2026-03-05T19:29:33,972 Created temporary directory: /tmp/pip-ephem-wheel-cache-8oopd7dh 2026-03-05T19:29:33,978 Created temporary directory: /tmp/pip-req-tracker-nsoumcgd 2026-03-05T19:29:33,979 Initialized build tracking at /tmp/pip-req-tracker-nsoumcgd 2026-03-05T19:29:33,979 Created build tracker: /tmp/pip-req-tracker-nsoumcgd 2026-03-05T19:29:33,979 Entered build tracker: /tmp/pip-req-tracker-nsoumcgd 2026-03-05T19:29:33,981 Created temporary directory: /tmp/pip-wheel-n333n9s3 2026-03-05T19:29:34,026 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple, https://www.piwheels.org/simple 2026-03-05T19:29:34,030 2 location(s) to search for versions of kssdutils: 2026-03-05T19:29:34,030 * https://pypi.org/simple/kssdutils/ 2026-03-05T19:29:34,030 * https://www.piwheels.org/simple/kssdutils/ 2026-03-05T19:29:34,031 Fetching project page and analyzing links: https://pypi.org/simple/kssdutils/ 2026-03-05T19:29:34,032 Getting page https://pypi.org/simple/kssdutils/ 2026-03-05T19:29:34,035 Found index url https://pypi.org/simple 2026-03-05T19:29:34,045 Starting new HTTPS connection (1): pypi.org:443 2026-03-05T19:29:34,140 https://pypi.org:443 "GET /simple/kssdutils/ HTTP/1.1" 200 1617 2026-03-05T19:29:34,316 Found link https://files.pythonhosted.org/packages/61/ef/1bdb91b53dbe31ea0be28ab2c2292994b6228b357a8d54b69ac642f81f01/kssdutils-1.0.0.tar.gz#sha256=8d679d5f963a767a4df5ded96f9aa2cd10524d23f7d418797ae62baaca759e1f (from https://pypi.org/simple/kssdutils/), version: 1.0.0 2026-03-05T19:29:34,317 Found link https://files.pythonhosted.org/packages/6f/f6/cc67acf92ea770b5f6a8bd97d375432881861935beafe9ebd4031a73482c/kssdutils-1.0.1.tar.gz#sha256=cc08f86ac8152ac9a7f506f8d2f4808dca0754cebd06565f3de1cb7e639a310c (from https://pypi.org/simple/kssdutils/), version: 1.0.1 2026-03-05T19:29:34,318 Found link https://files.pythonhosted.org/packages/57/17/dd41697db7220423d0ab77f9f035b9a347edc1edefc2c35d9890178cbe17/kssdutils-1.0.2.tar.gz#sha256=384edc154817d0cbea825d78f0d58bee3fbe1811532e1f8ea77b8b7cb1e7fc84 (from https://pypi.org/simple/kssdutils/), version: 1.0.2 2026-03-05T19:29:34,319 Found link https://files.pythonhosted.org/packages/3e/92/7a94130bd54e0e3dd20c1a609aef2f24875b86e9d61752f63b500d3f86f5/kssdutils-1.0.3.tar.gz#sha256=412ff6a0cfd2bd03e01e83c8cb7cb663679b530682d69aad8733e696d8a2fae7 (from https://pypi.org/simple/kssdutils/), version: 1.0.3 2026-03-05T19:29:34,319 Found link https://files.pythonhosted.org/packages/42/01/15ec102f7ac6b4fc3158ba60de64598a005cefffc773fa69eecbd3c9b016/kssdutils-1.0.5.tar.gz#sha256=34a917037f0205223ec2e2b6a87da9381a3c5224a109a2ca92f010b72824f284 (from https://pypi.org/simple/kssdutils/), version: 1.0.5 2026-03-05T19:29:34,320 Found link https://files.pythonhosted.org/packages/aa/08/08fa5f76478fd3dbe9534ad21332b5dc03826197935c2b696e189af49f0b/kssdutils-1.0.6.tar.gz#sha256=9e8e97befc6bcdf3bc904d558ac9e6a0bddf4458096aaaa5f0ef1ab344223ed5 (from https://pypi.org/simple/kssdutils/), version: 1.0.6 2026-03-05T19:29:34,321 Found link https://files.pythonhosted.org/packages/78/17/7776b7c3b149fedfb0fba98bce07fdf08cb53773dafa174f7fda9ce4df55/kssdutils-1.0.7.tar.gz#sha256=f5862cfef7ea29d8c668475cdedf83af1b6c352d24827694a07af0fc82597032 (from https://pypi.org/simple/kssdutils/), version: 1.0.7 2026-03-05T19:29:34,322 Found link https://files.pythonhosted.org/packages/a7/50/138f2b5f98dcd2327609362e505af19857468da67dba88eaf6c8d8fdb83a/kssdutils-1.1.0.tar.gz#sha256=07328ca56be9994670fea19e700d7c9b8f67c317bc8731c48939dd54e1cba32e (from https://pypi.org/simple/kssdutils/), version: 1.1.0 2026-03-05T19:29:34,322 Found link https://files.pythonhosted.org/packages/be/be/659d775f3dd37e727d782fa46b7b665e69a59c78312fa5fc1bad8640f980/kssdutils-1.1.2.tar.gz#sha256=f004a475c18f6a22a770cd9f6dd981521f2817c11b8f848aad411d59127df50d (from https://pypi.org/simple/kssdutils/), version: 1.1.2 2026-03-05T19:29:34,323 Found link https://files.pythonhosted.org/packages/d0/e9/badb25888a9e48aa82e2389e848aff81ae6affd17af96622974dc314ae52/kssdutils-1.1.3.tar.gz#sha256=50dd2c513e94169e8fff9f28ff60e4bc059f409b49c3cff387d3ef49564f3c82 (from https://pypi.org/simple/kssdutils/), version: 1.1.3 2026-03-05T19:29:34,324 Found link https://files.pythonhosted.org/packages/b3/43/18e812a7529c356cfa20627f201f1956e4b8203e1db782861ad6e5900bf8/kssdutils-1.1.4.tar.gz#sha256=4f833f05e3fbed227f6cba1b2db89b12a0dbe7fc4634fa9c89c20446c3efab1b (from https://pypi.org/simple/kssdutils/), version: 1.1.4 2026-03-05T19:29:34,325 Found link https://files.pythonhosted.org/packages/98/8c/0eb4850f10a9da51072d7be474ecffd0f808423f21838f543dc88db7ddd2/kssdutils-1.1.5.tar.gz#sha256=416f323a70d8f556b186cc63e8f0b2e4b0b2ce9d3d7f716e04bb2a3f7d08e86c (from https://pypi.org/simple/kssdutils/), version: 1.1.5 2026-03-05T19:29:34,325 Found link https://files.pythonhosted.org/packages/c3/44/c52bfc36ee73ebbc978099403a176e76446f23b1691c9df71bd38bbe6430/kssdutils-1.1.7.tar.gz#sha256=837148a9c069b8be1673edc80e4e380e956ed68df704095b6718e9ed927db051 (from https://pypi.org/simple/kssdutils/), version: 1.1.7 