2024-07-12T13:36:13,224 Created temporary directory: /tmp/pip-build-tracker-uq70wtrk 2024-07-12T13:36:13,226 Initialized build tracking at /tmp/pip-build-tracker-uq70wtrk 2024-07-12T13:36:13,226 Created build tracker: /tmp/pip-build-tracker-uq70wtrk 2024-07-12T13:36:13,226 Entered build tracker: /tmp/pip-build-tracker-uq70wtrk 2024-07-12T13:36:13,226 Created temporary directory: /tmp/pip-wheel-gc7lvmxm 2024-07-12T13:36:13,231 Created temporary directory: /tmp/pip-ephem-wheel-cache-5x6erqj5 2024-07-12T13:36:13,254 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-07-12T13:36:13,258 2 location(s) to search for versions of kssdtree: 2024-07-12T13:36:13,258 * https://pypi.org/simple/kssdtree/ 2024-07-12T13:36:13,258 * https://www.piwheels.org/simple/kssdtree/ 2024-07-12T13:36:13,258 Fetching project page and analyzing links: https://pypi.org/simple/kssdtree/ 2024-07-12T13:36:13,259 Getting page https://pypi.org/simple/kssdtree/ 2024-07-12T13:36:13,260 Found index url https://pypi.org/simple/ 2024-07-12T13:36:13,312 Fetched page https://pypi.org/simple/kssdtree/ as application/vnd.pypi.simple.v1+json 2024-07-12T13:36:13,315 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 2024-07-12T13:36:13,315 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 2024-07-12T13:36:13,315 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 2024-07-12T13:36:13,316 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 2024-07-12T13:36:13,316 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 2024-07-12T13:36:13,316 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 2024-07-12T13:36:13,316 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 2024-07-12T13:36:13,317 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 2024-07-12T13:36:13,317 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 2024-07-12T13:36:13,317 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdtree/ 2024-07-12T13:36:13,318 Getting page https://www.piwheels.org/simple/kssdtree/ 2024-07-12T13:36:13,319 Found index url https://www.piwheels.org/simple/ 2024-07-12T13:36:13,388 Fetched page https://www.piwheels.org/simple/kssdtree/ as text/html 2024-07-12T13:36:13,400 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-2.0.0-cp311-cp311-linux_armv6l.whl#sha256=16a2e46376ed2874435371fd57a97405d4b631b35c014b9e395a4528a1e655b8 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,401 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/) 2024-07-12T13:36:13,401 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/) 2024-07-12T13:36:13,401 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/) 2024-07-12T13:36:13,401 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/) 2024-07-12T13:36:13,402 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/) 2024-07-12T13:36:13,402 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/) 2024-07-12T13:36:13,402 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/) 2024-07-12T13:36:13,402 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/) 2024-07-12T13:36:13,402 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.8-cp311-cp311-linux_armv7l.whl#sha256=717afc6606ad3045caac8f3f1cd01a37edd2f01f1cc38bc1bc6c3320882bd392 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,403 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp311-cp311-linux_armv6l.whl#sha256=388a8dabd657ea83e6d22b52300337c74e9d84e506806cfd4d2a76eb98777e17 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,403 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp311-cp311-linux_armv7l.whl#sha256=388a8dabd657ea83e6d22b52300337c74e9d84e506806cfd4d2a76eb98777e17 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,403 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.7-cp39-cp39-linux_armv6l.whl#sha256=e1df896451d30c12e01aceb3eb91f0f7dfe0ee6f16fd66864fdefbc21cc54856 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,404 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/) 2024-07-12T13:36:13,404 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/) 2024-07-12T13:36:13,404 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/) 2024-07-12T13:36:13,404 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp39-cp39-linux_armv6l.whl#sha256=9defb70b5162efc2c0eb6e415a7e37c604aa9b248a006af86af8f59a3bce5d2b (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,405 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.6-cp39-cp39-linux_armv7l.whl#sha256=9defb70b5162efc2c0eb6e415a7e37c604aa9b248a006af86af8f59a3bce5d2b (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,405 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp37-cp37m-linux_armv6l.whl#sha256=ffef4ae0f634dd977cc2ec6798b9f36f73d788aca27bb7199f552d5513c34413 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,405 Skipping link: No binaries permitted for kssdtree: https://www.piwheels.org/simple/kssdtree/kssdtree-1.1.4-cp37-cp37m-linux_armv7l.whl#sha256=ffef4ae0f634dd977cc2ec6798b9f36f73d788aca27bb7199f552d5513c34413 (from https://www.piwheels.org/simple/kssdtree/) 2024-07-12T13:36:13,406 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/) 2024-07-12T13:36:13,406 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/) 2024-07-12T13:36:13,406 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/) 2024-07-12T13:36:13,406 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/) 2024-07-12T13:36:13,407 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/) 2024-07-12T13:36:13,407 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/) 2024-07-12T13:36:13,407 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/) 2024-07-12T13:36:13,408 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/) 2024-07-12T13:36:13,408 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/) 2024-07-12T13:36:13,408 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/) 2024-07-12T13:36:13,409 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/) 2024-07-12T13:36:13,409 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/) 2024-07-12T13:36:13,409 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/) 2024-07-12T13:36:13,409 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/) 2024-07-12T13:36:13,410 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/) 2024-07-12T13:36:13,410 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/) 2024-07-12T13:36:13,410 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/) 2024-07-12T13:36:13,411 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/) 2024-07-12T13:36:13,411 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/) 2024-07-12T13:36:13,411 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/) 2024-07-12T13:36:13,411 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/) 2024-07-12T13:36:13,412 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/) 2024-07-12T13:36:13,412 Skipping link: not a file: https://www.piwheels.org/simple/kssdtree/ 2024-07-12T13:36:13,412 Skipping link: not a file: https://pypi.org/simple/kssdtree/ 2024-07-12T13:36:13,440 Given no hashes to check 1 links for project 'kssdtree': discarding no candidates 2024-07-12T13:36:13,464 Collecting kssdtree==2.0.0 2024-07-12T13:36:13,467 Created temporary directory: /tmp/pip-unpack-ip0sdwwg 2024-07-12T13:36:13,522 Downloading kssdtree-2.0.0.tar.gz (112 kB) 2024-07-12T13:36:13,715 Added kssdtree==2.0.0 from https://files.pythonhosted.org/packages/9d/47/017180a30e73e421372377cbe6d01c5e51a5108ea2177f20ccd7d283f8d1/kssdtree-2.0.0.tar.gz to build tracker '/tmp/pip-build-tracker-uq70wtrk' 2024-07-12T13:36:13,717 Running setup.py (path:/tmp/pip-wheel-gc7lvmxm/kssdtree_9f3aab95770147c3b6069d5ab0b1ceae/setup.py) egg_info for package kssdtree 2024-07-12T13:36:13,717 Created temporary directory: /tmp/pip-pip-egg-info-u0crtrte 2024-07-12T13:36:13,717 Preparing metadata (setup.py): started 2024-07-12T13:36:13,718 Running command python setup.py egg_info 2024-07-12T13:36:14,799 running egg_info 2024-07-12T13:36:14,801 creating /tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info 2024-07-12T13:36:14,825 writing /tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/PKG-INFO 2024-07-12T13:36:14,829 writing dependency_links to /tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/dependency_links.txt 2024-07-12T13:36:14,831 writing requirements to /tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/requires.txt 2024-07-12T13:36:14,832 writing top-level names to /tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/top_level.txt 2024-07-12T13:36:14,833 writing manifest file '/tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/SOURCES.txt' 2024-07-12T13:36:14,932 reading manifest file '/tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/SOURCES.txt' 2024-07-12T13:36:14,934 reading manifest template 'MANIFEST.in' 2024-07-12T13:36:14,952 writing manifest file '/tmp/pip-pip-egg-info-u0crtrte/kssdtree.egg-info/SOURCES.txt' 2024-07-12T13:36:15,047 Preparing metadata (setup.py): finished with status 'done' 2024-07-12T13:36:15,052 Source in /tmp/pip-wheel-gc7lvmxm/kssdtree_9f3aab95770147c3b6069d5ab0b1ceae has version 2.0.0, which satisfies requirement kssdtree==2.0.0 from https://files.pythonhosted.org/packages/9d/47/017180a30e73e421372377cbe6d01c5e51a5108ea2177f20ccd7d283f8d1/kssdtree-2.0.0.tar.gz 2024-07-12T13:36:15,053 Removed kssdtree==2.0.0 from https://files.pythonhosted.org/packages/9d/47/017180a30e73e421372377cbe6d01c5e51a5108ea2177f20ccd7d283f8d1/kssdtree-2.0.0.tar.gz from build tracker '/tmp/pip-build-tracker-uq70wtrk' 2024-07-12T13:36:15,057 Created temporary directory: /tmp/pip-unpack-8982c7r1 2024-07-12T13:36:15,059 Created temporary directory: /tmp/pip-unpack-p2pl1nhv 2024-07-12T13:36:15,065 Building wheels for collected packages: kssdtree 2024-07-12T13:36:15,068 Created temporary directory: /tmp/pip-wheel-2tkzgv_n 2024-07-12T13:36:15,069 Building wheel for kssdtree (setup.py): started 2024-07-12T13:36:15,070 Destination directory: /tmp/pip-wheel-2tkzgv_n 2024-07-12T13:36:15,070 Running command python setup.py bdist_wheel 2024-07-12T13:36:16,126 running bdist_wheel 2024-07-12T13:36:16,219 running build 2024-07-12T13:36:16,220 running build_py 2024-07-12T13:36:16,245 creating build 2024-07-12T13:36:16,246 creating build/lib.linux-armv7l-cpython-39 2024-07-12T13:36:16,247 copying kssdtree.py -> build/lib.linux-armv7l-cpython-39 2024-07-12T13:36:16,249 copying toolutils.py -> build/lib.linux-armv7l-cpython-39 2024-07-12T13:36:16,251 running egg_info 2024-07-12T13:36:16,307 writing kssdtree.egg-info/PKG-INFO 2024-07-12T13:36:16,310 writing dependency_links to kssdtree.egg-info/dependency_links.txt 2024-07-12T13:36:16,311 writing requirements to kssdtree.egg-info/requires.txt 2024-07-12T13:36:16,313 writing top-level names to kssdtree.egg-info/top_level.txt 2024-07-12T13:36:16,340 reading manifest file 'kssdtree.egg-info/SOURCES.txt' 2024-07-12T13:36:16,343 reading manifest template 'MANIFEST.in' 2024-07-12T13:36:16,360 writing manifest file 'kssdtree.egg-info/SOURCES.txt' 2024-07-12T13:36:16,363 running build_ext 2024-07-12T13:36:16,931 building 'kssd' extension 2024-07-12T13:36:16,932 creating build/temp.linux-armv7l-cpython-39 2024-07-12T13:36:16,933 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c co2mco.c -o build/temp.linux-armv7l-cpython-39/co2mco.o -fopenmp 2024-07-12T13:36:17,096 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2024-07-12T13:36:17,096 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:17,096 109 | for (unsigned int i = 0; i < comp_num; i++) { 2024-07-12T13:36:17,096 | ^ 2024-07-12T13:36:17,099 co2mco.c: In function ‘co2unitllmco’: 2024-07-12T13:36:17,100 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:17,100 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2024-07-12T13:36:17,100 | ^ 2024-07-12T13:36:17,719 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_composite.c -o build/temp.linux-armv7l-cpython-39/command_composite.o -fopenmp 2024-07-12T13:36:18,019 command_composite.c: In function ‘get_species_abundance’: 2024-07-12T13:36:18,020 command_composite.c:32:34: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-07-12T13:36:18,020 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2024-07-12T13:36:18,020 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,020 command_composite.c:34:34: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-07-12T13:36:18,020 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2024-07-12T13:36:18,021 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,021 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:18,021 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-07-12T13:36:18,021 | ^ 2024-07-12T13:36:18,021 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2024-07-12T13:36:18,021 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-07-12T13:36:18,022 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,022 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:18,022 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-07-12T13:36:18,022 | ^ 2024-07-12T13:36:18,022 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2024-07-12T13:36:18,022 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-07-12T13:36:18,022 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,023 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:18,023 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-07-12T13:36:18,023 | ^ 2024-07-12T13:36:18,023 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2024-07-12T13:36:18,023 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-07-12T13:36:18,023 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,024 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:18,024 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-07-12T13:36:18,024 | ^ 2024-07-12T13:36:18,024 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2024-07-12T13:36:18,024 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-07-12T13:36:18,024 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,024 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:18,024 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-07-12T13:36:18,025 | ^ 2024-07-12T13:36:18,025 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 261) into a destination of size 256 2024-07-12T13:36:18,025 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-07-12T13:36:18,025 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,258 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_dist.c -o build/temp.linux-armv7l-cpython-39/command_dist.o -fopenmp 2024-07-12T13:36:18,453 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-07-12T13:36:18,454 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=] 2024-07-12T13:36:18,454 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-07-12T13:36:18,454 | ~~^ 2024-07-12T13:36:18,454 | | 2024-07-12T13:36:18,454 | long unsigned int 2024-07-12T13:36:18,454 | %u 2024-07-12T13:36:18,454 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-07-12T13:36:18,455 | ~~~~~~~ 2024-07-12T13:36:18,455 | | 2024-07-12T13:36:18,455 | size_t {aka unsigned int} 2024-07-12T13:36:18,455 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=] 2024-07-12T13:36:18,455 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-07-12T13:36:18,455 | ~~^ 2024-07-12T13:36:18,455 | | 2024-07-12T13:36:18,455 | long unsigned int 2024-07-12T13:36:18,456 | %u 2024-07-12T13:36:18,456 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-07-12T13:36:18,456 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-07-12T13:36:18,456 | ~~~~~~~~~ 2024-07-12T13:36:18,456 | | 2024-07-12T13:36:18,456 | size_t {aka unsigned int} 2024-07-12T13:36:18,456 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-07-12T13:36:18,457 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-07-12T13:36:18,457 | ~~^ 2024-07-12T13:36:18,457 | | 2024-07-12T13:36:18,457 | long unsigned int 2024-07-12T13:36:18,457 | %u 2024-07-12T13:36:18,457 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-07-12T13:36:18,457 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-07-12T13:36:18,458 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,458 | | 2024-07-12T13:36:18,458 | unsigned int 2024-07-12T13:36:18,458 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-07-12T13:36:18,459 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2024-07-12T13:36:18,459 | ^ 2024-07-12T13:36:18,465 