ccd7d283f8d1/kssdtree-2.0.0.tar.gz#sha256=d73856db5284551744e106217cef97b92bb726709da565b8bb360e0787ed81c6 (from https://pypi.org/simple/kssdtree/), version: 2.0.0 2025-09-24T04:43:03,350 Found link https://files.pythonhosted.org/packages/ba/39/d443cac955912a0371c93b797311cb9ec3a8d6ee0a5d7673376d826aa6b2/kssdtree-2.0.1.tar.gz#sha256=a0e75875f56a10b5d752855fefdb5fd136f9e555efbf87e1520fb590fa65fe7b (from https://pypi.org/simple/kssdtree/), version: 2.0.1 2025-09-24T04:43:03,351 Found link https://files.pythonhosted.org/packages/2e/32/e53c0e3735cbc913b2c96b4e0e1c1005fe816a4d71b38b80cdcfb5c67fa8/kssdtree-2.0.2.tar.gz#sha256=9a944c9e7de930f6bd7aae479f03dc38a79aaa7f1e82432936b7b21340775a03 (from https://pypi.org/simple/kssdtree/), version: 2.0.2 2025-09-24T04:43:03,351 Found link https://files.pythonhosted.org/packages/c0/0f/effc10c8e76dbe3b9a35a4b4d9e65a0a889ee805e10334541c3ca7ae3b94/kssdtree-2.0.3.tar.gz#sha256=9efac23369d5f14bca36a1926050821eb9a0cfde618ad226bdb10866a434e1c4 (from https://pypi.org/simple/kssdtree/), version: 2.0.3 2025-09-24T04:43:03,351 Found link https://files.pythonhosted.org/packages/fc/8d/d3790baa2f2f0a01c913005b94a82dc13ef601e7015e662ccff94bb1b458/kssdtree-2.0.4.tar.gz#sha256=e93c66915a3a20a269f05968eaa70e2d88018ca3e6973a85460c388b6b2a09d8 (from https://pypi.org/simple/kssdtree/), version: 2.0.4 2025-09-24T04:43:03,352 Found link https://files.pythonhosted.org/packages/b5/f8/19480a4c57704944f973ebf534f9582054949cca20170a33c6f874974440/kssdtree-2.0.5.tar.gz#sha256=954ce08a38bdae1f847388775c3dbdff1f0e8a68dd0bca5d43a98ab5289fee61 (from https://pypi.org/simple/kssdtree/), version: 2.0.5 2025-09-24T04:43:03,352 Found link https://files.pythonhosted.org/packages/46/ef/2d920d5d2fceded48c7add363e04f49ae85414bcd4360e1295d6fddc4a24/kssdtree-2.0.6.tar.gz#sha256=68b0905094f99ceff73d8186c5b005906b1b8fcf9e70fd0ce266dd700cce1b50 (from https://pypi.org/simple/kssdtree/), version: 2.0.6 2025-09-24T04:43:03,352 Found link https://files.pythonhosted.org/packages/9c/1c/c6b3f05465d145856ac992328bd59e776286a59b120254620c1dbffcf67f/kssdtree-2.0.7.tar.gz#sha256=f304750bc48a344cd83c6b62e93a729299be609f392a3e91ec4c8af460980e90 (from https://pypi.org/simple/kssdtree/), version: 2.0.7 2025-09-24T04:43:03,352 Found link https://files.pythonhosted.org/packages/82/9b/dac2af6572f0c4421e5ba8341dcfddac466de30c62acfa019d9ef70b2670/kssdtree-2.0.8.tar.gz#sha256=8c6c32364cbdb22c18db2dd6a984018e8c6bbc55b25f384f12c5647bb142c1f0 (from https://pypi.org/simple/kssdtree/), version: 2.0.8 2025-09-24T04:43:03,353 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2025-09-24T04:43:03,353 Getting page https://www.piwheels.org/simple/kssdtree/ 2025-09-24T04:43:03,355 Found index url https://www.piwheels.org/simple 2025-09-24T04:43:03,355 Getting credentials from keyring for https://www.piwheels.org/simple 2025-09-24T04:43:03,355 Getting credentials from keyring for www.piwheels.org 2025-09-24T04:43:03,357 Starting new HTTPS connection (1): www.piwheels.org:443 2025-09-24T04:43:03,420 https://www.piwheels.org:443 "GET /simple/kssdtree/ HTTP/1.1" 200 2216 2025-09-24T04:43:03,458 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/) 2025-09-24T04:43:03,458 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/) 2025-09-24T04:43:03,458 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/) 2025-09-24T04:43:03,459 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/) 2025-09-24T04:43:03,459 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.7-cp39-cp39-linux_armv6l.whl#sha256=27677e716e6d66163d5aa6b6f09a6aaae97d4a8cf4882e9eab54b93800cc3ea8 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-24T04:43:03,459 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.7-cp39-cp39-linux_armv7l.whl#sha256=27677e716e6d66163d5aa6b6f09a6aaae97d4a8cf4882e9eab54b93800cc3ea8 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-24T04:43:03,459 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/) 2025-09-24T04:43:03,459 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/) 2025-09-24T04:43:03,460 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.6-cp39-cp39-linux_armv6l.whl#sha256=6cc8e863f6316aa656790c5fc8a7bb42bbb33d4db4a6256f3e30131b023d5e41 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-24T04:43:03,460 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.6-cp39-cp39-linux_armv7l.whl#sha256=6cc8e863f6316aa656790c5fc8a7bb42bbb33d4db4a6256f3e30131b023d5e41 (from https://www.piwheels.org/simple/kssdtree/) 2025-09-24T04:43:03,460 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/) 2025-09-24T04:43:03,460 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/) 2025-09-24T04:43:03,461 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/) 2025-09-24T04:43:03,461 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/) 2025-09-24T04:43:03,461 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/) 2025-09-24T04:43:03,461 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/) 2025-09-24T04:43:03,461 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/) 2025-09-24T04:43:03,462 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/) 2025-09-24T04:43:03,462 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/) 2025-09-24T04:43:03,462 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/) 2025-09-24T04:43:03,462 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/) 2025-09-24T04:43:03,463 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/) 2025-09-24T04:43:03,463 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/) 2025-09-24T04:43:03,463 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/) 2025-09-24T04:43:03,463 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/) 2025-09-24T04:43:03,463 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/) 2025-09-24T04:43:03,464 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/) 2025-09-24T04:43:03,464 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/) 2025-09-24T04:43:03,464 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/) 2025-09-24T04:43:03,464 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/) 2025-09-24T04:43:03,465 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/) 2025-09-24T04:43:03,465 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/) 2025-09-24T04:43:03,465 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/) 2025-09-24T04:43:03,465 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/) 2025-09-24T04:43:03,465 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/) 2025-09-24T04:43:03,466 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/) 2025-09-24T04:43:03,466 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/) 2025-09-24T04:43:03,466 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/) 2025-09-24T04:43:03,466 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/) 2025-09-24T04:43:03,466 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/) 2025-09-24T04:43:03,467 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/) 2025-09-24T04:43:03,467 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/) 2025-09-24T04:43:03,467 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/) 2025-09-24T04:43:03,467 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/) 2025-09-24T04:43:03,468 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/) 2025-09-24T04:43:03,468 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/) 2025-09-24T04:43:03,468 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/) 2025-09-24T04:43:03,468 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/) 2025-09-24T04:43:03,468 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/) 2025-09-24T04:43:03,469 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/) 2025-09-24T04:43:03,469 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/) 2025-09-24T04:43:03,469 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/) 2025-09-24T04:43:03,469 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/) 2025-09-24T04:43:03,469 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/) 2025-09-24T04:43:03,470 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/) 2025-09-24T04:43:03,470 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/) 2025-09-24T04:43:03,470 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/) 2025-09-24T04:43:03,470 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/) 2025-09-24T04:43:03,471 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/) 2025-09-24T04:43:03,471 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/) 2025-09-24T04:43:03,471 