2026-03-05T19:29:34,326 Found link https://files.pythonhosted.org/packages/a8/d7/8426d81d46965dcb35320a45f5b457453be5160b18551902b31860952f69/kssdutils-1.1.8.tar.gz#sha256=54608ccc25c64db2983ef65844a7932bc6d8cc53afd1370ca8073409d488df2e (from https://pypi.org/simple/kssdutils/), version: 1.1.8 2026-03-05T19:29:34,327 Found link https://files.pythonhosted.org/packages/4e/b4/5e5af5267d953d53d92b1f74c11fac8874cc94a7e1f5a0e699ba3ecc57f2/kssdutils-1.1.9.tar.gz#sha256=fdfc3cd69b375b4cfa96aed7837bc1214a2d1744234dadd729b9b06963ae0769 (from https://pypi.org/simple/kssdutils/), version: 1.1.9 2026-03-05T19:29:34,328 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdutils/ 2026-03-05T19:29:34,328 Getting page https://www.piwheels.org/simple/kssdutils/ 2026-03-05T19:29:34,330 Found index url https://www.piwheels.org/simple 2026-03-05T19:29:34,335 Starting new HTTPS connection (1): www.piwheels.org:443 2026-03-05T19:29:34,453 https://www.piwheels.org:443 "GET /simple/kssdutils/ HTTP/1.1" 200 1719 2026-03-05T19:29:34,527 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.1.9-cp311-cp311-linux_armv6l.whl#sha256=4170c6f7b1539a2959a5c83dab6344741df3727fe6cd0c2f5f067e5bc498d13f (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,528 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.1.9-cp311-cp311-linux_armv7l.whl#sha256=4170c6f7b1539a2959a5c83dab6344741df3727fe6cd0c2f5f067e5bc498d13f (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,529 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.1.8-cp311-cp311-linux_armv6l.whl#sha256=1ca8d1a14ea2253a85ab097f8a97a065c394460f12019e954e44a8de87f5392c (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,529 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.1.8-cp311-cp311-linux_armv7l.whl#sha256=1ca8d1a14ea2253a85ab097f8a97a065c394460f12019e954e44a8de87f5392c (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,530 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.1.8-cp39-cp39-linux_armv6l.whl#sha256=a94391f6b776dcdd0dd75533da283828a5fc4b0a4fcb195c96189d4da6984850 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,530 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.1.8-cp39-cp39-linux_armv7l.whl#sha256=a94391f6b776dcdd0dd75533da283828a5fc4b0a4fcb195c96189d4da6984850 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,531 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.7-cp311-cp311-linux_armv6l.whl#sha256=5beb32a7772765a880c50ab75f1b8a504d6c960523a444ea7829d7fef3671c4c (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,531 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.7-cp311-cp311-linux_armv7l.whl#sha256=5beb32a7772765a880c50ab75f1b8a504d6c960523a444ea7829d7fef3671c4c (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,532 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.7-cp39-cp39-linux_armv6l.whl#sha256=bea859a11c139a17abe9233844b7d680aab56d553fc883a214cb8aea8147aa7c (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,533 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.7-cp39-cp39-linux_armv7l.whl#sha256=bea859a11c139a17abe9233844b7d680aab56d553fc883a214cb8aea8147aa7c (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,533 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.5-cp311-cp311-linux_armv6l.whl#sha256=954571c31f45999b6eeb2cc007104d4a864f065c6aac3ff584a2e5d01fe7d22f (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,534 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.5-cp311-cp311-linux_armv7l.whl#sha256=954571c31f45999b6eeb2cc007104d4a864f065c6aac3ff584a2e5d01fe7d22f (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,534 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.5-cp39-cp39-linux_armv6l.whl#sha256=109623235074cfc937bce9a38d6d20bcf42003659045c0bda63bb091408c003d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,535 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.5-cp39-cp39-linux_armv7l.whl#sha256=109623235074cfc937bce9a38d6d20bcf42003659045c0bda63bb091408c003d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,535 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.4-cp311-cp311-linux_armv6l.whl#sha256=887ef39ec2c7cd34700ce800859855937714cdcebb02dcbd1c99aa7266df6c1b (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,536 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.4-cp311-cp311-linux_armv7l.whl#sha256=887ef39ec2c7cd34700ce800859855937714cdcebb02dcbd1c99aa7266df6c1b (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,536 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.4-cp39-cp39-linux_armv6l.whl#sha256=c752a2d90aa02aedfa92d27348e83c6e3cecace8633c4e91679da40ada370a66 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,537 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.4-cp39-cp39-linux_armv7l.whl#sha256=c752a2d90aa02aedfa92d27348e83c6e3cecace8633c4e91679da40ada370a66 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,537 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.3-cp311-cp311-linux_armv6l.whl#sha256=5584c66cba9b3b3dc5863d4eadba8674b765a709b4c7abc210ce12f9e49d68a3 