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-07-12T13:36:18,466 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=] 2024-07-12T13:36:18,466 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-07-12T13:36:18,466 | ~~^ ~~~~~~~ 2024-07-12T13:36:18,466 | | | 2024-07-12T13:36:18,466 | long unsigned int size_t {aka unsigned int} 2024-07-12T13:36:18,466 | %u 2024-07-12T13:36:18,467 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=] 2024-07-12T13:36:18,467 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-07-12T13:36:18,468 | ~~^ 2024-07-12T13:36:18,468 | | 2024-07-12T13:36:18,468 | long unsigned int 2024-07-12T13:36:18,468 | %u 2024-07-12T13:36:18,468 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-07-12T13:36:18,468 | ~~~~~~~~~ 2024-07-12T13:36:18,468 | | 2024-07-12T13:36:18,468 | size_t {aka unsigned int} 2024-07-12T13:36:18,469 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-07-12T13:36:18,469 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-07-12T13:36:18,469 | ~~^ 2024-07-12T13:36:18,469 | | 2024-07-12T13:36:18,469 | long unsigned int 2024-07-12T13:36:18,469 | %u 2024-07-12T13:36:18,470 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-07-12T13:36:18,470 865 | (size_t) b * unitsz_distf_mapped); 2024-07-12T13:36:18,470 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,470 | | 2024-07-12T13:36:18,470 | unsigned int 2024-07-12T13:36:18,471 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2024-07-12T13:36:18,471 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2024-07-12T13:36:18,471 | ^~~~~~~ 2024-07-12T13:36:18,471 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2024-07-12T13:36:18,472 809 | struct stat cbd_fcode_stat; 2024-07-12T13:36:18,472 | ^~~~~~~~~~~~~~ 2024-07-12T13:36:18,472 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2024-07-12T13:36:18,472 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-07-12T13:36:18,472 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,473 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2024-07-12T13:36:18,473 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-07-12T13:36:18,473 | ^~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,478 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-07-12T13:36:18,480 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=] 2024-07-12T13:36:18,480 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-07-12T13:36:18,480 | ~~^ 2024-07-12T13:36:18,480 | | 2024-07-12T13:36:18,480 | long unsigned int 2024-07-12T13:36:18,480 | %u 2024-07-12T13:36:18,480 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-07-12T13:36:18,480 | ~~~~~~~ 2024-07-12T13:36:18,481 | | 2024-07-12T13:36:18,481 | size_t {aka unsigned int} 2024-07-12T13:36:18,481 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=] 2024-07-12T13:36:18,482 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-07-12T13:36:18,482 | ~~^ 2024-07-12T13:36:18,482 | | 2024-07-12T13:36:18,482 | long unsigned int 2024-07-12T13:36:18,482 | %u 2024-07-12T13:36:18,482 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-07-12T13:36:18,482 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-07-12T13:36:18,482 | ~~~~~~~~~ 2024-07-12T13:36:18,483 | | 2024-07-12T13:36:18,483 | size_t {aka unsigned int} 2024-07-12T13:36:18,483 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-07-12T13:36:18,483 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-07-12T13:36:18,484 | ~~^ 2024-07-12T13:36:18,484 | | 2024-07-12T13:36:18,484 | long unsigned int 2024-07-12T13:36:18,484 | %u 2024-07-12T13:36:18,484 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-07-12T13:36:18,484 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-07-12T13:36:18,484 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,484 | | 2024-07-12T13:36:18,485 | unsigned int 2024-07-12T13:36:18,485 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,485 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2024-07-12T13:36:18,485 | ^ 2024-07-12T13:36:18,488 command_dist.c: In function ‘mco_co_dist_core’: 2024-07-12T13:36:18,489 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-07-12T13:36:18,489 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2024-07-12T13:36:18,489 | ^ 2024-07-12T13:36:18,495 command_dist.c: In function ‘koc_dist_print_nobin’: 2024-07-12T13:36:18,495 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,495 1239 | for (int rid = 0; rid < ref_num; rid++) 2024-07-12T13:36:18,496 | ^ 2024-07-12T13:36:18,497 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,497 1245 | for (int rid = 0; rid < ref_num; rid++) { 2024-07-12T13:36:18,497 | ^ 2024-07-12T13:36:18,502 command_dist.c: In function ‘dist_print_nobin’: 2024-07-12T13:36:18,503 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,503 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2024-07-12T13:36:18,503 | ^ 2024-07-12T13:36:18,505 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,505 1356 | for (int rid = 0; rid < ref_num; rid++) { 2024-07-12T13:36:18,505 | ^ 2024-07-12T13:36:18,506 command_dist.c:1380:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,507 1380 | for (int rid = 0; rid < ref_num; rid++) 2024-07-12T13:36:18,507 | ^ 2024-07-12T13:36:18,507 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:18,507 1382 | for (int rid = 0; rid < ref_num; rid++) 2024-07-12T13:36:18,508 | ^ 2024-07-12T13:36:18,759 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2024-07-12T13:36:18,759 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2024-07-12T13:36:18,759 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2024-07-12T13:36:18,760 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:18,760 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2024-07-12T13:36:18,760 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2024-07-12T13:36:18,760 | ^~~~~~~~~~~~ 2024-07-12T13:36:19,480 command_dist.c: In function ‘get_dim_shuffle’: 2024-07-12T13:36:19,480 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2024-07-12T13:36:19,481 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-07-12T13:36:19,481 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:19,481 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2024-07-12T13:36:19,481 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-07-12T13:36:19,481 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,265 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-07-12T13:36:20,265 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:20,265 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-07-12T13:36:20,265 | ^~ ~~~~~~~~~ 2024-07-12T13:36:20,266 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-07-12T13:36:20,266 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-07-12T13:36:20,266 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,266 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,266 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-07-12T13:36:20,266 | ^~~~~~~~~~~~~~~ 2024-07-12T13:36:20,267 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-07-12T13:36:20,267 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-07-12T13:36:20,267 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,268 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,268 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-07-12T13:36:20,268 | ^~~~~~~~~~~ 2024-07-12T13:36:20,268 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-07-12T13:36:20,269 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-07-12T13:36:20,269 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,269 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,269 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-07-12T13:36:20,269 | ^~~~~ 2024-07-12T13:36:20,269 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-07-12T13:36:20,269 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-07-12T13:36:20,270 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,476 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-07-12T13:36:20,477 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:20,477 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-07-12T13:36:20,477 | ^~ ~~~~~~~~~ 2024-07-12T13:36:20,478 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-07-12T13:36:20,478 