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/) 2025-09-24T04:43:03,471 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/) 2025-09-24T04:43:03,471 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/) 2025-09-24T04:43:03,472 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/) 2025-09-24T04:43:03,472 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/) 2025-09-24T04:43:03,472 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/) 2025-09-24T04:43:03,472 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/) 2025-09-24T04:43:03,472 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/) 2025-09-24T04:43:03,473 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/) 2025-09-24T04:43:03,473 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/) 2025-09-24T04:43:03,473 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/) 2025-09-24T04:43:03,473 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/) 2025-09-24T04:43:03,504 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2025-09-24T04:43:03,535 Collecting kssdtree==2.0.8 2025-09-24T04:43:03,537 Created temporary directory: /tmp/pip-unpack-qdcm14bw 2025-09-24T04:43:03,539 Getting credentials from keyring for files.pythonhosted.org 2025-09-24T04:43:03,541 Starting new HTTPS connection (1): files.pythonhosted.org:443 2025-09-24T04:43:03,648 https://files.pythonhosted.org:443 "GET /packages/82/9b/dac2af6572f0c4421e5ba8341dcfddac466de30c62acfa019d9ef70b2670/kssdtree-2.0.8.tar.gz HTTP/1.1" 200 114773 2025-09-24T04:43:03,649 Downloading kssdtree-2.0.8.tar.gz (114 kB) 2025-09-24T04:43:03,837 Added kssdtree==2.0.8 from https://files.pythonhosted.org/packages/82/9b/dac2af6572f0c4421e5ba8341dcfddac466de30c62acfa019d9ef70b2670/kssdtree-2.0.8.tar.gz#sha256=8c6c32364cbdb22c18db2dd6a984018e8c6bbc55b25f384f12c5647bb142c1f0 to build tracker '/tmp/pip-req-tracker-4dedam0e' 2025-09-24T04:43:03,838 Running setup.py (path:/tmp/pip-wheel-994pfz5r/kssdtree_bd083093c7e54c119269d705916c5429/setup.py) egg_info for package kssdtree 2025-09-24T04:43:03,838 Created temporary directory: /tmp/pip-pip-egg-info-qjdevexr 2025-09-24T04:43:03,839 Running command python setup.py egg_info 2025-09-24T04:43:04,792 running egg_info 2025-09-24T04:43:04,828 creating /tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info 2025-09-24T04:43:04,829 writing /tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/PKG-INFO 2025-09-24T04:43:04,833 writing dependency_links to /tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/dependency_links.txt 2025-09-24T04:43:04,836 writing requirements to /tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/requires.txt 2025-09-24T04:43:04,837 writing top-level names to /tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/top_level.txt 2025-09-24T04:43:04,839 writing manifest file '/tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/SOURCES.txt' 2025-09-24T04:43:05,200 reading manifest file '/tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/SOURCES.txt' 2025-09-24T04:43:05,202 reading manifest template 'MANIFEST.in' 2025-09-24T04:43:05,222 writing manifest file '/tmp/pip-pip-egg-info-qjdevexr/kssdtree.egg-info/SOURCES.txt' 2025-09-24T04:43:05,314 Source in /tmp/pip-wheel-994pfz5r/kssdtree_bd083093c7e54c119269d705916c5429 has version 2.0.8, which satisfies requirement kssdtree==2.0.8 from https://files.pythonhosted.org/packages/82/9b/dac2af6572f0c4421e5ba8341dcfddac466de30c62acfa019d9ef70b2670/kssdtree-2.0.8.tar.gz#sha256=8c6c32364cbdb22c18db2dd6a984018e8c6bbc55b25f384f12c5647bb142c1f0 2025-09-24T04:43:05,315 Removed kssdtree==2.0.8 from https://files.pythonhosted.org/packages/82/9b/dac2af6572f0c4421e5ba8341dcfddac466de30c62acfa019d9ef70b2670/kssdtree-2.0.8.tar.gz#sha256=8c6c32364cbdb22c18db2dd6a984018e8c6bbc55b25f384f12c5647bb142c1f0 from build tracker '/tmp/pip-req-tracker-4dedam0e' 2025-09-24T04:43:05,319 Created temporary directory: /tmp/pip-unpack-bdewyvnf 2025-09-24T04:43:05,320 Building wheels for collected packages: kssdtree 2025-09-24T04:43:05,324 Created temporary directory: /tmp/pip-wheel-9mz118tl 2025-09-24T04:43:05,324 Building wheel for kssdtree (setup.py): started 2025-09-24T04:43:05,324 Destination directory: /tmp/pip-wheel-9mz118tl 2025-09-24T04:43:05,325 Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-994pfz5r/kssdtree_bd083093c7e54c119269d705916c5429/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-994pfz5r/kssdtree_bd083093c7e54c119269d705916c5429/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-9mz118tl 2025-09-24T04:43:06,241 running bdist_wheel 2025-09-24T04:43:06,417 running build 2025-09-24T04:43:06,418 running build_py 2025-09-24T04:43:06,455 creating build/lib.linux-armv7l-cpython-39 2025-09-24T04:43:06,457 copying kssdtree.py -> build/lib.linux-armv7l-cpython-39 2025-09-24T04:43:06,460 copying toolutils.py -> build/lib.linux-armv7l-cpython-39 2025-09-24T04:43:06,462 running egg_info 2025-09-24T04:43:06,498 writing kssdtree.egg-info/PKG-INFO 2025-09-24T04:43:06,501 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2025-09-24T04:43:06,503 writing requirements to kssdtree.egg-info/requires.txt 2025-09-24T04:43:06,504 writing top-level names to kssdtree.egg-info/top_level.txt 2025-09-24T04:43:06,542 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-24T04:43:06,547 reading manifest template 'MANIFEST.in' 2025-09-24T04:43:06,567 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-09-24T04:43:06,570 running build_ext 2025-09-24T04:43:07,023 building 'kssd' extension 2025-09-24T04:43:07,025 creating build/temp.linux-armv7l-cpython-39 2025-09-24T04:43:07,026 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c co2mco.c -o build/temp.linux-armv7l-cpython-39/co2mco.o -fopenmp 2025-09-24T04:43:07,192 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-09-24T04:43:07,193 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:07,193 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-09-24T04:43:07,193 | ^ 2025-09-24T04:43:07,196 co2mco.c: In function ‘co2unitllmco’: 2025-09-24T04:43:07,197 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:07,197 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-09-24T04:43:07,197 | ^ 2025-09-24T04:43:07,811 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_composite.c -o build/temp.linux-armv7l-cpython-39/command_composite.o -fopenmp 2025-09-24T04:43:08,114 command_composite.c: In function ‘get_species_abundance’: 2025-09-24T04:43:08,115 command_composite.c:32:34: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-24T04:43:08,115 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-09-24T04:43:08,115 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,115 command_composite.c:34:34: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-09-24T04:43:08,116 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-09-24T04:43:08,116 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,116 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:08,116 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-24T04:43:08,117 | ^ 2025-09-24T04:43:08,117 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2025-09-24T04:43:08,117 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-09-24T04:43:08,117 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,118 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:08,118 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-24T04:43:08,118 | ^ 2025-09-24T04:43:08,118 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2025-09-24T04:43:08,118 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-09-24T04:43:08,119 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,119 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:08,119 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-24T04:43:08,119 | ^ 2025-09-24T04:43:08,119 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2025-09-24T04:43:08,120 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-09-24T04:43:08,120 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,120 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:08,120 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-24T04:43:08,121 | ^ 2025-09-24T04:43:08,121 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2025-09-24T04:43:08,121 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-09-24T04:43:08,121 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,121 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:08,122 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-24T04:43:08,122 | ^ 2025-09-24T04:43:08,122 