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,538 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.3-cp311-cp311-linux_armv7l.whl#sha256=5584c66cba9b3b3dc5863d4eadba8674b765a709b4c7abc210ce12f9e49d68a3 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,538 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.3-cp39-cp39-linux_armv6l.whl#sha256=0bc9a271bdbc41d568d8a3834e847d4a29d5af0a18cc86d8743ca8a193272a98 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,539 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.3-cp39-cp39-linux_armv7l.whl#sha256=0bc9a271bdbc41d568d8a3834e847d4a29d5af0a18cc86d8743ca8a193272a98 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,540 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.2-cp311-cp311-linux_armv6l.whl#sha256=aae5676066e2d651e6883867221d727acb24b9ccd831cc4209fb7b18df10cfbb (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,540 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.2-cp311-cp311-linux_armv7l.whl#sha256=aae5676066e2d651e6883867221d727acb24b9ccd831cc4209fb7b18df10cfbb (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,541 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.2-cp39-cp39-linux_armv6l.whl#sha256=e7719ceb9b4ce3c5cfbfa12e1b4e8d314e117ca845fd6bedcafe8abadb5ca1f3 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,541 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.2-cp39-cp39-linux_armv7l.whl#sha256=e7719ceb9b4ce3c5cfbfa12e1b4e8d314e117ca845fd6bedcafe8abadb5ca1f3 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,542 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.0-cp311-cp311-linux_armv6l.whl#sha256=0c8e77f57ec908176d8961c597a98abc9259dee9141399da1712be9b1d560bc8 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,542 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.1.0-cp311-cp311-linux_armv7l.whl#sha256=0c8e77f57ec908176d8961c597a98abc9259dee9141399da1712be9b1d560bc8 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,543 Skipping link: No binaries permitted for kssdutils: 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https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.7-cp311-cp311-linux_armv7l.whl#sha256=c45bd36d62b251ee659d4aeaaca8255ff10d29d84edaf2551a0fed903f1a5fe3 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,545 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.7-cp39-cp39-linux_armv6l.whl#sha256=fcc578373bf2b252b22da188e4ca939bebcc53786b1f302a901a5cf261df624e (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,545 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.7-cp39-cp39-linux_armv7l.whl#sha256=fcc578373bf2b252b22da188e4ca939bebcc53786b1f302a901a5cf261df624e (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,546 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp311-cp311-linux_armv6l.whl#sha256=24cea74c37c72ec3f541e6eca026f6a906455d0e0160dc7d0f4526ab89a58125 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,546 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp311-cp311-linux_armv7l.whl#sha256=24cea74c37c72ec3f541e6eca026f6a906455d0e0160dc7d0f4526ab89a58125 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,547 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp39-cp39-linux_armv6l.whl#sha256=bfe64af80d2aab63dccf6fb0418e3b806f4ee1b2fcff0eab77094040d2b6dca5 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,547 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp39-cp39-linux_armv7l.whl#sha256=bfe64af80d2aab63dccf6fb0418e3b806f4ee1b2fcff0eab77094040d2b6dca5 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,548 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp311-cp311-linux_armv6l.whl#sha256=29ec8af3f080743643fee31ce978f3d65a6d90b950248e2ed6827316567aaa62 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,548 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp311-cp311-linux_armv7l.whl#sha256=29ec8af3f080743643fee31ce978f3d65a6d90b950248e2ed6827316567aaa62 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,549 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp39-cp39-linux_armv6l.whl#sha256=fb21de5c7d85619ac9cc1fafe3280f0130178032b169f1cf7ceac0cb6326d42e (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,549 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp39-cp39-linux_armv7l.whl#sha256=fb21de5c7d85619ac9cc1fafe3280f0130178032b169f1cf7ceac0cb6326d42e (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,550 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp311-cp311-linux_armv6l.whl#sha256=85c10f6c3223fb99e39dfddbef722fd2913bd5c63f089283ce23dae20c6a4a4d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,550 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp311-cp311-linux_armv7l.whl#sha256=85c10f6c3223fb99e39dfddbef722fd2913bd5c63f089283ce23dae20c6a4a4d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,551 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp39-cp39-linux_armv6l.whl#sha256=809195defd92c452797e9a87d99cfa8217c9ca4800c4a57d3e669846368160b1 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,551 