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-07-12T13:36:20,478 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,478 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,479 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-07-12T13:36:20,479 | ^~~~~~~~~~~~~~~ 2024-07-12T13:36:20,479 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-07-12T13:36:20,479 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-07-12T13:36:20,479 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,480 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,480 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-07-12T13:36:20,480 | ^~~~~~~~~~~~~ 2024-07-12T13:36:20,480 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-07-12T13:36:20,480 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-07-12T13:36:20,480 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,481 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:20,482 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-07-12T13:36:20,482 | ^ 2024-07-12T13:36:20,482 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2024-07-12T13:36:20,482 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-07-12T13:36:20,482 | ^~~~~~~~~~ 2024-07-12T13:36:20,483 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-07-12T13:36:20,483 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-07-12T13:36:20,483 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,483 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:20,483 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-07-12T13:36:20,483 | ^ 2024-07-12T13:36:20,484 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2024-07-12T13:36:20,484 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-07-12T13:36:20,484 | ^~~~~~~~~~ 2024-07-12T13:36:20,484 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-07-12T13:36:20,484 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-07-12T13:36:20,485 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,722 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-07-12T13:36:20,723 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:20,723 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-07-12T13:36:20,723 | ^~ ~~~~~~~~~ 2024-07-12T13:36:20,724 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-07-12T13:36:20,724 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-07-12T13:36:20,724 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,725 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,725 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-07-12T13:36:20,725 | ^~~~~~~~~~~~~~~ 2024-07-12T13:36:20,725 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-07-12T13:36:20,726 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-07-12T13:36:20,726 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,726 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,726 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-07-12T13:36:20,727 | ^~~~~~~~~~~~~ 2024-07-12T13:36:20,727 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-07-12T13:36:20,727 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-07-12T13:36:20,727 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,728 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,729 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-07-12T13:36:20,729 | ^~~~~~~~~~~ 2024-07-12T13:36:20,729 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-07-12T13:36:20,729 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-07-12T13:36:20,729 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,730 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-07-12T13:36:20,730 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-07-12T13:36:20,730 | ^~~~~ 2024-07-12T13:36:20,730 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-07-12T13:36:20,731 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-07-12T13:36:20,731 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,978 command_dist.c: In function ‘combine_queries’: 2024-07-12T13:36:20,978 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:20,979 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-07-12T13:36:20,979 | ^ 2024-07-12T13:36:20,979 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:20,980 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-07-12T13:36:20,980 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,981 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:20,981 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-07-12T13:36:20,981 | ^ 2024-07-12T13:36:20,982 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:20,982 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-07-12T13:36:20,982 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:20,984 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:20,984 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-07-12T13:36:20,984 | ^~ ~~~~~~~~ 2024-07-12T13:36:20,985 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-07-12T13:36:20,985 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-07-12T13:36:20,985 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:21,455 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-39/command_dist_wrapper.o -fopenmp 2024-07-12T13:36:21,623 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_set.c -o build/temp.linux-armv7l-cpython-39/command_set.o -fopenmp 2024-07-12T13:36:21,774 command_set.c: In function ‘sketch_operate’: 2024-07-12T13:36:21,774 command_set.c:179:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-07-12T13:36:21,774 179 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2024-07-12T13:36:21,775 | ^ 2024-07-12T13:36:21,784 command_set.c: In function ‘combin_subset_pans’: 2024-07-12T13:36:21,784 command_set.c:458:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-07-12T13:36:21,784 458 | free(co_dstat_fpath); 2024-07-12T13:36:21,784 | ^~~~~~~~~~~~~~ 2024-07-12T13:36:21,785 In file included from kssdheaders/global_basic.h:159, 2024-07-12T13:36:21,785 from command_set.c:15: 2024-07-12T13:36:21,785 /usr/include/stdlib.h:565:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-07-12T13:36:21,785 565 | extern void free (void *__ptr) __THROW; 2024-07-12T13:36:21,785 | ~~~~~~^~~~~ 2024-07-12T13:36:21,789 command_set.c: In function ‘grouping_genomes’: 2024-07-12T13:36:21,789 command_set.c:563:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-07-12T13:36:21,789 563 | free(co_dstat_fpath); 2024-07-12T13:36:21,790 | ^~~~~~~~~~~~~~ 2024-07-12T13:36:21,790 In file included from kssdheaders/global_basic.h:159, 2024-07-12T13:36:21,790 from command_set.c:15: 2024-07-12T13:36:21,790 /usr/include/stdlib.h:565:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-07-12T13:36:21,790 565 | extern void free (void *__ptr) __THROW; 2024-07-12T13:36:21,790 | ~~~~~~^~~~~ 2024-07-12T13:36:21,905 command_set.c: In function ‘sketch_union’: 2024-07-12T13:36:21,906 command_set.c:72:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:21,906 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:21,906 | ^ 2024-07-12T13:36:21,906 command_set.c:72:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:21,906 72 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:21,906 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:21,906 command_set.c:83:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:21,907 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-07-12T13:36:21,907 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:21,907 command_set.c:83:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:21,907 83 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-07-12T13:36:21,907 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:21,907 command_set.c:93:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:21,907 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-07-12T13:36:21,908 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:21,908 command_set.c:93:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-07-12T13:36:21,908 93 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-07-12T13:36:21,908 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,019 command_set.c: In function ‘sketch_operate’: 2024-07-12T13:36:22,019 command_set.c:154:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,020 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-07-12T13:36:22,020 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:22,020 command_set.c:154:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-07-12T13:36:22,020 154 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-07-12T13:36:22,020 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,020 command_set.c:156:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,020 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-07-12T13:36:22,021 | ^~ ~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,021 command_set.c:156:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-07-12T13:36:22,021 156 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-07-12T13:36:22,021 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,021 command_set.c:166:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,021 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-07-12T13:36:22,021 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,022 command_set.c:166:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-07-12T13:36:22,022 166 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-07-12T13:36:22,022 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,022 command_set.c:170:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,022 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-07-12T13:36:22,022 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,022 command_set.c:170:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,023 170 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-07-12T13:36:22,023 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,023 command_set.c:175:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,023 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-07-12T13:36:22,023 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,023 command_set.c:175:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,023 175 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-07-12T13:36:22,023 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,024 command_set.c:188:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,024 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-07-12T13:36:22,024 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,024 command_set.c:188:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-07-12T13:36:22,024 188 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-07-12T13:36:22,024 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,024 command_set.c:193:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:22,024 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,025 | ^ 2024-07-12T13:36:22,025 command_set.c:193:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:22,025 193 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,025 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,172 command_set.c: In function ‘uniq_sketch_union’: 2024-07-12T13:36:22,172 command_set.c:235:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:22,172 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,172 | ^ 2024-07-12T13:36:22,172 command_set.c:235:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:22,173 235 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,173 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,173 command_set.c:248:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,173 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-07-12T13:36:22,173 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,173 command_set.c:248:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,173 248 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-07-12T13:36:22,174 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,174 command_set.c:260:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,174 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-07-12T13:36:22,174 | ^~ ~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,174 command_set.c:260:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-07-12T13:36:22,174 260 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-07-12T13:36:22,174 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,299 command_set.c: In function ‘combin_pans’: 2024-07-12T13:36:22,300 command_set.c:298:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,300 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,300 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,300 command_set.c:298:25: note: directive argument in the range [0, 1073741823] 2024-07-12T13:36:22,300 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,300 | ^~~~~~~~~~ 2024-07-12T13:36:22,300 command_set.c:298:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2024-07-12T13:36:22,301 298 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,301 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,301 command_set.c:301:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,301 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,301 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:22,302 command_set.c:301:25: note: directive argument in the range [0, 1073741823] 2024-07-12T13:36:22,302 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,302 | ^~~~~~~~~~ 2024-07-12T13:36:22,302 command_set.c:301:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2024-07-12T13:36:22,302 301 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,302 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,303 command_set.c:343:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:22,303 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,303 | ^ 2024-07-12T13:36:22,303 command_set.c:343:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:22,303 343 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,303 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,486 command_set.c: In function ‘combin_subset_pans’: 2024-07-12T13:36:22,486 command_set.c:470:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,486 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-07-12T13:36:22,486 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,486 command_set.c:470:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,487 470 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-07-12T13:36:22,487 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,487 command_set.c:476:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,487 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-07-12T13:36:22,487 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:22,487 command_set.c:476:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-07-12T13:36:22,487 476 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-07-12T13:36:22,487 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,488 command_set.c:482:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,488 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,488 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,488 command_set.c:482:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,488 482 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,488 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,490 command_set.c:513:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,490 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,490 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:22,490 command_set.c:513:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-07-12T13:36:22,490 513 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,490 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,491 command_set.c:524:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:22,491 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,491 | ^ 2024-07-12T13:36:22,491 command_set.c:524:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:22,491 524 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,491 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,693 command_set.c: In function ‘grouping_genomes’: 2024-07-12T13:36:22,694 command_set.c:575:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,694 