2025-03-28T12:07:15,247 Created temporary directory: /tmp/pip-build-tracker-t87b3xi7 2025-03-28T12:07:15,248 Initialized build tracking at /tmp/pip-build-tracker-t87b3xi7 2025-03-28T12:07:15,248 Created build tracker: /tmp/pip-build-tracker-t87b3xi7 2025-03-28T12:07:15,249 Entered build tracker: /tmp/pip-build-tracker-t87b3xi7 2025-03-28T12:07:15,250 Created temporary directory: /tmp/pip-wheel-qopqx74q 2025-03-28T12:07:15,254 Created temporary directory: /tmp/pip-ephem-wheel-cache-77lkyyr0 2025-03-28T12:07:15,302 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-03-28T12:07:15,305 2 location(s) to search for versions of kssdtree: 2025-03-28T12:07:15,305 * https://pypi.org/simple/kssdtree/ 2025-03-28T12:07:15,305 * https://www.piwheels.org/simple/kssdtree/ 2025-03-28T12:07:15,305 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2025-03-28T12:07:15,306 Getting page https://pypi.org/simple/kssdtree/ 2025-03-28T12:07:15,308 Found index url https://pypi.org/simple/ 2025-03-28T12:07:15,526 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2025-03-28T12:07:15,530 Found link https://files.pythonhosted.org/packages/d5/1e/9e5c5945a44bb40002d1c259f734a531999fa6e87db89fe7c7ddcfc583cc/kssdtree-1.1.1.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.1 2025-03-28T12:07:15,531 Found link https://files.pythonhosted.org/packages/9a/4c/6516f734f5860e4b30f9091aaac5811663bfae72c4de4ae6566c89192767/kssdtree-1.1.2.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.2 2025-03-28T12:07:15,531 Found link https://files.pythonhosted.org/packages/a4/cd/f2954686c636e853cc3fda197c459195377b78288874cf7d68218a8bdbf4/kssdtree-1.1.3.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.3 2025-03-28T12:07:15,532 Found link https://files.pythonhosted.org/packages/20/ea/b0301924e3f7d367cbb7b8da66837dba9af2a332bf56ed35e03a33faee76/kssdtree-1.1.4.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.4 2025-03-28T12:07:15,533 Found link https://files.pythonhosted.org/packages/41/65/ed35110b84bc0dd02b9add0104f10160754d2ea0882191767d512146a884/kssdtree-1.1.6.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.6 2025-03-28T12:07:15,533 Found link https://files.pythonhosted.org/packages/cd/4b/d886cbcc573ff0969da7d9c756049925b86141e60ee6708dfbbe0644d008/kssdtree-1.1.7.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.7 2025-03-28T12:07:15,534 Found link https://files.pythonhosted.org/packages/7e/8a/a62c8adc92df69ab8cb242827ee64a3e2b6d5c89b83425785dd00605af17/kssdtree-1.1.8.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.8 2025-03-28T12:07:15,535 Found link https://files.pythonhosted.org/packages/da/db/e458cca6427752c05428d2378ccdee631d32f760174fdaba65f73125e71b/kssdtree-1.1.9.tar.gz (from https://pypi.org/simple/kssdtree/), version: 1.1.9 2025-03-28T12:07:15,535 Found link https://files.pythonhosted.org/packages/9d/47/017180a30e73e421372377cbe6d01c5e51a5108ea2177f20ccd7d283f8d1/kssdtree-2.0.0.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.0 2025-03-28T12:07:15,536 Found link https://files.pythonhosted.org/packages/ba/39/d443cac955912a0371c93b797311cb9ec3a8d6ee0a5d7673376d826aa6b2/kssdtree-2.0.1.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.1 2025-03-28T12:07:15,537 Found link https://files.pythonhosted.org/packages/2e/32/e53c0e3735cbc913b2c96b4e0e1c1005fe816a4d71b38b80cdcfb5c67fa8/kssdtree-2.0.2.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.2 2025-03-28T12:07:15,537 Found link https://files.pythonhosted.org/packages/c0/0f/effc10c8e76dbe3b9a35a4b4d9e65a0a889ee805e10334541c3ca7ae3b94/kssdtree-2.0.3.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.3 2025-03-28T12:07:15,538 Found link https://files.pythonhosted.org/packages/fc/8d/d3790baa2f2f0a01c913005b94a82dc13ef601e7015e662ccff94bb1b458/kssdtree-2.0.4.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.4 2025-03-28T12:07:15,539 Found link https://files.pythonhosted.org/packages/b5/f8/19480a4c57704944f973ebf534f9582054949cca20170a33c6f874974440/kssdtree-2.0.5.tar.gz (from https://pypi.org/simple/kssdtree/), version: 2.0.5 2025-03-28T12:07:15,539 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2025-03-28T12:07:15,540 Getting page https://www.piwheels.org/simple/kssdtree/ 2025-03-28T12:07:15,541 Found index url https://www.piwheels.org/simple/ 2025-03-28T12:07:15,703 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2025-03-28T12:07:15,718 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp311-cp311-linux_armv6l.whl#sha256=97a69f799c2d1b7024a9033b8a1e3fc17af4748a1ed726f52397d884303eb870 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,719 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp311-cp311-linux_armv7l.whl#sha256=97a69f799c2d1b7024a9033b8a1e3fc17af4748a1ed726f52397d884303eb870 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,719 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp39-cp39-linux_armv6l.whl#sha256=00938a03bead64e58bc1928832b7952b04d844e79b41da12160490c7edbb9e9f (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,720 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.4-cp39-cp39-linux_armv7l.whl#sha256=00938a03bead64e58bc1928832b7952b04d844e79b41da12160490c7edbb9e9f (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,720 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp311-cp311-linux_armv6l.whl#sha256=d70b4b00c6bf4ff5b294b9ad2594aa1e32981df4b9869be9d13aafa0ff614bc3 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,721 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp311-cp311-linux_armv7l.whl#sha256=d70b4b00c6bf4ff5b294b9ad2594aa1e32981df4b9869be9d13aafa0ff614bc3 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,721 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp39-cp39-linux_armv6l.whl#sha256=f629766f3426bb8a83c6f4adca8b02b03cb85452c129c9694cef65efd715fabd (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,722 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.3-cp39-cp39-linux_armv7l.whl#sha256=f629766f3426bb8a83c6f4adca8b02b03cb85452c129c9694cef65efd715fabd (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,723 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp311-cp311-linux_armv6l.whl#sha256=ae7417e30efd12d8c6800d4167141c94a93f1ce51afd5ae9196cdfb6057ca7d2 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,723 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp311-cp311-linux_armv7l.whl#sha256=ae7417e30efd12d8c6800d4167141c94a93f1ce51afd5ae9196cdfb6057ca7d2 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,724 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.2-cp39-cp39-linux_armv6l.whl#sha256=599ca3576cae9c0ef5ce475baaee98faa1478f8fd034062ddf88f823c9c91b10 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,725 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,727 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp311-cp311-linux_armv7l.whl#sha256=16a2e46376ed2874435371fd57a97405d4b631b35c014b9e395a4528a1e655b8 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,728 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp39-cp39-linux_armv6l.whl#sha256=131de046d905a575216e4344f66d988df06c39a828f970e791ab2dd8ce7c204c (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,728 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp39-cp39-linux_armv7l.whl#sha256=131de046d905a575216e4344f66d988df06c39a828f970e791ab2dd8ce7c204c (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,729 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp311-cp311-linux_armv6l.whl#sha256=d4c397f5fcb0af48dbb11b9fb7d7b399cc180d65355b794a8fcc7327e9a7dde1 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,729 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp311-cp311-linux_armv7l.whl#sha256=d4c397f5fcb0af48dbb11b9fb7d7b399cc180d65355b794a8fcc7327e9a7dde1 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,730 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp39-cp39-linux_armv6l.whl#sha256=ab11dc15aca2923fe0d60bf11deb134bed4df89280b4ce40ca8e9bf3ca46b168 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,730 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.9-cp39-cp39-linux_armv7l.whl#sha256=ab11dc15aca2923fe0d60bf11deb134bed4df89280b4ce40ca8e9bf3ca46b168 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,731 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp39-cp39-linux_armv6l.whl#sha256=6b3f5b0e827056c7b589f4fb02c353408efa5892ef4df1c8a54b4cb30331754a (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,732 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp39-cp39-linux_armv7l.whl#sha256=6b3f5b0e827056c7b589f4fb02c353408efa5892ef4df1c8a54b4cb30331754a (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,732 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp311-cp311-linux_armv6l.whl#sha256=717afc6606ad3045caac8f3f1cd01a37edd2f01f1cc38bc1bc6c3320882bd392 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,733 Skipping link: No binaries permitted for kssdtree: 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(from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,736 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp39-cp39-linux_armv7l.whl#sha256=e1df896451d30c12e01aceb3eb91f0f7dfe0ee6f16fd66864fdefbc21cc54856 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,736 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv6l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,736 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp311-cp311-linux_armv7l.whl#sha256=0901b6cf3efb240d5d32b1e88a8863f28e2986a2c0749886421c643b98a4aec2 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,737 