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp39-cp39-linux_armv7l.whl#sha256=809195defd92c452797e9a87d99cfa8217c9ca4800c4a57d3e669846368160b1 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,552 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp311-cp311-linux_armv6l.whl#sha256=88788d94e7e118cfdf4e2cb04c558d2032ffa4f9352b663efd1a76f098c9f31d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,552 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp311-cp311-linux_armv7l.whl#sha256=88788d94e7e118cfdf4e2cb04c558d2032ffa4f9352b663efd1a76f098c9f31d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,553 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp39-cp39-linux_armv6l.whl#sha256=29a695a62aae6fa18fcad3ae6bfc6bbe19f545f66740fde177ddbf23efa45d15 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,553 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp39-cp39-linux_armv7l.whl#sha256=29a695a62aae6fa18fcad3ae6bfc6bbe19f545f66740fde177ddbf23efa45d15 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,554 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp311-cp311-linux_armv6l.whl#sha256=e93f43f34a8ab412f6a0c97bc930a5c9c72997258d109e3f069a56b6270ff331 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,555 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp311-cp311-linux_armv7l.whl#sha256=e93f43f34a8ab412f6a0c97bc930a5c9c72997258d109e3f069a56b6270ff331 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,555 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp39-cp39-linux_armv6l.whl#sha256=0d9c0566cba326dbedbea1c1ea643cc81efe1b0b47b292f956e933d1a9fedb35 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,556 Skipping link: No binaries permitted for kssdutils: https://archive1.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp39-cp39-linux_armv7l.whl#sha256=0d9c0566cba326dbedbea1c1ea643cc81efe1b0b47b292f956e933d1a9fedb35 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-05T19:29:34,632 Given no hashes to check 1 links for project 'kssdutils': discarding no candidates 2026-03-05T19:29:34,705 Collecting kssdutils==1.1.9 2026-03-05T19:29:34,708 Created temporary directory: /tmp/pip-unpack-dlg4u7kw 2026-03-05T19:29:34,716 Starting new HTTPS connection (1): files.pythonhosted.org:443 2026-03-05T19:29:34,877 https://files.pythonhosted.org:443 "GET /packages/4e/b4/5e5af5267d953d53d92b1f74c11fac8874cc94a7e1f5a0e699ba3ecc57f2/kssdutils-1.1.9.tar.gz HTTP/1.1" 200 44724 2026-03-05T19:29:34,880 Downloading kssdutils-1.1.9.tar.gz (44 kB) 2026-03-05T19:29:35,045 Added kssdutils==1.1.9 from https://files.pythonhosted.org/packages/4e/b4/5e5af5267d953d53d92b1f74c11fac8874cc94a7e1f5a0e699ba3ecc57f2/kssdutils-1.1.9.tar.gz#sha256=fdfc3cd69b375b4cfa96aed7837bc1214a2d1744234dadd729b9b06963ae0769 to build tracker '/tmp/pip-req-tracker-nsoumcgd' 2026-03-05T19:29:35,046 Running setup.py (path:/tmp/pip-wheel-n333n9s3/kssdutils_ea81bf537d4e438fa62e43b46d06e58d/setup.py) egg_info for package kssdutils 2026-03-05T19:29:35,048 Created temporary directory: /tmp/pip-pip-egg-info-7k8a8o7p 2026-03-05T19:29:35,048 Running command python setup.py egg_info 2026-03-05T19:29:37,236 running egg_info 2026-03-05T19:29:37,312 creating /tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info 2026-03-05T19:29:37,314 writing /tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info/PKG-INFO 2026-03-05T19:29:37,322 writing dependency_links to /tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info/dependency_links.txt 2026-03-05T19:29:37,328 writing top-level names to /tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info/top_level.txt 2026-03-05T19:29:37,331 writing manifest file '/tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info/SOURCES.txt' 2026-03-05T19:29:37,532 reading manifest file '/tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info/SOURCES.txt' 2026-03-05T19:29:37,535 reading manifest template 'MANIFEST.in' 2026-03-05T19:29:37,557 writing manifest file '/tmp/pip-pip-egg-info-7k8a8o7p/kssdutils.egg-info/SOURCES.txt' 2026-03-05T19:29:37,714 Source in /tmp/pip-wheel-n333n9s3/kssdutils_ea81bf537d4e438fa62e43b46d06e58d has version 1.1.9, which satisfies requirement kssdutils==1.1.9 from https://files.pythonhosted.org/packages/4e/b4/5e5af5267d953d53d92b1f74c11fac8874cc94a7e1f5a0e699ba3ecc57f2/kssdutils-1.1.9.tar.gz#sha256=fdfc3cd69b375b4cfa96aed7837bc1214a2d1744234dadd729b9b06963ae0769 2026-03-05T19:29:37,716 Removed kssdutils==1.1.9 from https://files.pythonhosted.org/packages/4e/b4/5e5af5267d953d53d92b1f74c11fac8874cc94a7e1f5a0e699ba3ecc57f2/kssdutils-1.1.9.tar.gz#sha256=fdfc3cd69b375b4cfa96aed7837bc1214a2d1744234dadd729b9b06963ae0769 from build tracker '/tmp/pip-req-tracker-nsoumcgd' 2026-03-05T19:29:37,725 Created temporary directory: /tmp/pip-unpack-s25xbpaf 2026-03-05T19:29:37,726 Building wheels for collected packages: kssdutils 2026-03-05T19:29:37,734 Created temporary directory: /tmp/pip-wheel-7vo5swwm 2026-03-05T19:29:37,735 Building wheel for kssdutils (setup.py): started 2026-03-05T19:29:37,735 Destination