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-07-12T13:36:22,694 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,694 command_set.c:575:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,694 575 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-07-12T13:36:22,695 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,695 command_set.c:581:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,695 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-07-12T13:36:22,695 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:22,695 command_set.c:581:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-07-12T13:36:22,695 581 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-07-12T13:36:22,696 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,697 command_set.c:613:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,697 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,697 | ^~ ~~~~~~~~~~~ 2024-07-12T13:36:22,698 command_set.c:613:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-07-12T13:36:22,698 613 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-07-12T13:36:22,698 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,699 command_set.c:635:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-07-12T13:36:22,699 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,699 | ^~ ~~~~~~~~~~ 2024-07-12T13:36:22,699 command_set.c:635:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-07-12T13:36:22,699 635 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-07-12T13:36:22,699 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,700 command_set.c:646:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-07-12T13:36:22,700 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,700 | ^ 2024-07-12T13:36:22,700 command_set.c:646:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-07-12T13:36:22,700 646 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-07-12T13:36:22,700 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:22,971 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-39/command_shuffle.o -fopenmp 2024-07-12T13:36:23,248 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c global_basic.c -o build/temp.linux-armv7l-cpython-39/global_basic.o -fopenmp 2024-07-12T13:36:23,392 global_basic.c: In function ‘organize_infile_list’: 2024-07-12T13:36:23,393 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2024-07-12T13:36:23,393 195 | while (isspace(*buf)) buf++; 2024-07-12T13:36:23,393 | ^~~~~~~ 2024-07-12T13:36:23,393 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=] 2024-07-12T13:36:23,393 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-07-12T13:36:23,394 | ~~^ 2024-07-12T13:36:23,394 | | 2024-07-12T13:36:23,394 | long unsigned int 2024-07-12T13:36:23,394 | %u 2024-07-12T13:36:23,394 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-07-12T13:36:23,394 | ~~~~~~~~~~~ 2024-07-12T13:36:23,394 | | 2024-07-12T13:36:23,395 | size_t {aka unsigned int} 2024-07-12T13:36:23,395 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=] 2024-07-12T13:36:23,395 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-07-12T13:36:23,395 | ~~^ 2024-07-12T13:36:23,395 | | 2024-07-12T13:36:23,395 | long unsigned int 2024-07-12T13:36:23,396 | %u 2024-07-12T13:36:23,396 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-07-12T13:36:23,396 | ~~~~~~~~~~~ 2024-07-12T13:36:23,396 | | 2024-07-12T13:36:23,396 | size_t {aka unsigned int} 2024-07-12T13:36:24,098 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c iseq2comem.c -o build/temp.linux-armv7l-cpython-39/iseq2comem.o -fopenmp 2024-07-12T13:36:24,250 iseq2comem.c: In function ‘reads2mco’: 2024-07-12T13:36:24,250 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,250 156 | if (base > TL) { 2024-07-12T13:36:24,251 | ^ 2024-07-12T13:36:24,251 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,252 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,252 | ^~ 2024-07-12T13:36:24,252 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,252 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,252 | ^ 2024-07-12T13:36:24,254 iseq2comem.c: In function ‘fasta2co’: 2024-07-12T13:36:24,255 iseq2comem.c:239:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,255 239 | if (base > TL) { 2024-07-12T13:36:24,255 | ^ 2024-07-12T13:36:24,256 iseq2comem.c:243:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,256 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,256 | ^~ 2024-07-12T13:36:24,256 iseq2comem.c:243:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,256 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,256 | ^ 2024-07-12T13:36:24,257 iseq2comem.c: In function ‘fastq2co’: 2024-07-12T13:36:24,258 iseq2comem.c:272:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2024-07-12T13:36:24,258 272 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2024-07-12T13:36:24,258 | ^~ 2024-07-12T13:36:24,260 iseq2comem.c:318:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,260 318 | if (base > TL) { 2024-07-12T13:36:24,260 | ^ 2024-07-12T13:36:24,261 iseq2comem.c:322:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,261 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,261 | ^~ 2024-07-12T13:36:24,261 iseq2comem.c:322:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,262 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,262 | ^ 2024-07-12T13:36:24,263 iseq2comem.c:341:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,263 341 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2024-07-12T13:36:24,263 | ^ 2024-07-12T13:36:24,265 iseq2comem.c: In function ‘fastq2koc’: 2024-07-12T13:36:24,265 iseq2comem.c:402:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,266 402 | if (base > TL) { 2024-07-12T13:36:24,266 | ^ 2024-07-12T13:36:24,266 iseq2comem.c:406:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,266 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,267 | ^~ 2024-07-12T13:36:24,267 iseq2comem.c:406:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,267 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,267 | ^ 2024-07-12T13:36:24,273 iseq2comem.c: In function ‘mt_shortreads2koc’: 2024-07-12T13:36:24,274 iseq2comem.c:582:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,274 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,274 | ^~ 2024-07-12T13:36:24,275 iseq2comem.c:582:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:24,275 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-07-12T13:36:24,275 | ^ 2024-07-12T13:36:25,442 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c mman.c -o build/temp.linux-armv7l-cpython-39/mman.o -fopenmp 2024-07-12T13:36:25,506 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c mytime.c -o build/temp.linux-armv7l-cpython-39/mytime.o -fopenmp 2024-07-12T13:36:25,629 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c pykssd.c -o build/temp.linux-armv7l-cpython-39/pykssd.o -fopenmp 2024-07-12T13:36:25,949 pykssd.c: In function ‘py_dist_dispatch’: 2024-07-12T13:36:25,949 pykssd.c:304:13: warning: unused variable ‘state1’ [-Wunused-variable] 2024-07-12T13:36:25,949 304 | int state1 = dist_dispatch(&dist_opt_val1); 2024-07-12T13:36:25,949 | ^~~~~~ 2024-07-12T13:36:25,950 pykssd.c:361:13: warning: unused variable ‘state2’ [-Wunused-variable] 2024-07-12T13:36:25,951 361 | int state2 = dist_dispatch(&dist_opt_val2); 2024-07-12T13:36:25,951 | ^~~~~~ 2024-07-12T13:36:25,952 pykssd.c:480:13: warning: unused variable ‘state4’ [-Wunused-variable] 2024-07-12T13:36:25,952 480 | int state4 = dist_dispatch(&dist_opt_val4); 2024-07-12T13:36:25,953 | ^~~~~~ 2024-07-12T13:36:26,090 pykssd.c: In function ‘rename_file’: 2024-07-12T13:36:26,091 pykssd.c:44:15: warning: ‘strncpy’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2024-07-12T13:36:26,091 44 | newfile = strncpy(newfile, p1, len - suffix_len); 2024-07-12T13:36:26,091 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-07-12T13:36:26,091 pykssd.c:41:15: note: length computed here 2024-07-12T13:36:26,091 41 | int len = strlen(p1); 2024-07-12T13:36:26,091 | ^~~~~~~~~~ 2024-07-12T13:36:26,455 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/co2mco.o build/temp.linux-armv7l-cpython-39/command_composite.o