Skipping link: No binaries permitted for kssdtree: 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https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,739 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp311-cp311-linux_armv6l.whl#sha256=64b685362c3f9027bfeafdffb6a5d58c349a76fd551eeb7b98de146827463e75 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,740 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp311-cp311-linux_armv7l.whl#sha256=64b685362c3f9027bfeafdffb6a5d58c349a76fd551eeb7b98de146827463e75 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,740 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp39-cp39-linux_armv6l.whl#sha256=34527068d84569095aefee41a353c5dfc0dfa55b68097890da9a1eca2ee9b726 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,741 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp39-cp39-linux_armv7l.whl#sha256=34527068d84569095aefee41a353c5dfc0dfa55b68097890da9a1eca2ee9b726 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,742 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp311-cp311-linux_armv6l.whl#sha256=6b76f3b3f532934ad49a829e7bf8176af580f4687f1491c49c3f571bf081f961 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,742 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp311-cp311-linux_armv7l.whl#sha256=6b76f3b3f532934ad49a829e7bf8176af580f4687f1491c49c3f571bf081f961 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,743 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp37-cp37m-linux_armv6l.whl#sha256=d179f6c6c0ad4e0f06950e1609118b065b3476c47446325f6614bdbef5ede0d0 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,744 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp37-cp37m-linux_armv7l.whl#sha256=d179f6c6c0ad4e0f06950e1609118b065b3476c47446325f6614bdbef5ede0d0 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,744 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp39-cp39-linux_armv6l.whl#sha256=6df2298fa80eefa823153fa0b9db67e35da72da7f88c5949f4f637872ff22c3b (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,745 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.3-cp39-cp39-linux_armv7l.whl#sha256=6df2298fa80eefa823153fa0b9db67e35da72da7f88c5949f4f637872ff22c3b (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,745 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp311-cp311-linux_armv6l.whl#sha256=146b572fde14b0d0770e1c1cd90870ad6db4af293ade814fed7a49e3857f1444 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,746 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp311-cp311-linux_armv7l.whl#sha256=146b572fde14b0d0770e1c1cd90870ad6db4af293ade814fed7a49e3857f1444 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,746 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp37-cp37m-linux_armv6l.whl#sha256=8c0cc1974033765d6eeefdb635a506385b5f38e00361bd6de47ff1a83b07e12a (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,747 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp37-cp37m-linux_armv7l.whl#sha256=8c0cc1974033765d6eeefdb635a506385b5f38e00361bd6de47ff1a83b07e12a (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,747 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp39-cp39-linux_armv6l.whl#sha256=9f3fe3d3b4b4bde8b34a8f964ebde72f1efcc7833b9a0b34f6b9c8ff3ed595db (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,748 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.2-cp39-cp39-linux_armv7l.whl#sha256=9f3fe3d3b4b4bde8b34a8f964ebde72f1efcc7833b9a0b34f6b9c8ff3ed595db (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,748 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp311-cp311-linux_armv6l.whl#sha256=29b8e7f4a3e60084db855e6d587231253771ad57184a3265922d659512e136fb (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,749 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp311-cp311-linux_armv7l.whl#sha256=29b8e7f4a3e60084db855e6d587231253771ad57184a3265922d659512e136fb (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,749 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp37-cp37m-linux_armv6l.whl#sha256=34b00b40f17a95b2cc5cbabd880acc2c56996457b0acd265cace6966c10b9575 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,750 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp37-cp37m-linux_armv7l.whl#sha256=34b00b40f17a95b2cc5cbabd880acc2c56996457b0acd265cace6966c10b9575 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,751 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp39-cp39-linux_armv6l.whl#sha256=04471408d60c00f568404b1ab01ca89567b36a1aa50ef6041aceef07ed1e45f4 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,751 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.1-cp39-cp39-linux_armv7l.whl#sha256=04471408d60c00f568404b1ab01ca89567b36a1aa50ef6041aceef07ed1e45f4 (from https://www.piwheels.org/simple/kssdtree/) 2025-03-28T12:07:15,752 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2025-03-28T12:07:15,752 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2025-03-28T12:07:15,773 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2025-03-28T12:07:15,775 Collecting kssdtree==2.0.5 2025-03-28T12:07:15,778 Created temporary directory: /tmp/pip-unpack-z2g9fbnn 2025-03-28T12:07:15,918 Downloading kssdtree-2.0.5.tar.gz (113 kB) 2025-03-28T12:07:16,141 Added kssdtree==2.0.5 from https://files.pythonhosted.org/packages/b5/f8/19480a4c57704944f973ebf534f9582054949cca20170a33c6f874974440/kssdtree-2.0.5.tar.gz to build tracker '/tmp/pip-build-tracker-t87b3xi7' 2025-03-28T12:07:16,143 Running setup.py (path:/tmp/pip-wheel-qopqx74q/kssdtree_af856ee6837849b286a2ae53b570e11a/setup.py) egg_info for package kssdtree 2025-03-28T12:07:16,144 Created temporary directory: /tmp/pip-pip-egg-info-1951uuvt 2025-03-28T12:07:16,144 Preparing metadata (setup.py): started 2025-03-28T12:07:16,146 Running command python setup.py egg_info 2025-03-28T12:07:17,197 running egg_info 2025-03-28T12:07:17,224 creating /tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info 2025-03-28T12:07:17,226 writing /tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/PKG-INFO 2025-03-28T12:07:17,229 writing dependency_links to /tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/dependency_links.txt 2025-03-28T12:07:17,231 writing requirements to /tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/requires.txt 2025-03-28T12:07:17,232 writing top-level names to /tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/top_level.txt 2025-03-28T12:07:17,234 writing manifest file '/tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/SOURCES.txt' 2025-03-28T12:07:17,346 reading manifest file '/tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/SOURCES.txt' 2025-03-28T12:07:17,348 reading manifest template 'MANIFEST.in' 2025-03-28T12:07:17,366 writing manifest file '/tmp/pip-pip-egg-info-1951uuvt/kssdtree.egg-info/SOURCES.txt' 2025-03-28T12:07:17,477 Preparing metadata (setup.py): finished with status 'done' 2025-03-28T12:07:17,481 Source in /tmp/pip-wheel-qopqx74q/kssdtree_af856ee6837849b286a2ae53b570e11a has version 2.0.5, which satisfies requirement kssdtree==2.0.5 from https://files.pythonhosted.org/packages/b5/f8/19480a4c57704944f973ebf534f9582054949cca20170a33c6f874974440/kssdtree-2.0.5.tar.gz 2025-03-28T12:07:17,481 Removed kssdtree==2.0.5 from https://files.pythonhosted.org/packages/b5/f8/19480a4c57704944f973ebf534f9582054949cca20170a33c6f874974440/kssdtree-2.0.5.tar.gz from build tracker '/tmp/pip-build-tracker-t87b3xi7' 2025-03-28T12:07:17,486 Created temporary directory: /tmp/pip-unpack-0wyl08_y 2025-03-28T12:07:17,487 Created temporary directory: /tmp/pip-unpack-byfocchz 2025-03-28T12:07:17,488 Building wheels for collected packages: kssdtree 2025-03-28T12:07:17,491 Created temporary directory: /tmp/pip-wheel-yl82pyf6 2025-03-28T12:07:17,492 Building wheel for kssdtree (setup.py): started 2025-03-28T12:07:17,493 Destination directory: /tmp/pip-wheel-yl82pyf6 2025-03-28T12:07:17,494 Running command python setup.py bdist_wheel 2025-03-28T12:07:18,527 running bdist_wheel 2025-03-28T12:07:18,664 running build 2025-03-28T12:07:18,665 running build_py 2025-03-28T12:07:18,694 creating build/lib.linux-armv7l-cpython-311 2025-03-28T12:07:18,696 copying kssdtree.py -> build/lib.linux-armv7l-cpython-311 2025-03-28T12:07:18,699 copying toolutils.py -> build/lib.linux-armv7l-cpython-311 2025-03-28T12:07:18,701 running egg_info 2025-03-28T12:07:18,729 writing kssdtree.egg-info/PKG-INFO 2025-03-28T12:07:18,731 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2025-03-28T12:07:18,733 writing requirements to kssdtree.egg-info/requires.txt 2025-03-28T12:07:18,734 writing top-level names to kssdtree.egg-info/top_level.txt 2025-03-28T12:07:18,763 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-03-28T12:07:18,769 reading manifest template 'MANIFEST.in' 2025-03-28T12:07:18,786 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2025-03-28T12:07:18,788 running build_ext 2025-03-28T12:07:19,381 building 'kssd' extension 2025-03-28T12:07:19,382 creating build/temp.linux-armv7l-cpython-311 2025-03-28T12:07:19,384 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c co2mco.c -o build/temp.linux-armv7l-cpython-311/co2mco.o -fopenmp 2025-03-28T12:07:19,561 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-03-28T12:07:19,562 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:19,562 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-03-28T12:07:19,563 | ^ 2025-03-28T12:07:19,566 co2mco.c: In function ‘co2unitllmco’: 2025-03-28T12:07:19,566 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:19,567 