directory: /tmp/pip-wheel-7vo5swwm 2026-03-05T19:29:37,736 Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-n333n9s3/kssdutils_ea81bf537d4e438fa62e43b46d06e58d/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-n333n9s3/kssdutils_ea81bf537d4e438fa62e43b46d06e58d/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-7vo5swwm 2026-03-05T19:29:39,760 running bdist_wheel 2026-03-05T19:29:40,019 running build 2026-03-05T19:29:40,019 running build_py 2026-03-05T19:29:40,087 creating build/lib.linux-armv7l-cpython-39 2026-03-05T19:29:40,090 copying kssdutils.py -> build/lib.linux-armv7l-cpython-39 2026-03-05T19:29:40,094 running egg_info 2026-03-05T19:29:40,157 writing kssdutils.egg-info/PKG-INFO 2026-03-05T19:29:40,163 writing dependency_links to kssdutils.egg-info/dependency_links.txt 2026-03-05T19:29:40,168 writing top-level names to kssdutils.egg-info/top_level.txt 2026-03-05T19:29:40,234 reading manifest file 'kssdutils.egg-info/SOURCES.txt' 2026-03-05T19:29:40,242 reading manifest template 'MANIFEST.in' 2026-03-05T19:29:40,262 writing manifest file 'kssdutils.egg-info/SOURCES.txt' 2026-03-05T19:29:40,265 running build_ext 2026-03-05T19:29:41,576 building 'kssdtool' extension 2026-03-05T19:29:41,579 creating build/temp.linux-armv7l-cpython-39 2026-03-05T19:29:41,583 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c co2mco.c -o build/temp.linux-armv7l-cpython-39/co2mco.o -fopenmp 2026-03-05T19:29:41,983 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2026-03-05T19:29:41,983 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2026-03-05T19:29:41,984 109 | for (unsigned int i = 0; i < comp_num; i++) { 2026-03-05T19:29:41,985 | ^ 2026-03-05T19:29:41,990 co2mco.c: In function ‘co2unitllmco’: 2026-03-05T19:29:41,991 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2026-03-05T19:29:41,991 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2026-03-05T19:29:41,992 | ^ 2026-03-05T19:29:43,485 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_composite.c -o build/temp.linux-armv7l-cpython-39/command_composite.o -fopenmp 2026-03-05T19:29:44,215 command_composite.c: In function ‘get_species_abundance’: 2026-03-05T19:29:44,216 command_composite.c:32:34: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2026-03-05T19:29:44,216 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2026-03-05T19:29:44,217 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,218 command_composite.c:34:34: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2026-03-05T19:29:44,218 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2026-03-05T19:29:44,219 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,221 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:44,222 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2026-03-05T19:29:44,222 | ^ 2026-03-05T19:29:44,223 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2026-03-05T19:29:44,223 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2026-03-05T19:29:44,224 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,225 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:44,225 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2026-03-05T19:29:44,226 | ^ 2026-03-05T19:29:44,226 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2026-03-05T19:29:44,227 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2026-03-05T19:29:44,227 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,235 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:44,235 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2026-03-05T19:29:44,236 | ^ 2026-03-05T19:29:44,236 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2026-03-05T19:29:44,236 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2026-03-05T19:29:44,237 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,237 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:44,238 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2026-03-05T19:29:44,238 | ^ 2026-03-05T19:29:44,239 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 259) into a destination of size 256 2026-03-05T19:29:44,239 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2026-03-05T19:29:44,240 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,240 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:44,240 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2026-03-05T19:29:44,241 | ^ 2026-03-05T19:29:44,241 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 261) into a destination of size 256 2026-03-05T19:29:44,242 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2026-03-05T19:29:44,242 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:44,816 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_dist.c -o build/temp.linux-armv7l-cpython-39/command_dist.o -fopenmp 2026-03-05T19:29:45,297 command_dist.c: In function ‘mco_cbd_co_dist’: 2026-03-05T19:29:45,299 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=] 2026-03-05T19:29:45,300 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-05T19:29:45,300 | ~~^ 2026-03-05T19:29:45,300 | | 2026-03-05T19:29:45,301 | long unsigned int 2026-03-05T19:29:45,301 | %u 2026-03-05T19:29:45,302 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-05T19:29:45,302 | ~~~~~~~ 2026-03-05T19:29:45,303 | | 2026-03-05T19:29:45,303 | size_t {aka unsigned int} 2026-03-05T19:29:45,303 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=] 2026-03-05T19:29:45,304 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-05T19:29:45,304 | ~~^ 2026-03-05T19:29:45,305 | | 2026-03-05T19:29:45,305 | long unsigned int 2026-03-05T19:29:45,306 | %u 2026-03-05T19:29:45,306 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-05T19:29:45,307 679 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-05T19:29:45,307 | ~~~~~~~~~ 2026-03-05T19:29:45,308 | | 2026-03-05T19:29:45,308 | size_t {aka unsigned int} 2026-03-05T19:29:45,309 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2026-03-05T19:29:45,309 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-05T19:29:45,310 | ~~^ 2026-03-05T19:29:45,310 | | 2026-03-05T19:29:45,310 | long unsigned int 2026-03-05T19:29:45,311 | %u 2026-03-05T19:29:45,311 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-05T19:29:45,312 679 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-05T19:29:45,312 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:45,313 | | 2026-03-05T19:29:45,313 | unsigned int 2026-03-05T19:29:45,314 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2026-03-05T19:29:45,314 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2026-03-05T19:29:45,315 | ^ 2026-03-05T19:29:45,326 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2026-03-05T19:29:45,330 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=] 2026-03-05T19:29:45,330 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2026-03-05T19:29:45,331 | ~~^ ~~~~~~~ 2026-03-05T19:29:45,331 | | | 2026-03-05T19:29:45,331 | long unsigned int size_t {aka unsigned int} 2026-03-05T19:29:45,332 | %u 2026-03-05T19:29:45,333 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=] 2026-03-05T19:29:45,334 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2026-03-05T19:29:45,334 | ~~^ 2026-03-05T19:29:45,335 | | 2026-03-05T19:29:45,335 | long unsigned int 2026-03-05T19:29:45,335 | %u 2026-03-05T19:29:45,336 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2026-03-05T19:29:45,336 | ~~~~~~~~~ 2026-03-05T19:29:45,337 | | 2026-03-05T19:29:45,337 | size_t {aka unsigned int} 2026-03-05T19:29:45,338 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2026-03-05T19:29:45,338 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2026-03-05T19:29:45,339 | ~~^ 2026-03-05T19:29:45,339 | | 2026-03-05T19:29:45,340 | long unsigned int 2026-03-05T19:29:45,340 | %u 2026-03-05T19:29:45,341 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2026-03-05T19:29:45,341 865 | (size_t) b * unitsz_distf_mapped); 2026-03-05T19:29:45,341 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:45,342 | | 2026-03-05T19:29:45,342 | unsigned int 2026-03-05T19:29:45,343 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2026-03-05T19:29:45,343 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2026-03-05T19:29:45,343 | ^~~~~~~ 2026-03-05T19:29:45,344 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2026-03-05T19:29:45,344 809 | struct stat cbd_fcode_stat; 2026-03-05T19:29:45,345 | ^~~~~~~~~~~~~~ 2026-03-05T19:29:45,345 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2026-03-05T19:29:45,346 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2026-03-05T19:29:45,346 | ^~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:45,347 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2026-03-05T19:29:45,347 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2026-03-05T19:29:45,348 | ^~~~~~~~~~~~~~~~~ 2026-03-05T19:29:45,359 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2026-03-05T19:29:45,363 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=] 2026-03-05T19:29:45,363 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-05T19:29:45,364 | ~~^ 2026-03-05T19:29:45,364 | | 2026-03-05T19:29:45,365 | long unsigned int 2026-03-05T19:29:45,365 | %u 2026-03-05T19:29:45,366 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-05T19:29:45,366 | ~~~~~~~ 2026-03-05T19:29:45,366 | | 2026-03-05T19:29:45,367 | size_t {aka unsigned int} 2026-03-05T19:29:45,367 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=] 2026-03-05T19:29:45,368 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-05T19:29:45,368 | ~~^ 2026-03-05T19:29:45,368 | | 2026-03-05T19:29:45,369 | long unsigned int 2026-03-05T19:29:45,369 | %u 2026-03-05T19:29:45,370 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-05T19:29:45,370 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-05T19:29:45,370 | ~~~~~~~~~ 2026-03-05T19:29:45,371 | | 2026-03-05T19:29:45,371 | size_t {aka unsigned int} 2026-03-05T19:29:45,372 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2026-03-05T19:29:45,372 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-05T19:29:45,373 | ~~^ 2026-03-05T19:29:45,373 | | 2026-03-05T19:29:45,373 | long unsigned int 