build/temp.linux-armv7l-cpython-39/command_dist.o build/temp.linux-armv7l-cpython-39/command_dist_wrapper.o build/temp.linux-armv7l-cpython-39/command_set.o build/temp.linux-armv7l-cpython-39/command_shuffle.o build/temp.linux-armv7l-cpython-39/global_basic.o build/temp.linux-armv7l-cpython-39/iseq2comem.o build/temp.linux-armv7l-cpython-39/mman.o build/temp.linux-armv7l-cpython-39/mytime.o build/temp.linux-armv7l-cpython-39/pykssd.o -L/usr/lib -lz -o build/lib.linux-armv7l-cpython-39/kssd.cpython-39-arm-linux-gnueabihf.so -fopenmp 2024-07-12T13:36:26,617 building 'nj' extension 2024-07-12T13:36:26,618 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c align.c -o build/temp.linux-armv7l-cpython-39/align.o 2024-07-12T13:36:27,024 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c buildtree.c -o build/temp.linux-armv7l-cpython-39/buildtree.o 2024-07-12T13:36:27,197 buildtree.c: In function ‘UPGMA_buildtree’: 2024-07-12T13:36:27,197 buildtree.c:716:26: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:27,198 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2024-07-12T13:36:27,198 | ^~ 2024-07-12T13:36:27,198 buildtree.c:716:55: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:27,198 716 | if (min_of_row_idx[m] == minj || min_of_row_idx[m] == mini) { 2024-07-12T13:36:27,198 | ^~ 2024-07-12T13:36:27,782 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c cluster.c -o build/temp.linux-armv7l-cpython-39/cluster.o 2024-07-12T13:36:28,105 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c distancemat.c -o build/temp.linux-armv7l-cpython-39/distancemat.o 2024-07-12T13:36:28,223 distancemat.c: In function ‘clone_DistanceMatrix’: 2024-07-12T13:36:28,223 distancemat.c:226:17: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:28,223 226 | for( i=0; i < dest->size; i++) { 2024-07-12T13:36:28,224 | ^ 2024-07-12T13:36:28,224 distancemat.c: In function ‘empty_DistanceMatrix’: 2024-07-12T13:36:28,224 distancemat.c:260:15: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:28,224 260 | for( i=0; i < mat->size; i++) { 2024-07-12T13:36:28,224 | ^ 2024-07-12T13:36:28,224 distancemat.c: In function ‘print_DistanceMatrix’: 2024-07-12T13:36:28,225 distancemat.c:349:18: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:28,225 349 | for(row=0; row < mat->size; row++) { 2024-07-12T13:36:28,225 | ^ 2024-07-12T13:36:28,225 distancemat.c: In function ‘read_phylip_DistanceMatrix’: 2024-07-12T13:36:28,226 distancemat.c:410:11: warning: suggest parentheses around assignment used as truth value [-Wparentheses] 2024-07-12T13:36:28,226 410 | while(c = fgetc(handle)) { 2024-07-12T13:36:28,226 | ^ 2024-07-12T13:36:28,561 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c pynj.c -o build/temp.linux-armv7l-cpython-39/pynj.o 2024-07-12T13:36:28,933 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c sequence.c -o build/temp.linux-armv7l-cpython-39/sequence.o 2024-07-12T13:36:29,126 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c tree.c -o build/temp.linux-armv7l-cpython-39/tree.o 2024-07-12T13:36:29,858 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Injheaders -I/usr/include/python3.9 -c util.c -o build/temp.linux-armv7l-cpython-39/util.o 2024-07-12T13:36:30,024 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/align.o build/temp.linux-armv7l-cpython-39/buildtree.o build/temp.linux-armv7l-cpython-39/cluster.o build/temp.linux-armv7l-cpython-39/distancemat.o build/temp.linux-armv7l-cpython-39/pynj.o build/temp.linux-armv7l-cpython-39/sequence.o build/temp.linux-armv7l-cpython-39/tree.o build/temp.linux-armv7l-cpython-39/util.o -L/usr/lib -o build/lib.linux-armv7l-cpython-39/nj.cpython-39-arm-linux-gnueabihf.so 2024-07-12T13:36:30,136 building 'dnj' extension 2024-07-12T13:36:30,138 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c bytescale.c -o build/temp.linux-armv7l-cpython-39/bytescale.o -fopenmp 2024-07-12T13:36:30,203 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c dnj.c -o build/temp.linux-armv7l-cpython-39/dnj.o -fopenmp 2024-07-12T13:36:30,322 dnj.c: In function ‘minQpair’: 2024-07-12T13:36:30,322 dnj.c:70:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,323 70 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,323 | ^~~ 2024-07-12T13:36:30,324 dnj.c:126:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,324 126 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,324 | ^~~ 2024-07-12T13:36:30,325 dnj.c: In function ‘maxQpair’: 2024-07-12T13:36:30,325 dnj.c:157:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,325 157 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,326 | ^~~ 2024-07-12T13:36:30,327 dnj.c:213:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,327 213 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,327 | ^~~ 2024-07-12T13:36:30,328 dnj.c: In function ‘UPGMApair’: 2024-07-12T13:36:30,328 dnj.c:237:13: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,328 237 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,328 | ^~~ 2024-07-12T13:36:30,329 dnj.c:284:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,330 284 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,330 | ^~~ 2024-07-12T13:36:30,330 dnj.c:291:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,330 291 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,330 | ^~~ 2024-07-12T13:36:30,332 dnj.c: In function ‘minQrow’: 2024-07-12T13:36:30,332 dnj.c:374:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,332 374 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,333 | ^~~ 2024-07-12T13:36:30,334 dnj.c: In function ‘maxQrow’: 2024-07-12T13:36:30,334 dnj.c:435:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,335 435 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,335 | ^~~ 2024-07-12T13:36:30,336 dnj.c: In function ‘UPGMArow’: 2024-07-12T13:36:30,336 dnj.c:488:21: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,336 488 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,337 | ^~~ 2024-07-12T13:36:30,337 dnj.c:494:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,337 494 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,337 | ^~~ 2024-07-12T13:36:30,339 dnj.c: In function ‘minQ_thread’: 2024-07-12T13:36:30,339 dnj.c:553:17: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:30,339 553 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:30,340 | ^~~ 2024-07-12T13:36:31,503 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c filebuff.c -o build/temp.linux-armv7l-cpython-39/filebuff.o -fopenmp 2024-07-12T13:36:31,618 filebuff.c: In function ‘BuffgzFileBuff’: 2024-07-12T13:36:31,618 filebuff.c:99:47: warning: comparison of integer expressions of different signedness: ‘uInt’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:31,619 99 | if(status == Z_STREAM_END && strm->avail_out == dest->buffSize) { 2024-07-12T13:36:31,619 | ^~ 2024-07-12T13:36:31,903 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c hclust.c -o build/temp.linux-armv7l-cpython-39/hclust.o -fopenmp 2024-07-12T13:36:32,025 hclust.c: In function ‘minQ’: 2024-07-12T13:36:32,025 hclust.c:364:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:32,026 364 | while(++i < Q->n) { 2024-07-12T13:36:32,026 | ^ 2024-07-12T13:36:32,026 hclust.c:377:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:32,026 377 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:32,026 | ^~~ 2024-07-12T13:36:32,026 hclust.c: In function ‘maxQ’: 2024-07-12T13:36:32,027 hclust.c:394:12: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-07-12T13:36:32,027 394 | while(++i < Q->n) { 2024-07-12T13:36:32,027 | ^ 2024-07-12T13:36:32,027 hclust.c:407:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:32,027 407 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:32,027 | ^~~ 2024-07-12T13:36:34,048 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c matrix.c -o build/temp.linux-armv7l-cpython-39/matrix.o -fopenmp 2024-07-12T13:36:34,168 matrix.c: In function ‘ltdMatrix_popArrange’: 2024-07-12T13:36:34,168 matrix.c:538:9: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-07-12T13:36:34,168 538 | if(pos != n) { 2024-07-12T13:36:34,168 | ^~ 2024-07-12T13:36:34,915 