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-03-28T12:07:19,567 | ^ 2025-03-28T12:07:20,258 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_composite.c -o build/temp.linux-armv7l-cpython-311/command_composite.o -fopenmp 2025-03-28T12:07:20,634 command_composite.c: In function ‘get_species_abundance’: 2025-03-28T12:07:20,635 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-03-28T12:07:20,636 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-03-28T12:07:20,636 | ^~ 2025-03-28T12:07:20,637 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-03-28T12:07:20,638 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-03-28T12:07:20,638 | ^~ 2025-03-28T12:07:20,639 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:20,640 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-03-28T12:07:20,641 | ^ 2025-03-28T12:07:20,641 command_composite.c:64:31: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:20,642 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-03-28T12:07:20,643 | ^~~~~~~~~~ 2025-03-28T12:07:20,643 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-03-28T12:07:20,644 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-03-28T12:07:20,645 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:20,645 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:20,646 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-03-28T12:07:20,647 | ^ 2025-03-28T12:07:20,648 command_composite.c:70:31: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:20,649 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-03-28T12:07:20,649 | ^~~~~~~~~~ 2025-03-28T12:07:20,650 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-03-28T12:07:20,651 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-03-28T12:07:20,651 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:20,652 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:20,652 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-03-28T12:07:20,653 | ^ 2025-03-28T12:07:20,653 command_composite.c:76:31: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:20,654 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-03-28T12:07:20,654 | ^~~~~~~~~~ 2025-03-28T12:07:20,655 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-03-28T12:07:20,655 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-03-28T12:07:20,656 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:20,656 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:20,657 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-03-28T12:07:20,658 | ^ 2025-03-28T12:07:20,658 command_composite.c:82:31: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:20,659 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-03-28T12:07:20,660 | ^~~~~~~~~~ 2025-03-28T12:07:20,661 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-03-28T12:07:20,661 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-03-28T12:07:20,662 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:20,663 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:20,664 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-03-28T12:07:20,664 | ^ 2025-03-28T12:07:20,665 command_composite.c:88:31: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:20,666 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-03-28T12:07:20,666 | ^~~~~~~~~~~~ 2025-03-28T12:07:20,667 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2025-03-28T12:07:20,667 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-03-28T12:07:20,668 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:20,892 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_dist.c -o build/temp.linux-armv7l-cpython-311/command_dist.o -fopenmp 2025-03-28T12:07:21,120 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-03-28T12:07:21,122 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=] 2025-03-28T12:07:21,123 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-03-28T12:07:21,123 | ~~^ 2025-03-28T12:07:21,124 | | 2025-03-28T12:07:21,124 | long unsigned int 2025-03-28T12:07:21,124 | %u 2025-03-28T12:07:21,125 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-03-28T12:07:21,125 | ~~~~~~~ 2025-03-28T12:07:21,126 | | 2025-03-28T12:07:21,126 | size_t {aka unsigned int} 2025-03-28T12:07:21,126 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=] 2025-03-28T12:07:21,127 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-03-28T12:07:21,127 | ~~^ 2025-03-28T12:07:21,128 | | 2025-03-28T12:07:21,128 | long unsigned int 2025-03-28T12:07:21,128 | %u 2025-03-28T12:07:21,129 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-03-28T12:07:21,129 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-03-28T12:07:21,130 | ~~~~~~~~~ 2025-03-28T12:07:21,131 | | 2025-03-28T12:07:21,131 | size_t {aka unsigned int} 2025-03-28T12:07:21,132 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-03-28T12:07:21,133 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-03-28T12:07:21,134 | ~~^ 2025-03-28T12:07:21,134 | | 2025-03-28T12:07:21,135 | long unsigned int 2025-03-28T12:07:21,136 | %u 2025-03-28T12:07:21,136 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-03-28T12:07:21,137 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-03-28T12:07:21,138 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:21,138 | | 2025-03-28T12:07:21,139 | unsigned int 2025-03-28T12:07:21,139 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-03-28T12:07:21,140 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-03-28T12:07:21,141 | ^ 2025-03-28T12:07:21,144 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-03-28T12:07:21,145 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=] 2025-03-28T12:07:21,146 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-03-28T12:07:21,147 | ~~^ ~~~~~~~ 2025-03-28T12:07:21,147 | | | 2025-03-28T12:07:21,148 | long unsigned int size_t {aka unsigned int} 2025-03-28T12:07:21,148 | %u 2025-03-28T12:07:21,148 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=] 2025-03-28T12:07:21,149 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-03-28T12:07:21,150 | ~~^ 2025-03-28T12:07:21,150 | | 2025-03-28T12:07:21,151 | long unsigned int 2025-03-28T12:07:21,151 | %u 2025-03-28T12:07:21,152 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-03-28T12:07:21,152 | ~~~~~~~~~ 2025-03-28T12:07:21,153 | | 2025-03-28T12:07:21,154 | size_t {aka unsigned int} 2025-03-28T12:07:21,154 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-03-28T12:07:21,155 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-03-28T12:07:21,156 | ~~^ 2025-03-28T12:07:21,156 | | 2025-03-28T12:07:21,157 | long unsigned int 2025-03-28T12:07:21,158 | %u 2025-03-28T12:07:21,158 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-03-28T12:07:21,159 865 | (size_t) b * unitsz_distf_mapped); 2025-03-28T12:07:21,160 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:21,160 | | 2025-03-28T12:07:21,161 | unsigned int 2025-03-28T12:07:21,162 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-03-28T12:07:21,162 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-03-28T12:07:21,163 | ^~~~~~~ 2025-03-28T12:07:21,164 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-03-28T12:07:21,164 809 | struct stat cbd_fcode_stat; 2025-03-28T12:07:21,165 | ^~~~~~~~~~~~~~ 2025-03-28T12:07:21,166 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-03-28T12:07:21,167 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-03-28T12:07:21,167 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:21,167 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-03-28T12:07:21,168 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-03-28T12:07:21,168 | ^~~~~~~~~~~~~~~~~ 2025-03-28T12:07:21,168 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-03-28T12:07:21,169 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=] 2025-03-28T12:07:21,169 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-03-28T12:07:21,170 | ~~^ 2025-03-28T12:07:21,170 | | 2025-03-28T12:07:21,171 | long unsigned int 2025-03-28T12:07:21,171 | %u 2025-03-28T12:07:21,172 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-03-28T12:07:21,172 | ~~~~~~~ 2025-03-28T12:07:21,173 | | 2025-03-28T12:07:21,173 | size_t {aka unsigned int} 2025-03-28T12:07:21,174 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=] 2025-03-28T12:07:21,175 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-03-28T12:07:21,175 | ~~^ 2025-03-28T12:07:21,176 | | 2025-03-28T12:07:21,176 | long unsigned int 2025-03-28T12:07:21,177 | %u 2025-03-28T12:07:21,178 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-03-28T12:07:21,178 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-03-28T12:07:21,179 | ~~~~~~~~~ 2025-03-28T12:07:21,180 | | 2025-03-28T12:07:21,181 | size_t {aka unsigned int} 2025-03-28T12:07:21,181 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-03-28T12:07:21,182 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-03-28T12:07:21,183 | ~~^ 2025-03-28T12:07:21,183 | | 2025-03-28T12:07:21,184 | long unsigned int 2025-03-28T12:07:21,185 | %u 2025-03-28T12:07:21,185 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-03-28T12:07:21,186 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-03-28T12:07:21,186 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:21,187 | | 2025-03-28T12:07:21,188 | unsigned int 2025-03-28T12:07:21,189 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:21,189 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2025-03-28T12:07:21,190 | ^ 2025-03-28T12:07:21,190 command_dist.c: In function ‘mco_co_dist_core’: 2025-03-28T12:07:21,191 