2026-03-05T19:29:45,374 | %u 2026-03-05T19:29:45,374 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-05T19:29:45,375 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-05T19:29:45,375 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:45,376 | | 2026-03-05T19:29:45,376 | unsigned int 2026-03-05T19:29:45,377 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,377 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2026-03-05T19:29:45,377 | ^ 2026-03-05T19:29:45,383 command_dist.c: In function ‘mco_co_dist_core’: 2026-03-05T19:29:45,385 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2026-03-05T19:29:45,385 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2026-03-05T19:29:45,386 | ^ 2026-03-05T19:29:45,399 command_dist.c: In function ‘koc_dist_print_nobin’: 2026-03-05T19:29:45,400 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,401 1239 | for (int rid = 0; rid < ref_num; rid++) 2026-03-05T19:29:45,401 | ^ 2026-03-05T19:29:45,404 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,405 1245 | for (int rid = 0; rid < ref_num; rid++) { 2026-03-05T19:29:45,405 | ^ 2026-03-05T19:29:45,417 command_dist.c: In function ‘dist_print_nobin’: 2026-03-05T19:29:45,419 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,419 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2026-03-05T19:29:45,420 | ^ 2026-03-05T19:29:45,424 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,424 1356 | for (int rid = 0; rid < ref_num; rid++) { 2026-03-05T19:29:45,425 | ^ 2026-03-05T19:29:45,427 command_dist.c:1380:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,428 1380 | for (int rid = 0; rid < ref_num; rid++) 2026-03-05T19:29:45,428 | ^ 2026-03-05T19:29:45,430 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-05T19:29:45,430 1382 | for (int rid = 0; rid < ref_num; rid++) 2026-03-05T19:29:45,431 | ^ 2026-03-05T19:29:46,026 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2026-03-05T19:29:46,026 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized in this function [-Wmaybe-uninitialized] 2026-03-05T19:29:46,027 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2026-03-05T19:29:46,027 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:46,028 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2026-03-05T19:29:46,028 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2026-03-05T19:29:46,029 | ^~~~~~~~~~~~ 2026-03-05T19:29:47,781 command_dist.c: In function ‘get_dim_shuffle’: 2026-03-05T19:29:47,782 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2026-03-05T19:29:47,783 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2026-03-05T19:29:47,783 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:47,784 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2026-03-05T19:29:47,785 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2026-03-05T19:29:47,785 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:49,680 command_dist.c: In function ‘mco_cbd_co_dist’: 2026-03-05T19:29:49,681 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:49,681 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-05T19:29:49,682 | ^~ ~~~~~~~~~ 2026-03-05T19:29:49,682 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2026-03-05T19:29:49,683 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-05T19:29:49,683 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:49,684 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:49,684 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-05T19:29:49,684 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:49,685 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2026-03-05T19:29:49,685 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-05T19:29:49,686 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:49,687 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:49,688 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-05T19:29:49,688 | ^~~~~~~~~~~ 2026-03-05T19:29:49,689 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2026-03-05T19:29:49,689 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-05T19:29:49,690 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:49,690 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:49,690 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-05T19:29:49,691 | ^~~~~ 2026-03-05T19:29:49,691 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-05T19:29:49,692 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-05T19:29:49,692 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,188 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2026-03-05T19:29:50,190 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:50,190 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-05T19:29:50,191 | ^~ ~~~~~~~~~ 2026-03-05T19:29:50,191 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2026-03-05T19:29:50,191 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-05T19:29:50,192 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,193 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:50,193 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-05T19:29:50,194 