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c mman.c -o build/temp.linux-armv7l-cpython-39/mman.o -fopenmp 2024-07-12T13:36:34,976 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c nj.c -o build/temp.linux-armv7l-cpython-39/nj.o -fopenmp 2024-07-12T13:36:35,093 nj.c: In function ‘initQ’: 2024-07-12T13:36:35,094 nj.c:243:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:35,094 243 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:35,094 | ^~~ 2024-07-12T13:36:35,095 nj.c: In function ‘initQ_MN’: 2024-07-12T13:36:35,096 nj.c:358:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:35,096 358 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:35,096 | ^~~ 2024-07-12T13:36:35,099 nj.c: In function ‘minD’: 2024-07-12T13:36:35,099 nj.c:559:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:35,099 559 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:35,099 | ^~~ 2024-07-12T13:36:35,101 nj.c: In function ‘maxD’: 2024-07-12T13:36:35,101 nj.c:642:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:35,101 642 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:35,101 | ^~~ 2024-07-12T13:36:35,104 nj.c: In function ‘minPair’: 2024-07-12T13:36:35,105 nj.c:826:6: warning: left shift count >= width of type [-Wshift-count-overflow] 2024-07-12T13:36:35,105 826 | pos <<= sizeof(unsigned) * 8; 2024-07-12T13:36:35,105 | ^~~ 2024-07-12T13:36:37,120 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c nwck.c -o build/temp.linux-armv7l-cpython-39/nwck.o -fopenmp 2024-07-12T13:36:37,588 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c pherror.c -o build/temp.linux-armv7l-cpython-39/pherror.o -fopenmp 2024-07-12T13:36:37,674 pherror.c: In function ‘cfread’: 2024-07-12T13:36:37,675 pherror.c:58:35: warning: comparison of integer expressions of different signedness: ‘size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2024-07-12T13:36:37,675 58 | } else if(nmemb == 0 || (nmemb == -1 && (errno & EAGAIN))) { 2024-07-12T13:36:37,675 | ^~ 2024-07-12T13:36:37,766 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c phy.c -o build/temp.linux-armv7l-cpython-39/phy.o -fopenmp 2024-07-12T13:36:38,685 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c pydnj.c -o build/temp.linux-armv7l-cpython-39/pydnj.o -fopenmp 2024-07-12T13:36:38,991 In file included from pydnj.c:11: 2024-07-12T13:36:38,992 dnjheaders/pherror.h:20: warning: "_XOPEN_SOURCE" redefined 2024-07-12T13:36:38,992 20 | #define _XOPEN_SOURCE 600 2024-07-12T13:36:38,992 | 2024-07-12T13:36:38,992 In file included from /usr/include/arm-linux-gnueabihf/bits/libc-header-start.h:33, 2024-07-12T13:36:38,993 from /usr/include/limits.h:26, 2024-07-12T13:36:38,993 from /usr/lib/gcc/arm-linux-gnueabihf/10/include/limits.h:195, 2024-07-12T13:36:38,993 from /usr/lib/gcc/arm-linux-gnueabihf/10/include/syslimits.h:7, 2024-07-12T13:36:38,993 from /usr/lib/gcc/arm-linux-gnueabihf/10/include/limits.h:34, 2024-07-12T13:36:38,993 from /usr/include/python3.9/Python.h:11, 2024-07-12T13:36:38,993 from pydnj.c:1: 2024-07-12T13:36:38,994 /usr/include/features.h:207: note: this is the location of the previous definition 2024-07-12T13:36:38,994 207 | # define _XOPEN_SOURCE 700 2024-07-12T13:36:38,994 | 2024-07-12T13:36:39,006 pydnj.c: In function ‘py_build’: 2024-07-12T13:36:39,007 pydnj.c:165:9: warning: implicit declaration of function ‘omp_get_num_procs’ [-Wimplicit-function-declaration] 2024-07-12T13:36:39,007 165 | p = omp_get_num_procs(); 2024-07-12T13:36:39,007 | ^~~~~~~~~~~~~~~~~ 2024-07-12T13:36:39,198 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c qseqs.c -o build/temp.linux-armv7l-cpython-39/qseqs.o -fopenmp 2024-07-12T13:36:39,384 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c str.c -o build/temp.linux-armv7l-cpython-39/str.o -fopenmp 2024-07-12T13:36:39,493 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c tmp.c -o build/temp.linux-armv7l-cpython-39/tmp.o -fopenmp 2024-07-12T13:36:39,680 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Idnjheaders -I/usr/include/python3.9 -c vector.c -o build/temp.linux-armv7l-cpython-39/vector.o -fopenmp 2024-07-12T13:36:39,838 arm-linux-gnueabihf-gcc -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 build/temp.linux-armv7l-cpython-39/bytescale.o build/temp.linux-armv7l-cpython-39/dnj.o build/temp.linux-armv7l-cpython-39/filebuff.o build/temp.linux-armv7l-cpython-39/hclust.o build/temp.linux-armv7l-cpython-39/matrix.o build/temp.linux-armv7l-cpython-39/mman.o build/temp.linux-armv7l-cpython-39/nj.o build/temp.linux-armv7l-cpython-39/nwck.o build/temp.linux-armv7l-cpython-39/pherror.o build/temp.linux-armv7l-cpython-39/phy.o build/temp.linux-armv7l-cpython-39/pydnj.o build/temp.linux-armv7l-cpython-39/qseqs.o build/temp.linux-armv7l-cpython-39/str.o build/temp.linux-armv7l-cpython-39/tmp.o build/temp.linux-armv7l-cpython-39/vector.o -L/usr/lib -lz -o build/lib.linux-armv7l-cpython-39/dnj.cpython-39-arm-linux-gnueabihf.so -fopenmp 2024-07-12T13:36:40,011 /usr/local/lib/python3.9/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-07-12T13:36:40,011 !! 2024-07-12T13:36:40,012 ******************************************************************************** 2024-07-12T13:36:40,012 Please avoid running ``setup.py`` directly. 2024-07-12T13:36:40,012 Instead, use pypa/build, pypa/installer or other 2024-07-12T13:36:40,012 standards-based tools. 2024-07-12T13:36:40,012 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-07-12T13:36:40,012 ******************************************************************************** 2024-07-12T13:36:40,013 !! 2024-07-12T13:36:40,013 self.initialize_options() 2024-07-12T13:36:40,036 installing to build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,036 running install 2024-07-12T13:36:40,061 running install_lib 2024-07-12T13:36:40,086 creating build/bdist.linux-armv7l 2024-07-12T13:36:40,086 creating build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,087 copying build/lib.linux-armv7l-cpython-39/toolutils.py -> build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,090 copying build/lib.linux-armv7l-cpython-39/nj.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,095 copying build/lib.linux-armv7l-cpython-39/dnj.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,108 copying build/lib.linux-armv7l-cpython-39/kssdtree.py -> build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,112 copying build/lib.linux-armv7l-cpython-39/kssd.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,134 running install_egg_info 2024-07-12T13:36:40,180 Copying kssdtree.egg-info to build/bdist.linux-armv7l/wheel/kssdtree-2.0.0-py3.9.egg-info 2024-07-12T13:36:40,196 running install_scripts 2024-07-12T13:36:40,217 creating build/bdist.linux-armv7l/wheel/kssdtree-2.0.0.dist-info/WHEEL 2024-07-12T13:36:40,219 creating '/tmp/pip-wheel-2tkzgv_n/kssdtree-2.0.0-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-07-12T13:36:40,298 adding 'dnj.cpython-39-arm-linux-gnueabihf.so' 2024-07-12T13:36:40,394 adding 'kssd.cpython-39-arm-linux-gnueabihf.so' 2024-07-12T13:36:40,399 adding 'kssdtree.py' 2024-07-12T13:36:40,421 adding 'nj.cpython-39-arm-linux-gnueabihf.so' 2024-07-12T13:36:40,424 adding 'toolutils.py' 2024-07-12T13:36:40,426 adding 'kssdtree-2.0.0.dist-info/METADATA' 2024-07-12T13:36:40,427 adding 'kssdtree-2.0.0.dist-info/WHEEL' 2024-07-12T13:36:40,428 adding 'kssdtree-2.0.0.dist-info/dependency_links.txt' 2024-07-12T13:36:40,429 adding 'kssdtree-2.0.0.dist-info/top_level.txt' 2024-07-12T13:36:40,429 adding 'kssdtree-2.0.0.dist-info/RECORD' 2024-07-12T13:36:40,436 removing build/bdist.linux-armv7l/wheel 2024-07-12T13:36:40,575 Building wheel for kssdtree (setup.py): finished with status 'done' 2024-07-12T13:36:40,582 Created wheel for kssdtree: filename=kssdtree-2.0.0-cp39-cp39-linux_armv7l.whl size=375932 sha256=131de046d905a575216e4344f66d988df06c39a828f970e791ab2dd8ce7c204c 2024-07-12T13:36:40,583 Stored in directory: /tmp/pip-ephem-wheel-cache-5x6erqj5/wheels/01/2c/77/c3ac8f8301a5621331f58dd1ed4d0c9b55c8c91a0288992f12 2024-07-12T13:36:40,593 Successfully built kssdtree 2024-07-12T13:36:40,610 Removed build tracker: '/tmp/pip-build-tracker-uq70wtrk'