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-03-28T12:07:21,191 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-03-28T12:07:21,192 | ^ 2025-03-28T12:07:21,192 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-03-28T12:07:21,193 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:21,194 1239 | for (int rid = 0; rid < ref_num; rid++) 2025-03-28T12:07:21,194 | ^ 2025-03-28T12:07:21,195 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:21,195 1245 | for (int rid = 0; rid < ref_num; rid++) { 2025-03-28T12:07:21,196 | ^ 2025-03-28T12:07:21,196 command_dist.c: In function ‘dist_print_nobin’: 2025-03-28T12:07:21,198 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:21,198 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-03-28T12:07:21,199 | ^ 2025-03-28T12:07:21,201 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:21,201 1356 | for (int rid = 0; rid < ref_num; rid++) { 2025-03-28T12:07:21,202 | ^ 2025-03-28T12:07:21,203 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:21,204 1382 | for (int rid = 0; rid < ref_num; rid++) 2025-03-28T12:07:21,205 | ^ 2025-03-28T12:07:21,597 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-03-28T12:07:21,598 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2025-03-28T12:07:21,599 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-03-28T12:07:21,599 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:21,600 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2025-03-28T12:07:21,600 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-03-28T12:07:21,601 | ^~~~~~~~~~~~ 2025-03-28T12:07:22,407 command_dist.c: In function ‘get_dim_shuffle’: 2025-03-28T12:07:22,408 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-03-28T12:07:22,409 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-03-28T12:07:22,409 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:22,410 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-03-28T12:07:22,411 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-03-28T12:07:22,412 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,283 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-03-28T12:07:23,284 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:23,284 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-03-28T12:07:23,285 | ^~ ~~~~~~~~~ 2025-03-28T12:07:23,286 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-03-28T12:07:23,287 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-03-28T12:07:23,287 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,288 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,288 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-03-28T12:07:23,289 | ^~~~~~~~~~~~~~~ 2025-03-28T12:07:23,289 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-03-28T12:07:23,290 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-03-28T12:07:23,290 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,291 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,291 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-03-28T12:07:23,292 | ^~~~~~~~~~~ 2025-03-28T12:07:23,292 command_dist.c:681:38: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:23,293 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-03-28T12:07:23,294 | ^~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,295 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-03-28T12:07:23,295 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-03-28T12:07:23,296 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,297 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,298 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-03-28T12:07:23,299 | ^~~~~ 2025-03-28T12:07:23,299 command_dist.c:682:32: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:23,300 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-03-28T12:07:23,301 | ^~~~~~~~~~~ 2025-03-28T12:07:23,301 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-03-28T12:07:23,302 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-03-28T12:07:23,303 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,530 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-03-28T12:07:23,531 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:23,532 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-03-28T12:07:23,532 | ^~ ~~~~~~~~~ 2025-03-28T12:07:23,533 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-03-28T12:07:23,534 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-03-28T12:07:23,535 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,535 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,535 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-03-28T12:07:23,536 | ^~~~~~~~~~~~~~~ 2025-03-28T12:07:23,536 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-03-28T12:07:23,537 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-03-28T12:07:23,537 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,538 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,538 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-03-28T12:07:23,539 | ^~~~~~~~~~~~~ 2025-03-28T12:07:23,539 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-03-28T12:07:23,539 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-03-28T12:07:23,540 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,540 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:23,541 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-03-28T12:07:23,541 | ^ 2025-03-28T12:07:23,542 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2025-03-28T12:07:23,543 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-03-28T12:07:23,543 | ^~~~~~~~~~ 2025-03-28T12:07:23,544 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-03-28T12:07:23,545 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-03-28T12:07:23,545 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,546 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:23,547 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-03-28T12:07:23,548 | ^ 2025-03-28T12:07:23,548 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2025-03-28T12:07:23,549 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-03-28T12:07:23,550 | ^~~~~~~~~~ 2025-03-28T12:07:23,550 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-03-28T12:07:23,551 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-03-28T12:07:23,552 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,804 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-03-28T12:07:23,805 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:23,806 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-03-28T12:07:23,806 | ^~ ~~~~~~~~~ 2025-03-28T12:07:23,807 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-03-28T12:07:23,807 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-03-28T12:07:23,808 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,809 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,810 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-03-28T12:07:23,810 | ^~~~~~~~~~~~~~~ 2025-03-28T12:07:23,810 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-03-28T12:07:23,811 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-03-28T12:07:23,811 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,812 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,812 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-03-28T12:07:23,813 | ^~~~~~~~~~~~~ 2025-03-28T12:07:23,813 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-03-28T12:07:23,814 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-03-28T12:07:23,814 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,815 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,815 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-03-28T12:07:23,815 | ^~~~~~~~~~~ 2025-03-28T12:07:23,816 command_dist.c:1022:38: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:23,816 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-03-28T12:07:23,817 | ^~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,817 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-03-28T12:07:23,818 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-03-28T12:07:23,819 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:23,820 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-03-28T12:07:23,820 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-03-28T12:07:23,821 | ^~~~~ 2025-03-28T12:07:23,822 command_dist.c:1023:32: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:23,823 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-03-28T12:07:23,823 | ^~~~~~~~~~~ 2025-03-28T12:07:23,824 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-03-28T12:07:23,825 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-03-28T12:07:23,825 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:24,086 command_dist.c: In function ‘combine_queries’: 2025-03-28T12:07:24,088 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:24,088 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-03-28T12:07:24,089 | ^ 2025-03-28T12:07:24,090 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:24,090 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-03-28T12:07:24,091 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:24,091 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:24,092 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-03-28T12:07:24,093 | ^ 2025-03-28T12:07:24,093 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:24,094 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-03-28T12:07:24,094 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:24,096 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:24,096 