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 261) into a destination of size 256 2025-09-24T04:43:08,122 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-09-24T04:43:08,122 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,361 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_dist.c -o build/temp.linux-armv7l-cpython-39/command_dist.o -fopenmp 2025-09-24T04:43:08,560 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-24T04:43:08,561 command_dist.c:677:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-24T04:43:08,561 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-24T04:43:08,561 | ~~^ 2025-09-24T04:43:08,562 | | 2025-09-24T04:43:08,562 | long unsigned int 2025-09-24T04:43:08,562 | %u 2025-09-24T04:43:08,562 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-24T04:43:08,562 | ~~~~~~~ 2025-09-24T04:43:08,563 | | 2025-09-24T04:43:08,563 | size_t {aka unsigned int} 2025-09-24T04:43:08,563 command_dist.c:677:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-24T04:43:08,563 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-24T04:43:08,563 | ~~^ 2025-09-24T04:43:08,563 | | 2025-09-24T04:43:08,564 | long unsigned int 2025-09-24T04:43:08,564 | %u 2025-09-24T04:43:08,564 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-24T04:43:08,564 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-24T04:43:08,565 | ~~~~~~~~~ 2025-09-24T04:43:08,565 | | 2025-09-24T04:43:08,565 | size_t {aka unsigned int} 2025-09-24T04:43:08,565 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-24T04:43:08,566 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-24T04:43:08,566 | ~~^ 2025-09-24T04:43:08,566 | | 2025-09-24T04:43:08,566 | long unsigned int 2025-09-24T04:43:08,566 | %u 2025-09-24T04:43:08,567 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-24T04:43:08,567 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-24T04:43:08,567 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,567 | | 2025-09-24T04:43:08,567 | unsigned int 2025-09-24T04:43:08,568 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-24T04:43:08,568 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-09-24T04:43:08,568 | ^ 2025-09-24T04:43:08,572 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-24T04:43:08,574 command_dist.c:863:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-24T04:43:08,574 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-24T04:43:08,574 | ~~^ ~~~~~~~ 2025-09-24T04:43:08,574 | | | 2025-09-24T04:43:08,574 | long unsigned int size_t {aka unsigned int} 2025-09-24T04:43:08,574 | %u 2025-09-24T04:43:08,575 command_dist.c:863:93: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-24T04:43:08,575 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-24T04:43:08,575 | ~~^ 2025-09-24T04:43:08,576 | | 2025-09-24T04:43:08,576 | long unsigned int 2025-09-24T04:43:08,576 | %u 2025-09-24T04:43:08,576 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-24T04:43:08,576 | ~~~~~~~~~ 2025-09-24T04:43:08,576 | | 2025-09-24T04:43:08,577 | size_t {aka unsigned int} 2025-09-24T04:43:08,577 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-24T04:43:08,577 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-09-24T04:43:08,577 | ~~^ 2025-09-24T04:43:08,578 | | 2025-09-24T04:43:08,578 | long unsigned int 2025-09-24T04:43:08,578 | %u 2025-09-24T04:43:08,578 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-09-24T04:43:08,578 865 | (size_t) b * unitsz_distf_mapped); 2025-09-24T04:43:08,578 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,579 | | 2025-09-24T04:43:08,579 | unsigned int 2025-09-24T04:43:08,579 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-09-24T04:43:08,579 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-09-24T04:43:08,579 | ^~~~~~~ 2025-09-24T04:43:08,579 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-09-24T04:43:08,580 809 | struct stat cbd_fcode_stat; 2025-09-24T04:43:08,580 | ^~~~~~~~~~~~~~ 2025-09-24T04:43:08,580 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-09-24T04:43:08,580 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-24T04:43:08,580 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,581 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-09-24T04:43:08,581 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-09-24T04:43:08,581 | ^~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,586 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-24T04:43:08,587 command_dist.c:1018:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-24T04:43:08,588 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-24T04:43:08,588 | ~~^ 2025-09-24T04:43:08,588 | | 2025-09-24T04:43:08,588 | long unsigned int 2025-09-24T04:43:08,588 | %u 2025-09-24T04:43:08,589 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-24T04:43:08,589 | ~~~~~~~ 2025-09-24T04:43:08,589 | | 2025-09-24T04:43:08,589 | size_t {aka unsigned int} 2025-09-24T04:43:08,589 command_dist.c:1018:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-09-24T04:43:08,589 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-24T04:43:08,590 | ~~^ 2025-09-24T04:43:08,590 | | 2025-09-24T04:43:08,590 | long unsigned int 2025-09-24T04:43:08,590 | %u 2025-09-24T04:43:08,590 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-24T04:43:08,590 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-24T04:43:08,591 | ~~~~~~~~~ 2025-09-24T04:43:08,591 | | 2025-09-24T04:43:08,591 | size_t {aka unsigned int} 2025-09-24T04:43:08,591 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-09-24T04:43:08,591 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-09-24T04:43:08,592 | ~~^ 2025-09-24T04:43:08,592 | | 2025-09-24T04:43:08,592 | long unsigned int 2025-09-24T04:43:08,592 | %u 2025-09-24T04:43:08,592 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-09-24T04:43:08,592 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-09-24T04:43:08,593 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,593 | | 2025-09-24T04:43:08,593 | unsigned int 2025-09-24T04:43:08,593 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,593 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2025-09-24T04:43:08,594 | ^ 2025-09-24T04:43:08,596 command_dist.c: In function ‘mco_co_dist_core’: 2025-09-24T04:43:08,597 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-24T04:43:08,597 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-09-24T04:43:08,597 | ^ 2025-09-24T04:43:08,602 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-09-24T04:43:08,603 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,603 1239 | for (int rid = 0; rid < ref_num; rid++) 2025-09-24T04:43:08,603 | ^ 2025-09-24T04:43:08,605 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,605 1245 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-24T04:43:08,605 | ^ 2025-09-24T04:43:08,610 command_dist.c: In function ‘dist_print_nobin’: 2025-09-24T04:43:08,611 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,611 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-09-24T04:43:08,611 | ^ 2025-09-24T04:43:08,613 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,613 1356 | for (int rid = 0; rid < ref_num; rid++) { 2025-09-24T04:43:08,613 | ^ 2025-09-24T04:43:08,614 command_dist.c:1380:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,615 1380 | for (int rid = 0; rid < ref_num; rid++) 2025-09-24T04:43:08,615 | ^ 2025-09-24T04:43:08,615 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:08,616 1382 | for (int rid = 0; rid < ref_num; rid++) 2025-09-24T04:43:08,616 | ^ 2025-09-24T04:43:08,867 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-09-24T04:43:08,867 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2025-09-24T04:43:08,867 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-09-24T04:43:08,867 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:08,868 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2025-09-24T04:43:08,868 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-09-24T04:43:08,868 | ^~~~~~~~~~~~ 2025-09-24T04:43:09,596 command_dist.c: In function ‘get_dim_shuffle’: 2025-09-24T04:43:09,596 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-09-24T04:43:09,596 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-24T04:43:09,596 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:09,597 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-09-24T04:43:09,597 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-09-24T04:43:09,597 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,379 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-09-24T04:43:10,379 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:10,379 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-24T04:43:10,379 | ^~ ~~~~~~~~~ 2025-09-24T04:43:10,380 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-24T04:43:10,380 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-24T04:43:10,380 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,380 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,380 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-24T04:43:10,381 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:10,381 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-24T04:43:10,381 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-24T04:43:10,381 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,382 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,382 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-24T04:43:10,382 | ^~~~~~~~~~~ 2025-09-24T04:43:10,383 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-24T04:43:10,383 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-24T04:43:10,383 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,383 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,383 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-24T04:43:10,383 | ^~~~~ 2025-09-24T04:43:10,384 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-24T04:43:10,384 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-24T04:43:10,384 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,591 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-09-24T04:43:10,592 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:10,592 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-24T04:43:10,592 | ^~ ~~~~~~~~~ 2025-09-24T04:43:10,592 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-24T04:43:10,593 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-24T04:43:10,593 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,593 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,593 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-24T04:43:10,593 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:10,594 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-24T04:43:10,594 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-24T04:43:10,594 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,594 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,595 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-24T04:43:10,595 | ^~~~~~~~~~~~~ 2025-09-24T04:43:10,595 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-24T04:43:10,595 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-24T04:43:10,595 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,596 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:10,596 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-24T04:43:10,596 | ^ 2025-09-24T04:43:10,597 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2025-09-24T04:43:10,597 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-24T04:43:10,597 | ^~~~~~~~~~ 2025-09-24T04:43:10,597 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-24T04:43:10,597 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-09-24T04:43:10,598 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,598 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:10,598 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-24T04:43:10,598 | ^ 2025-09-24T04:43:10,598 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2025-09-24T04:43:10,599 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-24T04:43:10,599 | ^~~~~~~~~~ 2025-09-24T04:43:10,599 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-09-24T04:43:10,599 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-09-24T04:43:10,599 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,840 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-09-24T04:43:10,841 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:10,841 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-24T04:43:10,841 | ^~ ~~~~~~~~~ 2025-09-24T04:43:10,841 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-09-24T04:43:10,842 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-09-24T04:43:10,842 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,842 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,843 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-24T04:43:10,843 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:10,843 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-09-24T04:43:10,843 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-09-24T04:43:10,843 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,844 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,844 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-24T04:43:10,844 | ^~~~~~~~~~~~~ 2025-09-24T04:43:10,845 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-24T04:43:10,845 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-09-24T04:43:10,845 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,846 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,846 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-24T04:43:10,846 | ^~~~~~~~~~~ 2025-09-24T04:43:10,847 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-09-24T04:43:10,847 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-09-24T04:43:10,847 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:10,847 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-09-24T04:43:10,848 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-24T04:43:10,848 | ^~~~~ 2025-09-24T04:43:10,848 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-24T04:43:10,848 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-09-24T04:43:10,849 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:11,095 command_dist.c: In function ‘combine_queries’: 2025-09-24T04:43:11,095 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:11,096 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-24T04:43:11,096 | ^ 2025-09-24T04:43:11,096 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:11,097 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-09-24T04:43:11,097 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:11,098 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:11,098 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-24T04:43:11,098 | ^ 2025-09-24T04:43:11,099 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:11,099 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-09-24T04:43:11,099 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:11,101 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:11,101 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-24T04:43:11,101 | ^~ ~~~~~~~~ 2025-09-24T04:43:11,102 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-09-24T04:43:11,102 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-09-24T04:43:11,102 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:11,577 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-39/command_dist_wrapper.o -fopenmp 2025-09-24T04:43:11,748 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_set.c -o build/temp.linux-armv7l-cpython-39/command_set.o -fopenmp 2025-09-24T04:43:11,898 command_set.c: In function ‘sketch_operate’: 2025-09-24T04:43:11,899 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-09-24T04:43:11,899 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-09-24T04:43:11,899 | ^ 2025-09-24T04:43:11,909 command_set.c: In function ‘combin_subset_pans’: 2025-09-24T04:43:11,910 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-24T04:43:11,910 457 | free(co_dstat_fpath); 2025-09-24T04:43:11,910 | ^~~~~~~~~~~~~~ 2025-09-24T04:43:11,911 In file included from kssdheaders/global_basic.h:159, 2025-09-24T04:43:11,911 from command_set.c:15: 2025-09-24T04:43:11,912 /usr/include/stdlib.h:565:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-24T04:43:11,912 565 | extern void free (void *__ptr) __THROW; 2025-09-24T04:43:11,912 | ~~~~~~^~~~~ 2025-09-24T04:43:11,917 command_set.c: In function ‘grouping_genomes’: 2025-09-24T04:43:11,917 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-09-24T04:43:11,918 562 | free(co_dstat_fpath); 2025-09-24T04:43:11,918 | ^~~~~~~~~~~~~~ 2025-09-24T04:43:11,918 In file included from kssdheaders/global_basic.h:159, 2025-09-24T04:43:11,918 from command_set.c:15: 2025-09-24T04:43:11,918 /usr/include/stdlib.h:565:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-09-24T04:43:11,919 565 | extern void free (void *__ptr) __THROW; 2025-09-24T04:43:11,919 | ~~~~~~^~~~~ 2025-09-24T04:43:12,035 command_set.c: In function ‘sketch_union’: 2025-09-24T04:43:12,035 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:12,036 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,036 | ^ 2025-09-24T04:43:12,036 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:12,036 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,036 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,037 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,037 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-24T04:43:12,037 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,038 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,038 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-24T04:43:12,038 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,039 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,039 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-24T04:43:12,039 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,040 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-24T04:43:12,040 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-09-24T04:43:12,040 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,152 command_set.c: In function ‘sketch_operate’: 2025-09-24T04:43:12,153 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,153 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-24T04:43:12,153 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,154 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-09-24T04:43:12,154 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-09-24T04:43:12,154 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,155 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,155 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-24T04:43:12,155 | ^~ ~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,155 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-24T04:43:12,155 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-09-24T04:43:12,156 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,156 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,157 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-24T04:43:12,157 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,157 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-24T04:43:12,157 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-24T04:43:12,158 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,158 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,158 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-24T04:43:12,158 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,159 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,159 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-09-24T04:43:12,159 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,160 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,160 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-24T04:43:12,160 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,160 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,161 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-09-24T04:43:12,161 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,162 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,162 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-24T04:43:12,162 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,163 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-24T04:43:12,163 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-09-24T04:43:12,163 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,164 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:12,164 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,164 | ^ 2025-09-24T04:43:12,164 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:12,165 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,165 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,315 command_set.c: In function ‘uniq_sketch_union’: 2025-09-24T04:43:12,315 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:12,316 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,316 | ^ 2025-09-24T04:43:12,316 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:12,316 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,317 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,317 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,318 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-24T04:43:12,318 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,318 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,318 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-09-24T04:43:12,319 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,319 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,320 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-24T04:43:12,320 | ^~ ~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,320 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-09-24T04:43:12,321 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-09-24T04:43:12,321 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,446 command_set.c: In function ‘combin_pans’: 2025-09-24T04:43:12,447 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,447 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,447 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,447 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2025-09-24T04:43:12,448 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,448 | ^~~~~~~~~~ 2025-09-24T04:43:12,448 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-09-24T04:43:12,448 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,449 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,449 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,449 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,450 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,450 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2025-09-24T04:43:12,450 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,450 | ^~~~~~~~~~ 2025-09-24T04:43:12,451 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-09-24T04:43:12,451 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,451 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,453 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:12,453 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,453 | ^ 2025-09-24T04:43:12,453 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:12,454 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,454 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,637 command_set.c: In function ‘combin_subset_pans’: 2025-09-24T04:43:12,637 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,637 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-24T04:43:12,637 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,638 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,638 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-24T04:43:12,638 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,638 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,638 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-24T04:43:12,639 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,639 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-24T04:43:12,639 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-24T04:43:12,639 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,639 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,640 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,640 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,640 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,640 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,640 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,641 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,641 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,641 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,641 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-24T04:43:12,641 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,642 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,642 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:12,642 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,642 | ^ 2025-09-24T04:43:12,642 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:12,643 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,643 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,843 command_set.c: In function ‘grouping_genomes’: 2025-09-24T04:43:12,844 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,844 