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-03-28T12:07:24,096 | ^~ ~~~~~~~~ 2025-03-28T12:07:24,097 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-03-28T12:07:24,098 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-03-28T12:07:24,098 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:24,577 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-311/command_dist_wrapper.o -fopenmp 2025-03-28T12:07:24,752 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_set.c -o build/temp.linux-armv7l-cpython-311/command_set.o -fopenmp 2025-03-28T12:07:24,933 command_set.c: In function ‘sketch_operate’: 2025-03-28T12:07:24,933 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-03-28T12:07:24,934 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-03-28T12:07:24,935 | ^ 2025-03-28T12:07:24,948 command_set.c: In function ‘combin_subset_pans’: 2025-03-28T12:07:24,949 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-03-28T12:07:24,950 457 | free(co_dstat_fpath); 2025-03-28T12:07:24,950 | ^~~~~~~~~~~~~~ 2025-03-28T12:07:24,951 In file included from kssdheaders/global_basic.h:159, 2025-03-28T12:07:24,952 from command_set.c:15: 2025-03-28T12:07:24,953 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-03-28T12:07:24,953 568 | extern void free (void *__ptr) __THROW; 2025-03-28T12:07:24,954 | ~~~~~~^~~~~ 2025-03-28T12:07:24,959 command_set.c: In function ‘grouping_genomes’: 2025-03-28T12:07:24,960 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-03-28T12:07:24,961 562 | free(co_dstat_fpath); 2025-03-28T12:07:24,962 | ^~~~~~~~~~~~~~ 2025-03-28T12:07:24,962 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-03-28T12:07:24,963 568 | extern void free (void *__ptr) __THROW; 2025-03-28T12:07:24,964 | ~~~~~~^~~~~ 2025-03-28T12:07:25,131 command_set.c: In function ‘sketch_union’: 2025-03-28T12:07:25,131 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:25,132 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,133 | ^ 2025-03-28T12:07:25,133 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:25,134 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,135 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,136 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,137 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-03-28T12:07:25,137 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,138 command_set.c:82:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,138 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-03-28T12:07:25,139 | ^~~~~~~~~~ 2025-03-28T12:07:25,139 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:25,140 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-03-28T12:07:25,140 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,141 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,141 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-03-28T12:07:25,142 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:25,142 command_set.c:92:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,143 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-03-28T12:07:25,143 | ^~~~~~~~~~ 2025-03-28T12:07:25,144 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-03-28T12:07:25,145 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-03-28T12:07:25,145 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,266 command_set.c: In function ‘sketch_operate’: 2025-03-28T12:07:25,267 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,267 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-03-28T12:07:25,268 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:25,268 command_set.c:153:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,269 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-03-28T12:07:25,270 | ^~~~~~~~~~ 2025-03-28T12:07:25,270 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-03-28T12:07:25,271 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-03-28T12:07:25,271 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,272 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,273 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-03-28T12:07:25,274 | ^~ ~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,274 command_set.c:155:29: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,275 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-03-28T12:07:25,276 | ^~~~~~~~~~ 2025-03-28T12:07:25,276 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-03-28T12:07:25,277 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-03-28T12:07:25,278 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,279 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,279 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-03-28T12:07:25,280 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,280 command_set.c:165:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,281 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-03-28T12:07:25,281 | ^~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,282 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-03-28T12:07:25,282 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-03-28T12:07:25,283 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,283 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,284 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-03-28T12:07:25,284 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,285 command_set.c:169:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,285 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-03-28T12:07:25,286 | ^~~~~~~~~~ 2025-03-28T12:07:25,287 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:25,287 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-03-28T12:07:25,288 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,288 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,289 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-03-28T12:07:25,289 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,290 command_set.c:174:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,291 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-03-28T12:07:25,291 | ^~~~~~~~~~ 2025-03-28T12:07:25,292 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:25,293 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-03-28T12:07:25,293 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,294 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,295 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-03-28T12:07:25,295 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,296 command_set.c:187:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,297 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-03-28T12:07:25,298 | ^~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,298 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-03-28T12:07:25,299 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-03-28T12:07:25,300 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,301 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:25,302 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,303 | ^ 2025-03-28T12:07:25,304 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:25,306 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,308 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,439 command_set.c: In function ‘uniq_sketch_union’: 2025-03-28T12:07:25,440 command_set.c:219:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:25,441 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-03-28T12:07:25,442 | ^ 2025-03-28T12:07:25,443 command_set.c:219:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2025-03-28T12:07:25,444 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-03-28T12:07:25,444 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,445 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:25,446 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,446 | ^ 2025-03-28T12:07:25,447 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:25,448 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,448 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,449 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,450 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-03-28T12:07:25,450 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,451 command_set.c:247:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,451 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-03-28T12:07:25,452 | ^~~~~~~~~~ 2025-03-28T12:07:25,453 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:25,453 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-03-28T12:07:25,454 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,454 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,455 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-03-28T12:07:25,456 | ^~ ~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,456 command_set.c:259:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,457 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-03-28T12:07:25,457 | ^~~~~~~~~~ 2025-03-28T12:07:25,458 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-03-28T12:07:25,459 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-03-28T12:07:25,460 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,581 command_set.c: In function ‘combin_pans’: 2025-03-28T12:07:25,582 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,582 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:25,584 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,584 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2025-03-28T12:07:25,585 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:25,585 | ^~~~~~~~~~ 2025-03-28T12:07:25,586 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-03-28T12:07:25,586 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:25,587 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,587 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,588 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:25,588 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:25,589 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2025-03-28T12:07:25,589 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:25,590 | ^~~~~~~~~~ 2025-03-28T12:07:25,590 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-03-28T12:07:25,591 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:25,591 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,592 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:25,593 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,593 | ^ 2025-03-28T12:07:25,594 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:25,595 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,596 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,795 command_set.c: In function ‘combin_subset_pans’: 2025-03-28T12:07:25,795 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,796 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-03-28T12:07:25,796 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,797 command_set.c:469:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,798 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-03-28T12:07:25,798 | ^~~~~~~~~~ 2025-03-28T12:07:25,799 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:25,799 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-03-28T12:07:25,800 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,800 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,801 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-03-28T12:07:25,802 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:25,802 command_set.c:475:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,803 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-03-28T12:07:25,803 | ^~~~~~~~~~ 2025-03-28T12:07:25,804 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-03-28T12:07:25,805 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-03-28T12:07:25,805 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,806 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,806 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:25,807 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:25,808 command_set.c:481:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,808 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:25,809 | ^~~~~~~~~~ 2025-03-28T12:07:25,809 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:25,810 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:25,810 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,811 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:25,811 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:25,812 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:25,812 command_set.c:512:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:25,813 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:25,814 | ^~~~~~~~~~ 2025-03-28T12:07:25,815 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-03-28T12:07:25,815 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:25,816 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:25,817 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:25,818 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,818 | ^ 2025-03-28T12:07:25,819 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:25,820 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:25,820 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:26,039 command_set.c: In function ‘grouping_genomes’: 2025-03-28T12:07:26,040 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:26,041 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-03-28T12:07:26,041 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:26,042 command_set.c:574:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:26,042 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-03-28T12:07:26,043 | ^~~~~~~~~~ 2025-03-28T12:07:26,043 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:26,044 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-03-28T12:07:26,045 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:26,045 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:26,046 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-03-28T12:07:26,047 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:26,047 command_set.c:580:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:26,048 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-03-28T12:07:26,048 | ^~~~~~~~~~ 2025-03-28T12:07:26,048 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-03-28T12:07:26,049 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-03-28T12:07:26,049 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:26,050 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:26,050 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:26,050 | ^~ ~~~~~~~~~~~ 2025-03-28T12:07:26,051 command_set.c:612:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:26,051 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:26,052 | ^~~~~~~~~~ 2025-03-28T12:07:26,053 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-03-28T12:07:26,053 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-03-28T12:07:26,054 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:26,055 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-03-28T12:07:26,055 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:26,056 | ^~ ~~~~~~~~~~ 2025-03-28T12:07:26,057 command_set.c:634:25: note: directive argument in the range [-2147483644, 2147483646] 2025-03-28T12:07:26,057 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:26,058 | ^~~~~~~~~~ 2025-03-28T12:07:26,059 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-03-28T12:07:26,060 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-03-28T12:07:26,060 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:26,061 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-03-28T12:07:26,062 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:26,062 | ^ 2025-03-28T12:07:26,063 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-03-28T12:07:26,063 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-03-28T12:07:26,064 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:26,335 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-311/command_shuffle.o -fopenmp 2025-03-28T12:07:26,647 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c global_basic.c -o build/temp.linux-armv7l-cpython-311/global_basic.o -fopenmp 2025-03-28T12:07:26,817 global_basic.c: In function ‘organize_infile_list’: 2025-03-28T12:07:26,817 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-03-28T12:07:26,818 195 | while (isspace(*buf)) buf++; 2025-03-28T12:07:26,819 | ^~~~~~~ 2025-03-28T12:07:26,820 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2025-03-28T12:07:26,820 34 | #include 2025-03-28T12:07:26,821 +++ |+#include 2025-03-28T12:07:26,821 35 | 2025-03-28T12:07:26,822 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=] 2025-03-28T12:07:26,822 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-03-28T12:07:26,823 | ~~^ 2025-03-28T12:07:26,823 | | 2025-03-28T12:07:26,824 | long unsigned int 2025-03-28T12:07:26,824 | %u 2025-03-28T12:07:26,825 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-03-28T12:07:26,826 | ~~~~~~~~~~~ 2025-03-28T12:07:26,826 | | 2025-03-28T12:07:26,827 | size_t {aka unsigned int} 2025-03-28T12:07:26,827 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=] 2025-03-28T12:07:26,828 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-03-28T12:07:26,829 | ~~^ 2025-03-28T12:07:26,830 | | 2025-03-28T12:07:26,831 | long unsigned int 2025-03-28T12:07:26,832 | %u 2025-03-28T12:07:26,832 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-03-28T12:07:26,833 | ~~~~~~~~~~~ 2025-03-28T12:07:26,834 | | 2025-03-28T12:07:26,835 | size_t {aka unsigned int} 2025-03-28T12:07:27,564 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c iseq2comem.c -o build/temp.linux-armv7l-cpython-311/iseq2comem.o -fopenmp 2025-03-28T12:07:27,742 iseq2comem.c: In function ‘reads2mco’: 2025-03-28T12:07:27,743 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,743 156 | if (base > TL) { 2025-03-28T12:07:27,744 | ^ 2025-03-28T12:07:27,745 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,745 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,746 | ^~ 2025-03-28T12:07:27,747 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,747 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,748 | ^ 2025-03-28T12:07:27,750 iseq2comem.c: In function ‘fasta2co’: 2025-03-28T12:07:27,751 iseq2comem.c:239:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,752 239 | if (base > TL) { 2025-03-28T12:07:27,752 | ^ 2025-03-28T12:07:27,753 iseq2comem.c:243:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,753 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,754 | ^~ 2025-03-28T12:07:27,754 iseq2comem.c:243:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,755 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,755 | ^ 2025-03-28T12:07:27,756 iseq2comem.c: In function ‘fastq2co’: 2025-03-28T12:07:27,757 iseq2comem.c:272:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2025-03-28T12:07:27,758 272 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2025-03-28T12:07:27,758 | ^~ 2025-03-28T12:07:27,760 iseq2comem.c:318:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,761 318 | if (base > TL) { 2025-03-28T12:07:27,761 | ^ 2025-03-28T12:07:27,762 iseq2comem.c:322:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,763 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,763 | ^~ 2025-03-28T12:07:27,764 iseq2comem.c:322:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,765 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,765 | ^ 2025-03-28T12:07:27,767 iseq2comem.c:341:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,768 341 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2025-03-28T12:07:27,769 | ^ 2025-03-28T12:07:27,770 iseq2comem.c: In function ‘fastq2koc’: 2025-03-28T12:07:27,771 iseq2comem.c:402:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,772 402 | if (base > TL) { 2025-03-28T12:07:27,772 | ^ 2025-03-28T12:07:27,773 iseq2comem.c:406:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,774 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,774 | ^~ 2025-03-28T12:07:27,775 iseq2comem.c:406:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,776 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,777 | ^ 2025-03-28T12:07:27,781 iseq2comem.c: In function ‘mt_shortreads2koc’: 2025-03-28T12:07:27,782 iseq2comem.c:582:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,783 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,783 | ^~ 2025-03-28T12:07:27,784 iseq2comem.c:582:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:27,784 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-03-28T12:07:27,785 | ^ 2025-03-28T12:07:29,103 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c mman.c -o build/temp.linux-armv7l-cpython-311/mman.o -fopenmp 2025-03-28T12:07:29,219 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c mytime.c -o build/temp.linux-armv7l-cpython-311/mytime.o -fopenmp 2025-03-28T12:07:29,349 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c pykssd.c -o build/temp.linux-armv7l-cpython-311/pykssd.o -fopenmp 2025-03-28T12:07:29,771 pykssd.c: In function ‘py_dist_dispatch’: 2025-03-28T12:07:29,772 pykssd.c:334:13: warning: unused variable ‘state1’ [-Wunused-variable] 2025-03-28T12:07:29,773 334 | int state1 = dist_dispatch(&dist_opt_val1); 2025-03-28T12:07:29,774 | ^~~~~~ 2025-03-28T12:07:29,774 pykssd.c:396:13: warning: unused variable ‘state2’ [-Wunused-variable] 2025-03-28T12:07:29,775 396 | int state2 = dist_dispatch(&dist_opt_val2); 2025-03-28T12:07:29,776 | ^~~~~~ 2025-03-28T12:07:29,777 pykssd.c:530:13: warning: unused variable ‘state4’ [-Wunused-variable] 2025-03-28T12:07:29,777 530 | int state4 = dist_dispatch(&dist_opt_val4); 2025-03-28T12:07:29,778 | ^~~~~~ 2025-03-28T12:07:30,421 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/co2mco.o build/temp.linux-armv7l-cpython-311/command_composite.o build/temp.linux-armv7l-cpython-311/command_dist.o build/temp.linux-armv7l-cpython-311/command_dist_wrapper.o build/temp.linux-armv7l-cpython-311/command_set.o build/temp.linux-armv7l-cpython-311/command_shuffle.o build/temp.linux-armv7l-cpython-311/global_basic.o build/temp.linux-armv7l-cpython-311/iseq2comem.o build/temp.linux-armv7l-cpython-311/mman.o build/temp.linux-armv7l-cpython-311/mytime.o build/temp.linux-armv7l-cpython-311/pykssd.o -L/usr/lib/arm-linux-gnueabihf -lz -o build/lib.linux-armv7l-cpython-311/kssd.cpython-311-arm-linux-gnueabihf.so -fopenmp 2025-03-28T12:07:30,586 building 'nj' extension 2025-03-28T12:07:30,587 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c align.c -o build/temp.linux-armv7l-cpython-311/align.o 2025-03-28T12:07:31,042 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c buildtree.c -o build/temp.linux-armv7l-cpython-311/buildtree.o 2025-03-28T12:07:31,190 buildtree.c: In function ‘UPGMA_buildtree’: 2025-03-28T12:07:31,191 buildtree.c:716:33: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:31,192 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2025-03-28T12:07:31,192 | ^~ 2025-03-28T12:07:31,194 buildtree.c:716:62: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:31,195 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2025-03-28T12:07:31,196 | ^~ 2025-03-28T12:07:31,850 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c cluster.c -o build/temp.linux-armv7l-cpython-311/cluster.o 2025-03-28T12:07:32,223 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c distancemat.c -o build/temp.linux-armv7l-cpython-311/distancemat.o 2025-03-28T12:07:32,360 distancemat.c: In function ‘clone_DistanceMatrix’: 2025-03-28T12:07:32,360 distancemat.c:226:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:32,361 226 | for( i=0; i < dest->size; i++) { 2025-03-28T12:07:32,362 | ^ 2025-03-28T12:07:32,362 distancemat.c: In function ‘empty_DistanceMatrix’: 2025-03-28T12:07:32,363 distancemat.c:260:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:32,363 260 | for( i=0; i < mat->size; i++) { 2025-03-28T12:07:32,364 | ^ 2025-03-28T12:07:32,364 distancemat.c: In function ‘print_DistanceMatrix’: 2025-03-28T12:07:32,365 distancemat.c:349:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:32,366 349 | for(row=0; row < mat->size; row++) { 2025-03-28T12:07:32,366 | ^ 2025-03-28T12:07:32,367 distancemat.c: In function ‘read_phylip_DistanceMatrix’: 2025-03-28T12:07:32,368 distancemat.c:410:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 2025-03-28T12:07:32,369 410 | while(c = fgetc(handle)) { 2025-03-28T12:07:32,370 | ^ 2025-03-28T12:07:32,752 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c pynj.c -o build/temp.linux-armv7l-cpython-311/pynj.o 2025-03-28T12:07:33,193 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c sequence.c -o build/temp.linux-armv7l-cpython-311/sequence.o 2025-03-28T12:07:33,409 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c tree.c -o build/temp.linux-armv7l-cpython-311/tree.o 2025-03-28T12:07:34,214 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.11 -c util.c -o build/temp.linux-armv7l-cpython-311/util.o 2025-03-28T12:07:34,386 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/align.o build/temp.linux-armv7l-cpython-311/buildtree.o build/temp.linux-armv7l-cpython-311/cluster.o build/temp.linux-armv7l-cpython-311/distancemat.o build/temp.linux-armv7l-cpython-311/pynj.o build/temp.linux-armv7l-cpython-311/sequence.o build/temp.linux-armv7l-cpython-311/tree.o build/temp.linux-armv7l-cpython-311/util.o -L/usr/lib/arm-linux-gnueabihf -o build/lib.linux-armv7l-cpython-311/nj.cpython-311-arm-linux-gnueabihf.so 2025-03-28T12:07:34,504 building 'dnj' extension 2025-03-28T12:07:34,505 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c bytescale.c -o build/temp.linux-armv7l-cpython-311/bytescale.o -fopenmp 2025-03-28T12:07:34,559 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c dnj.c -o build/temp.linux-armv7l-cpython-311/dnj.o -fopenmp 2025-03-28T12:07:34,694 dnj.c: In function ‘minQpair’: 2025-03-28T12:07:34,694 dnj.c:70:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,695 70 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,695 | ^~~ 2025-03-28T12:07:34,696 dnj.c:126:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,697 126 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,697 | ^~~ 2025-03-28T12:07:34,698 dnj.c: In function ‘maxQpair’: 2025-03-28T12:07:34,698 dnj.c:157:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,699 157 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,699 | ^~~ 2025-03-28T12:07:34,700 dnj.c:213:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,700 213 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,701 | ^~~ 2025-03-28T12:07:34,701 dnj.c: In function ‘UPGMApair’: 2025-03-28T12:07:34,702 dnj.c:237:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,702 237 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,703 | ^~~ 2025-03-28T12:07:34,703 dnj.c:284:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,704 284 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,704 | ^~~ 2025-03-28T12:07:34,705 dnj.c:291:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,706 291 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,706 | ^~~ 2025-03-28T12:07:34,707 dnj.c: In function ‘minQrow’: 2025-03-28T12:07:34,708 dnj.c:374:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,708 374 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,709 | ^~~ 2025-03-28T12:07:34,710 dnj.c: In function ‘maxQrow’: 2025-03-28T12:07:34,710 dnj.c:435:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,711 435 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,712 | ^~~ 2025-03-28T12:07:34,713 dnj.c: In function ‘UPGMArow’: 2025-03-28T12:07:34,713 dnj.c:488:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,714 488 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,715 | ^~~ 2025-03-28T12:07:34,715 dnj.c:494:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,716 494 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,717 | ^~~ 2025-03-28T12:07:34,718 dnj.c: In function ‘minQ_thread’: 2025-03-28T12:07:34,718 dnj.c:553:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:34,719 553 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:34,720 | ^~~ 2025-03-28T12:07:36,085 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c filebuff.c -o build/temp.linux-armv7l-cpython-311/filebuff.o -fopenmp 2025-03-28T12:07:36,203 filebuff.c: In function ‘BuffgzFileBuff’: 2025-03-28T12:07:36,204 filebuff.c:99:54: warning: comparison of integer expressions of different signedness: ‘uInt’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:36,205 99 | if(status == Z_STREAM_END && strm->avail_out == dest->buffSize) { 2025-03-28T12:07:36,205 | ^~ 2025-03-28T12:07:36,530 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c hclust.c -o build/temp.linux-armv7l-cpython-311/hclust.o -fopenmp 2025-03-28T12:07:36,665 hclust.c: In function ‘minQ’: 2025-03-28T12:07:36,666 hclust.c:364:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:36,667 364 | while(++i < Q->n) { 2025-03-28T12:07:36,667 | ^ 2025-03-28T12:07:36,668 hclust.c:377:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:36,668 377 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:36,669 | ^~~ 2025-03-28T12:07:36,669 hclust.c: In function ‘maxQ’: 2025-03-28T12:07:36,670 hclust.c:394:19: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-03-28T12:07:36,670 394 | while(++i < Q->n) { 2025-03-28T12:07:36,671 | ^ 2025-03-28T12:07:36,671 hclust.c:407:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:36,672 407 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:36,672 | ^~~ 2025-03-28T12:07:39,066 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c matrix.c -o build/temp.linux-armv7l-cpython-311/matrix.o -fopenmp 2025-03-28T12:07:39,198 matrix.c: In function ‘ltdMatrix_popArrange’: 2025-03-28T12:07:39,198 matrix.c:538:16: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-03-28T12:07:39,199 538 | if(pos != n) { 2025-03-28T12:07:39,200 | ^~ 2025-03-28T12:07:40,080 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c mman.c -o build/temp.linux-armv7l-cpython-311/mman.o -fopenmp 2025-03-28T12:07:40,133 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c nj.c -o build/temp.linux-armv7l-cpython-311/nj.o -fopenmp 2025-03-28T12:07:40,262 nj.c: In function ‘initQ’: 2025-03-28T12:07:40,263 nj.c:243:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:40,264 243 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:40,264 | ^~~ 2025-03-28T12:07:40,266 nj.c: In function ‘initQ_MN’: 2025-03-28T12:07:40,267 nj.c:358:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:40,267 358 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:40,268 | ^~~ 2025-03-28T12:07:40,272 nj.c: In function ‘minD’: 2025-03-28T12:07:40,273 nj.c:559:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:40,273 559 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:40,274 | ^~~ 2025-03-28T12:07:40,275 nj.c: In function ‘maxD’: 2025-03-28T12:07:40,276 nj.c:642:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:40,276 642 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:40,277 | ^~~ 2025-03-28T12:07:40,281 nj.c: In function ‘minPair’: 2025-03-28T12:07:40,282 nj.c:826:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2025-03-28T12:07:40,282 826 | pos <<= sizeof(unsigned) * 8; 2025-03-28T12:07:40,283 | ^~~ 2025-03-28T12:07:42,647 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c nwck.c -o build/temp.linux-armv7l-cpython-311/nwck.o -fopenmp 2025-03-28T12:07:43,193 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c pherror.c -o build/temp.linux-armv7l-cpython-311/pherror.o -fopenmp 2025-03-28T12:07:43,287 pherror.c: In function ‘cfread’: 2025-03-28T12:07:43,288 pherror.c:58:56: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2025-03-28T12:07:43,288 58 | } else if(nmemb == 0 || (nmemb == -1 && (errno & EAGAIN))) { 2025-03-28T12:07:43,289 | ^~ 2025-03-28T12:07:43,382 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c phy.c -o build/temp.linux-armv7l-cpython-311/phy.o -fopenmp 2025-03-28T12:07:44,446 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c pydnj.c -o build/temp.linux-armv7l-cpython-311/pydnj.o -fopenmp 2025-03-28T12:07:44,822 In file included from pydnj.c:11: 2025-03-28T12:07:44,823 dnjheaders/pherror.h:20: warning: "_XOPEN_SOURCE" redefined 2025-03-28T12:07:44,823 20 | #define _XOPEN_SOURCE 600 2025-03-28T12:07:44,824 | 2025-03-28T12:07:44,824 In file included from /usr/include/arm-linux-gnueabihf/bits/libc-header-start.h:33, 2025-03-28T12:07:44,825 from /usr/include/stdlib.h:26, 2025-03-28T12:07:44,825 from /usr/include/python3.11/Python.h:23, 2025-03-28T12:07:44,826 from pydnj.c:1: 2025-03-28T12:07:44,826 /usr/include/features.h:214: note: this is the location of the previous definition 2025-03-28T12:07:44,827 214 | # define _XOPEN_SOURCE 700 2025-03-28T12:07:44,828 | 2025-03-28T12:07:44,847 pydnj.c: In function ‘py_build’: 2025-03-28T12:07:44,847 pydnj.c:165:9: warning: implicit declaration of function ‘omp_get_num_procs’ [-Wimplicit-function-declaration] 2025-03-28T12:07:44,848 165 | p = omp_get_num_procs(); 2025-03-28T12:07:44,850 | ^~~~~~~~~~~~~~~~~ 2025-03-28T12:07:44,968 pydnj.c:169:5: warning: ‘free’ called on pointer returned from a mismatched allocation function [-Wmismatched-dealloc] 2025-03-28T12:07:44,969 169 | free(file); 2025-03-28T12:07:44,969 | ^~~~~~~~~~ 2025-03-28T12:07:44,970 pydnj.c:125:12: note: returned from ‘fopen’ 2025-03-28T12:07:44,971 125 | file = fopen(inputfilename, "r"); 2025-03-28T12:07:44,971 | ^~~~~~~~~~~~~~~~~~~~~~~~~ 2025-03-28T12:07:45,041 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c qseqs.c -o build/temp.linux-armv7l-cpython-311/qseqs.o -fopenmp 2025-03-28T12:07:45,248 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c str.c -o build/temp.linux-armv7l-cpython-311/str.o -fopenmp 2025-03-28T12:07:45,356 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c tmp.c -o build/temp.linux-armv7l-cpython-311/tmp.o -fopenmp 2025-03-28T12:07:45,548 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.11 -c vector.c -o build/temp.linux-armv7l-cpython-311/vector.o -fopenmp 2025-03-28T12:07:45,706 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/bytescale.o build/temp.linux-armv7l-cpython-311/dnj.o build/temp.linux-armv7l-cpython-311/filebuff.o build/temp.linux-armv7l-cpython-311/hclust.o build/temp.linux-armv7l-cpython-311/matrix.o build/temp.linux-armv7l-cpython-311/mman.o build/temp.linux-armv7l-cpython-311/nj.o build/temp.linux-armv7l-cpython-311/nwck.o build/temp.linux-armv7l-cpython-311/pherror.o build/temp.linux-armv7l-cpython-311/phy.o build/temp.linux-armv7l-cpython-311/pydnj.o build/temp.linux-armv7l-cpython-311/qseqs.o build/temp.linux-armv7l-cpython-311/str.o build/temp.linux-armv7l-cpython-311/tmp.o build/temp.linux-armv7l-cpython-311/vector.o -L/usr/lib/arm-linux-gnueabihf -lz -o build/lib.linux-armv7l-cpython-311/dnj.cpython-311-arm-linux-gnueabihf.so -fopenmp 2025-03-28T12:07:45,881 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-03-28T12:07:45,882 !! 2025-03-28T12:07:45,883 ******************************************************************************** 2025-03-28T12:07:45,884 Please avoid running ``setup.py`` directly. 2025-03-28T12:07:45,884 Instead, use pypa/build, pypa/installer or other 2025-03-28T12:07:45,885 standards-based tools. 2025-03-28T12:07:45,885 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-03-28T12:07:45,886 ******************************************************************************** 2025-03-28T12:07:45,887 !! 2025-03-28T12:07:45,887 self.initialize_options() 2025-03-28T12:07:45,914 installing to build/bdist.linux-armv7l/wheel 2025-03-28T12:07:45,914 running install 2025-03-28T12:07:45,939 running install_lib 2025-03-28T12:07:45,967 creating build/bdist.linux-armv7l/wheel 2025-03-28T12:07:45,969 copying build/lib.linux-armv7l-cpython-311/kssdtree.py -> build/bdist.linux-armv7l/wheel/. 2025-03-28T12:07:45,973 copying build/lib.linux-armv7l-cpython-311/toolutils.py -> build/bdist.linux-armv7l/wheel/. 2025-03-28T12:07:45,976 copying build/lib.linux-armv7l-cpython-311/nj.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-03-28T12:07:45,982 copying build/lib.linux-armv7l-cpython-311/dnj.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-03-28T12:07:46,001 copying build/lib.linux-armv7l-cpython-311/kssd.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-03-28T12:07:46,016 running install_egg_info 2025-03-28T12:07:46,052 Copying kssdtree.egg-info to build/bdist.linux-armv7l/wheel/./kssdtree-2.0.5-py3.11.egg-info 2025-03-28T12:07:46,066 running install_scripts 2025-03-28T12:07:46,124 creating build/bdist.linux-armv7l/wheel/kssdtree-2.0.5.dist-info/WHEEL 2025-03-28T12:07:46,128 creating '/tmp/pip-wheel-yl82pyf6/kssdtree-2.0.5-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-03-28T12:07:46,194 adding 'dnj.cpython-311-arm-linux-gnueabihf.so' 2025-03-28T12:07:46,277 adding 'kssd.cpython-311-arm-linux-gnueabihf.so' 2025-03-28T12:07:46,283 adding 'kssdtree.py' 2025-03-28T12:07:46,303 adding 'nj.cpython-311-arm-linux-gnueabihf.so' 2025-03-28T12:07:46,307 adding 'toolutils.py' 2025-03-28T12:07:46,310 adding 'kssdtree-2.0.5.dist-info/METADATA' 2025-03-28T12:07:46,311 adding 'kssdtree-2.0.5.dist-info/WHEEL' 2025-03-28T12:07:46,313 adding 'kssdtree-2.0.5.dist-info/dependency_links.txt' 2025-03-28T12:07:46,314 adding 'kssdtree-2.0.5.dist-info/top_level.txt' 2025-03-28T12:07:46,316 adding 'kssdtree-2.0.5.dist-info/RECORD' 2025-03-28T12:07:46,328 removing build/bdist.linux-armv7l/wheel 2025-03-28T12:07:46,482 Building wheel for kssdtree (setup.py): finished with status 'done' 2025-03-28T12:07:46,488 Created wheel for kssdtree: filename=kssdtree-2.0.5-cp311-cp311-linux_armv7l.whl size=375556 sha256=cecf3000ed0ffcd720412023d8de2f213356363c01aa3193441c040ed34353d3 2025-03-28T12:07:46,489 Stored in directory: /tmp/pip-ephem-wheel-cache-77lkyyr0/wheels/32/04/4e/62a074a40d870c432cda5c790c0ad2f3407891612a85d4e6e9 2025-03-28T12:07:46,506 Successfully built kssdtree 2025-03-28T12:07:46,530 Removed build tracker: '/tmp/pip-build-tracker-t87b3xi7'