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-24T04:43:12,844 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,844 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,844 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-09-24T04:43:12,845 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,845 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,845 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-24T04:43:12,845 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,845 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-24T04:43:12,846 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-09-24T04:43:12,846 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,847 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,847 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,847 | ^~ ~~~~~~~~~~~ 2025-09-24T04:43:12,848 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-09-24T04:43:12,848 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-09-24T04:43:12,848 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,848 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-09-24T04:43:12,849 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,849 | ^~ ~~~~~~~~~~ 2025-09-24T04:43:12,849 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-09-24T04:43:12,849 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-09-24T04:43:12,849 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:12,850 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-09-24T04:43:12,850 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,850 | ^ 2025-09-24T04:43:12,850 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-09-24T04:43:12,850 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-09-24T04:43:12,851 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:13,123 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-39/command_shuffle.o -fopenmp 2025-09-24T04:43:13,405 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c global_basic.c -o build/temp.linux-armv7l-cpython-39/global_basic.o -fopenmp 2025-09-24T04:43:13,554 global_basic.c: In function ‘organize_infile_list’: 2025-09-24T04:43:13,555 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-09-24T04:43:13,555 195 | while (isspace(*buf)) buf++; 2025-09-24T04:43:13,555 | ^~~~~~~ 2025-09-24T04:43:13,556 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=] 2025-09-24T04:43:13,556 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-24T04:43:13,556 | ~~^ 2025-09-24T04:43:13,556 | | 2025-09-24T04:43:13,557 | long unsigned int 2025-09-24T04:43:13,557 | %u 2025-09-24T04:43:13,557 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-24T04:43:13,557 | ~~~~~~~~~~~ 2025-09-24T04:43:13,558 | | 2025-09-24T04:43:13,558 | size_t {aka unsigned int} 2025-09-24T04:43:13,558 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=] 2025-09-24T04:43:13,558 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-09-24T04:43:13,558 | ~~^ 2025-09-24T04:43:13,559 | | 2025-09-24T04:43:13,559 | long unsigned int 2025-09-24T04:43:13,559 | %u 2025-09-24T04:43:13,559 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-09-24T04:43:13,560 | ~~~~~~~~~~~ 2025-09-24T04:43:13,560 | | 2025-09-24T04:43:13,560 | size_t {aka unsigned int} 2025-09-24T04:43:14,228 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c iseq2comem.c -o build/temp.linux-armv7l-cpython-39/iseq2comem.o -fopenmp 2025-09-24T04:43:14,383 iseq2comem.c: In function ‘reads2mco’: 2025-09-24T04:43:14,384 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,384 156 | if (base > TL) { 2025-09-24T04:43:14,384 | ^ 2025-09-24T04:43:14,385 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,385 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,385 | ^~ 2025-09-24T04:43:14,386 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,386 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,386 | ^ 2025-09-24T04:43:14,388 iseq2comem.c: In function ‘fasta2co’: 2025-09-24T04:43:14,388 iseq2comem.c:213:69: warning: too many arguments for format [-Wformat-extra-args] 2025-09-24T04:43:14,388 213 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2025-09-24T04:43:14,389 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:14,389 iseq2comem.c:219:69: warning: too many arguments for format [-Wformat-extra-args] 2025-09-24T04:43:14,389 219 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2025-09-24T04:43:14,390 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:14,391 iseq2comem.c:261:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,391 261 | if (base > TL) { 2025-09-24T04:43:14,391 | ^ 2025-09-24T04:43:14,392 iseq2comem.c:265:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,392 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,392 | ^~ 2025-09-24T04:43:14,393 iseq2comem.c:265:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,393 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,393 | ^ 2025-09-24T04:43:14,394 iseq2comem.c: In function ‘fastq2co’: 2025-09-24T04:43:14,395 iseq2comem.c:295:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2025-09-24T04:43:14,395 295 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2025-09-24T04:43:14,395 | ^~ 2025-09-24T04:43:14,396 iseq2comem.c:307:68: warning: too many arguments for format [-Wformat-extra-args] 2025-09-24T04:43:14,397 307 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2025-09-24T04:43:14,397 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:14,397 iseq2comem.c:313:68: warning: too many arguments for format [-Wformat-extra-args] 2025-09-24T04:43:14,398 313 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2025-09-24T04:43:14,398 | ^~~~~~~~~~~~~~~ 2025-09-24T04:43:14,399 iseq2comem.c:352:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,399 352 | if (base > TL) { 2025-09-24T04:43:14,399 | ^ 2025-09-24T04:43:14,400 iseq2comem.c:356:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,400 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,400 | ^~ 2025-09-24T04:43:14,401 iseq2comem.c:356:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,401 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,401 | ^ 2025-09-24T04:43:14,403 iseq2comem.c:375:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,403 375 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2025-09-24T04:43:14,403 | ^ 2025-09-24T04:43:14,404 iseq2comem.c: In function ‘fastq2koc’: 2025-09-24T04:43:14,405 iseq2comem.c:403:68: warning: too many arguments for format [-Wformat-extra-args] 2025-09-24T04:43:14,405 403 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2025-09-24T04:43:14,405 | ^~~~~~~~~~~~~~~~ 2025-09-24T04:43:14,406 iseq2comem.c:409:68: warning: too many arguments for format [-Wformat-extra-args] 2025-09-24T04:43:14,406 409 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2025-09-24T04:43:14,406 | ^~~~~~~~~~~~~~~~ 2025-09-24T04:43:14,407 iseq2comem.c:448:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,408 448 | if (base > TL) { 2025-09-24T04:43:14,408 | ^ 2025-09-24T04:43:14,408 iseq2comem.c:452:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,409 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,409 | ^~ 2025-09-24T04:43:14,409 iseq2comem.c:452:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,410 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,410 | ^ 2025-09-24T04:43:14,416 iseq2comem.c: In function ‘mt_shortreads2koc’: 2025-09-24T04:43:14,416 iseq2comem.c:628:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,417 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,417 | ^~ 2025-09-24T04:43:14,417 iseq2comem.c:628:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:14,418 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-09-24T04:43:14,418 | ^ 2025-09-24T04:43:15,621 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c mman.c -o build/temp.linux-armv7l-cpython-39/mman.o -fopenmp 2025-09-24T04:43:15,684 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c mytime.c -o build/temp.linux-armv7l-cpython-39/mytime.o -fopenmp 2025-09-24T04:43:15,804 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c pykssd.c -o build/temp.linux-armv7l-cpython-39/pykssd.o -fopenmp 2025-09-24T04:43:16,130 pykssd.c: In function ‘py_dist_dispatch’: 2025-09-24T04:43:16,131 pykssd.c:334:13: warning: unused variable ‘state1’ [-Wunused-variable] 2025-09-24T04:43:16,131 334 | int state1 = dist_dispatch(&dist_opt_val1); 2025-09-24T04:43:16,131 | ^~~~~~ 2025-09-24T04:43:16,131 pykssd.c:396:13: warning: unused variable ‘state2’ [-Wunused-variable] 2025-09-24T04:43:16,132 396 | int state2 = dist_dispatch(&dist_opt_val2); 2025-09-24T04:43:16,132 | ^~~~~~ 2025-09-24T04:43:16,133 pykssd.c:530:13: warning: unused variable ‘state4’ [-Wunused-variable] 2025-09-24T04:43:16,133 530 | int state4 = dist_dispatch(&dist_opt_val4); 2025-09-24T04:43:16,134 | ^~~~~~ 2025-09-24T04:43:16,277 pykssd.c: In function ‘rename_file’: 2025-09-24T04:43:16,278 pykssd.c:44:15: warning: ‘strncpy’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2025-09-24T04:43:16,278 44 | newfile = strncpy(newfile, p1, len - suffix_len); 2025-09-24T04:43:16,278 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-09-24T04:43:16,278 pykssd.c:41:15: note: length computed here 2025-09-24T04:43:16,278 41 | int len = strlen(p1); 2025-09-24T04:43:16,279 | ^~~~~~~~~~ 2025-09-24T04:43:16,714 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/co2mco.o build/temp.linux-armv7l-cpython-39/command_composite.o build/temp.linux-armv7l-cpython-39/command_dist.o build/temp.linux-armv7l-cpython-39/command_dist_wrapper.o build/temp.linux-armv7l-cpython-39/command_set.o build/temp.linux-armv7l-cpython-39/command_shuffle.o build/temp.linux-armv7l-cpython-39/global_basic.o build/temp.linux-armv7l-cpython-39/iseq2comem.o build/temp.linux-armv7l-cpython-39/mman.o build/temp.linux-armv7l-cpython-39/mytime.o build/temp.linux-armv7l-cpython-39/pykssd.o -L/usr/lib -lz -o build/lib.linux-armv7l-cpython-39/kssd.cpython-39-arm-linux-gnueabihf.so -fopenmp 2025-09-24T04:43:16,917 building 'nj' extension 2025-09-24T04:43:16,919 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c align.c -o build/temp.linux-armv7l-cpython-39/align.o 2025-09-24T04:43:17,326 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c buildtree.c -o build/temp.linux-armv7l-cpython-39/buildtree.o 2025-09-24T04:43:17,455 buildtree.c: In function ‘UPGMA_buildtree’: 2025-09-24T04:43:17,455 buildtree.c:716:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:17,455 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2025-09-24T04:43:17,455 | ^~ 2025-09-24T04:43:17,456 buildtree.c:716:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:17,456 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2025-09-24T04:43:17,457 | ^~ 2025-09-24T04:43:18,020 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c cluster.c -o build/temp.linux-armv7l-cpython-39/cluster.o 2025-09-24T04:43:18,344 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c distancemat.c -o build/temp.linux-armv7l-cpython-39/distancemat.o 2025-09-24T04:43:18,465 distancemat.c: In function ‘clone_DistanceMatrix’: 2025-09-24T04:43:18,466 distancemat.c:226:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:18,466 226 | for( i=0; i < dest->size; i++) { 2025-09-24T04:43:18,466 | ^ 2025-09-24T04:43:18,467 distancemat.c: In function ‘empty_DistanceMatrix’: 2025-09-24T04:43:18,467 distancemat.c:260:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:18,467 260 | for( i=0; i < mat->size; i++) { 2025-09-24T04:43:18,468 | ^ 2025-09-24T04:43:18,469 distancemat.c: In function ‘print_DistanceMatrix’: 2025-09-24T04:43:18,469 distancemat.c:349:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:18,469 349 | for(row=0; row < mat->size; row++) { 2025-09-24T04:43:18,469 | ^ 2025-09-24T04:43:18,471 distancemat.c: In function ‘read_phylip_DistanceMatrix’: 2025-09-24T04:43:18,471 distancemat.c:410:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 2025-09-24T04:43:18,471 410 | while(c = fgetc(handle)) { 2025-09-24T04:43:18,471 | ^ 2025-09-24T04:43:18,839 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c pynj.c -o build/temp.linux-armv7l-cpython-39/pynj.o 2025-09-24T04:43:19,217 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c sequence.c -o build/temp.linux-armv7l-cpython-39/sequence.o 2025-09-24T04:43:19,414 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c tree.c -o build/temp.linux-armv7l-cpython-39/tree.o 2025-09-24T04:43:20,135 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c util.c -o build/temp.linux-armv7l-cpython-39/util.o 2025-09-24T04:43:20,310 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/align.o build/temp.linux-armv7l-cpython-39/buildtree.o build/temp.linux-armv7l-cpython-39/cluster.o build/temp.linux-armv7l-cpython-39/distancemat.o build/temp.linux-armv7l-cpython-39/pynj.o build/temp.linux-armv7l-cpython-39/sequence.o build/temp.linux-armv7l-cpython-39/tree.o build/temp.linux-armv7l-cpython-39/util.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/nj.cpython-39-arm-linux-gnueabihf.so 2025-09-24T04:43:20,425 building 'dnj' extension 2025-09-24T04:43:20,428 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c bytescale.c -o build/temp.linux-armv7l-cpython-39/bytescale.o -fopenmp 2025-09-24T04:43:20,494 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c dnj.c -o build/temp.linux-armv7l-cpython-39/dnj.o -fopenmp 2025-09-24T04:43:20,617 dnj.c: In function ‘minQpair’: 2025-09-24T04:43:20,618 dnj.c:70:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,618 70 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,618 | ^~~ 2025-09-24T04:43:20,619 dnj.c:126:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,619 126 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,619 | ^~~ 2025-09-24T04:43:20,620 dnj.c: In function ‘maxQpair’: 2025-09-24T04:43:20,620 dnj.c:157:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,620 157 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,620 | ^~~ 2025-09-24T04:43:20,620 dnj.c:213:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,621 213 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,621 | ^~~ 2025-09-24T04:43:20,621 dnj.c: In function ‘UPGMApair’: 2025-09-24T04:43:20,621 dnj.c:237:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,622 237 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,622 | ^~~ 2025-09-24T04:43:20,622 dnj.c:284:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,622 284 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,622 | ^~~ 2025-09-24T04:43:20,623 dnj.c:291:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,623 291 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,623 | ^~~ 2025-09-24T04:43:20,623 dnj.c: In function ‘minQrow’: 2025-09-24T04:43:20,623 dnj.c:374:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,624 374 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,624 | ^~~ 2025-09-24T04:43:20,624 dnj.c: In function ‘maxQrow’: 2025-09-24T04:43:20,625 dnj.c:435:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,625 435 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,625 | ^~~ 2025-09-24T04:43:20,626 dnj.c: In function ‘UPGMArow’: 2025-09-24T04:43:20,626 dnj.c:488:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,626 488 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,626 | ^~~ 2025-09-24T04:43:20,627 dnj.c:494:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,627 494 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,627 | ^~~ 2025-09-24T04:43:20,627 dnj.c: In function ‘minQ_thread’: 2025-09-24T04:43:20,628 dnj.c:553:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:20,628 553 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:20,628 | ^~~ 2025-09-24T04:43:21,788 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c filebuff.c -o build/temp.linux-armv7l-cpython-39/filebuff.o -fopenmp 2025-09-24T04:43:21,897 filebuff.c: In function ‘BuffgzFileBuff’: 2025-09-24T04:43:21,897 filebuff.c:99:47: warning: comparison of integer expressions of different signedness: ‘uInt’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:21,897 99 | if(status == Z_STREAM_END && strm->avail_out == dest->buffSize) { 2025-09-24T04:43:21,898 | ^~ 2025-09-24T04:43:22,180 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c hclust.c -o build/temp.linux-armv7l-cpython-39/hclust.o -fopenmp 2025-09-24T04:43:22,301 hclust.c: In function ‘minQ’: 2025-09-24T04:43:22,301 hclust.c:364:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:22,301 364 | while(++i < Q->n) { 2025-09-24T04:43:22,302 | ^ 2025-09-24T04:43:22,302 hclust.c:377:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:22,302 377 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:22,302 | ^~~ 2025-09-24T04:43:22,302 hclust.c: In function ‘maxQ’: 2025-09-24T04:43:22,303 hclust.c:394:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-09-24T04:43:22,303 394 | while(++i < Q->n) { 2025-09-24T04:43:22,303 | ^ 2025-09-24T04:43:22,303 hclust.c:407:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:22,303 407 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:22,304 | ^~~ 2025-09-24T04:43:24,367 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c matrix.c -o build/temp.linux-armv7l-cpython-39/matrix.o -fopenmp 2025-09-24T04:43:24,487 matrix.c: In function ‘ltdMatrix_popArrange’: 2025-09-24T04:43:24,487 matrix.c:538:9: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-09-24T04:43:24,487 538 | if(pos != n) { 2025-09-24T04:43:24,487 | ^~ 2025-09-24T04:43:25,233 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c mman.c -o build/temp.linux-armv7l-cpython-39/mman.o -fopenmp 2025-09-24T04:43:25,298 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c nj.c -o build/temp.linux-armv7l-cpython-39/nj.o -fopenmp 2025-09-24T04:43:25,416 nj.c: In function ‘initQ’: 2025-09-24T04:43:25,417 nj.c:243:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:25,417 243 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:25,417 | ^~~ 2025-09-24T04:43:25,418 nj.c: In function ‘initQ_MN’: 2025-09-24T04:43:25,419 nj.c:358:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:25,419 358 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:25,419 | ^~~ 2025-09-24T04:43:25,422 nj.c: In function ‘minD’: 2025-09-24T04:43:25,422 nj.c:559:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:25,422 559 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:25,422 | ^~~ 2025-09-24T04:43:25,423 nj.c: In function ‘maxD’: 2025-09-24T04:43:25,424 nj.c:642:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:25,424 642 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:25,424 | ^~~ 2025-09-24T04:43:25,427 nj.c: In function ‘minPair’: 2025-09-24T04:43:25,427 nj.c:826:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-09-24T04:43:25,428 826 | pos <<= sizeof(unsigned) * 8; 2025-09-24T04:43:25,428 | ^~~ 2025-09-24T04:43:27,447 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c nwck.c -o build/temp.linux-armv7l-cpython-39/nwck.o -fopenmp 2025-09-24T04:43:27,920 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c pherror.c -o build/temp.linux-armv7l-cpython-39/pherror.o -fopenmp 2025-09-24T04:43:28,226 pherror.c: In function ‘cfread’: 2025-09-24T04:43:28,227 pherror.c:58:35: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2025-09-24T04:43:28,227 58 | } else if(nmemb == 0 || (nmemb == -1 && (errno & EAGAIN))) { 2025-09-24T04:43:28,228 | ^~ 2025-09-24T04:43:28,319 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c phy.c -o build/temp.linux-armv7l-cpython-39/phy.o -fopenmp 2025-09-24T04:43:29,244 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c pydnj.c -o build/temp.linux-armv7l-cpython-39/pydnj.o -fopenmp 2025-09-24T04:43:29,549 In file included from pydnj.c:11: 2025-09-24T04:43:29,549 dnjheaders/pherror.h:20: warning: "_XOPEN_SOURCE" redefined 2025-09-24T04:43:29,549 20 | #define _XOPEN_SOURCE 600 2025-09-24T04:43:29,550 | 2025-09-24T04:43:29,550 In file included from /usr/include/arm-linux-gnueabihf/bits/libc-header-start.h:33, 2025-09-24T04:43:29,550 from /usr/include/limits.h:26, 2025-09-24T04:43:29,550 from /usr/lib/gcc/arm-linux-gnueabihf/10/include/limits.h:195, 2025-09-24T04:43:29,551 from /usr/lib/gcc/arm-linux-gnueabihf/10/include/syslimits.h:7, 2025-09-24T04:43:29,551 from /usr/lib/gcc/arm-linux-gnueabihf/10/include/limits.h:34, 2025-09-24T04:43:29,551 from /usr/include/python3.9/Python.h:11, 2025-09-24T04:43:29,551 from pydnj.c:1: 2025-09-24T04:43:29,551 /usr/include/features.h:207: note: this is the location of the previous definition 2025-09-24T04:43:29,552 207 | # define _XOPEN_SOURCE 700 2025-09-24T04:43:29,552 | 2025-09-24T04:43:29,564 pydnj.c: In function ‘py_build’: 2025-09-24T04:43:29,564 pydnj.c:165:9: warning: implicit declaration of function ‘omp_get_num_procs’ [-Wimplicit-function-declaration] 2025-09-24T04:43:29,565 165 | p = omp_get_num_procs(); 2025-09-24T04:43:29,566 | ^~~~~~~~~~~~~~~~~ 2025-09-24T04:43:29,780 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c qseqs.c -o build/temp.linux-armv7l-cpython-39/qseqs.o -fopenmp 2025-09-24T04:43:29,978 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c str.c -o build/temp.linux-armv7l-cpython-39/str.o -fopenmp 2025-09-24T04:43:30,084 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c tmp.c -o build/temp.linux-armv7l-cpython-39/tmp.o -fopenmp 2025-09-24T04:43:30,274 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c vector.c -o build/temp.linux-armv7l-cpython-39/vector.o -fopenmp 2025-09-24T04:43:30,436 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/bytescale.o build/temp.linux-armv7l-cpython-39/dnj.o build/temp.linux-armv7l-cpython-39/filebuff.o build/temp.linux-armv7l-cpython-39/hclust.o build/temp.linux-armv7l-cpython-39/matrix.o build/temp.linux-armv7l-cpython-39/mman.o build/temp.linux-armv7l-cpython-39/nj.o build/temp.linux-armv7l-cpython-39/nwck.o build/temp.linux-armv7l-cpython-39/pherror.o build/temp.linux-armv7l-cpython-39/phy.o build/temp.linux-armv7l-cpython-39/pydnj.o build/temp.linux-armv7l-cpython-39/qseqs.o build/temp.linux-armv7l-cpython-39/str.o build/temp.linux-armv7l-cpython-39/tmp.o build/temp.linux-armv7l-cpython-39/vector.o -L/usr/lib -lz -o build/lib.linux-armv7l-cpython-39/dnj.cpython-39-arm-linux-gnueabihf.so -fopenmp 2025-09-24T04:43:30,671 /usr/local/lib/python3.9/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-09-24T04:43:30,671 !! 2025-09-24T04:43:30,671 ******************************************************************************** 2025-09-24T04:43:30,672 Please avoid running ``setup.py`` directly. 2025-09-24T04:43:30,672 Instead, use pypa/build, pypa/installer or other 2025-09-24T04:43:30,672 standards-based tools. 2025-09-24T04:43:30,673 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-09-24T04:43:30,673 or your builds will no longer be supported. 2025-09-24T04:43:30,673 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-09-24T04:43:30,674 ******************************************************************************** 2025-09-24T04:43:30,674 !! 2025-09-24T04:43:30,674 self.initialize_options() 2025-09-24T04:43:30,706 installing to build/bdist.linux-armv7l/wheel 2025-09-24T04:43:30,706 running install 2025-09-24T04:43:30,727 running install_lib 2025-09-24T04:43:30,762 creating build/bdist.linux-armv7l/wheel 2025-09-24T04:43:30,764 copying build/lib.linux-armv7l-cpython-39/dnj.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-09-24T04:43:30,774 copying build/lib.linux-armv7l-cpython-39/toolutils.py -> build/bdist.linux-armv7l/wheel/. 2025-09-24T04:43:30,776 copying build/lib.linux-armv7l-cpython-39/nj.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-09-24T04:43:30,781 copying build/lib.linux-armv7l-cpython-39/kssdtree.py -> build/bdist.linux-armv7l/wheel/. 2025-09-24T04:43:30,783 copying build/lib.linux-armv7l-cpython-39/kssd.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-09-24T04:43:30,794 running install_egg_info 2025-09-24T04:43:30,837 Copying kssdtree.egg-info to build/bdist.linux-armv7l/wheel/./kssdtree-2.0.8-py3.9.egg-info 2025-09-24T04:43:30,849 running install_scripts 2025-09-24T04:43:30,899 creating build/bdist.linux-armv7l/wheel/kssdtree-2.0.8.dist-info/WHEEL 2025-09-24T04:43:30,902 creating '/tmp/pip-wheel-9mz118tl/kssdtree-2.0.8-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-09-24T04:43:30,980 adding 'dnj.cpython-39-arm-linux-gnueabihf.so' 2025-09-24T04:43:31,075 adding 'kssd.cpython-39-arm-linux-gnueabihf.so' 2025-09-24T04:43:31,080 adding 'kssdtree.py' 2025-09-24T04:43:31,102 adding 'nj.cpython-39-arm-linux-gnueabihf.so' 2025-09-24T04:43:31,105 adding 'toolutils.py' 2025-09-24T04:43:31,107 adding 'kssdtree-2.0.8.dist-info/METADATA' 2025-09-24T04:43:31,108 adding 'kssdtree-2.0.8.dist-info/WHEEL' 2025-09-24T04:43:31,109 adding 'kssdtree-2.0.8.dist-info/dependency_links.txt' 2025-09-24T04:43:31,110 adding 'kssdtree-2.0.8.dist-info/top_level.txt' 2025-09-24T04:43:31,111 adding 'kssdtree-2.0.8.dist-info/RECORD' 2025-09-24T04:43:31,119 removing build/bdist.linux-armv7l/wheel 2025-09-24T04:43:31,258 Building wheel for kssdtree (setup.py): finished with status 'done' 2025-09-24T04:43:31,263 Created wheel for kssdtree: filename=kssdtree-2.0.8-cp39-cp39-linux_armv7l.whl size=378491 sha256=fb6f717dcadeee1974e114645ccfca55bc46eb4f46872cea71acc544102be042 2025-09-24T04:43:31,264 Stored in directory: /tmp/pip-ephem-wheel-cache-0_rhyk07/wheels/fa/ae/03/78328c02067bc83c78f04be69c10a2ba7ab0964bbab09c003e 2025-09-24T04:43:31,270 Successfully built kssdtree 2025-09-24T04:43:31,284 Removed build tracker: '/tmp/pip-req-tracker-4dedam0e'