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:50,194 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2026-03-05T19:29:50,195 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-05T19:29:50,195 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,196 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:50,196 823 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-05T19:29:50,197 | ^~~~~~~~~~~~~ 2026-03-05T19:29:50,197 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2026-03-05T19:29:50,198 823 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-05T19:29:50,198 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,200 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:50,200 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2026-03-05T19:29:50,201 | ^ 2026-03-05T19:29:50,201 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2026-03-05T19:29:50,202 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2026-03-05T19:29:50,202 | ^~~~~~~~~~ 2026-03-05T19:29:50,203 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2026-03-05T19:29:50,203 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2026-03-05T19:29:50,204 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,204 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:50,205 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2026-03-05T19:29:50,205 | ^ 2026-03-05T19:29:50,206 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2026-03-05T19:29:50,206 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2026-03-05T19:29:50,207 | ^~~~~~~~~~ 2026-03-05T19:29:50,207 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2026-03-05T19:29:50,208 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2026-03-05T19:29:50,208 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,771 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2026-03-05T19:29:50,773 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:50,774 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-05T19:29:50,774 | ^~ ~~~~~~~~~ 2026-03-05T19:29:50,775 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2026-03-05T19:29:50,775 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-05T19:29:50,776 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,777 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:50,777 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-05T19:29:50,778 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:50,779 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2026-03-05T19:29:50,779 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-05T19:29:50,780 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,781 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:50,781 990 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-05T19:29:50,782 | ^~~~~~~~~~~~~ 2026-03-05T19:29:50,782 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2026-03-05T19:29:50,783 990 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-05T19:29:50,783 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,786 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:50,786 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-05T19:29:50,786 | ^~~~~~~~~~~ 2026-03-05T19:29:50,787 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2026-03-05T19:29:50,788 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-05T19:29:50,788 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:50,789 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-05T19:29:50,789 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-05T19:29:50,790 | ^~~~~ 2026-03-05T19:29:50,791 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-05T19:29:50,791 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-05T19:29:50,792 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:51,382 command_dist.c: In function ‘combine_queries’: 2026-03-05T19:29:51,385 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:51,385 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2026-03-05T19:29:51,385 | ^ 2026-03-05T19:29:51,387 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:51,387 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2026-03-05T19:29:51,388 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:51,390 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:51,390 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2026-03-05T19:29:51,391 | ^ 2026-03-05T19:29:51,392 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:51,393 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2026-03-05T19:29:51,393 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:51,397 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:51,398 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2026-03-05T19:29:51,398 | ^~ ~~~~~~~~ 2026-03-05T19:29:51,400 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2026-03-05T19:29:51,401 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2026-03-05T19:29:51,401 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:52,540 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-39/command_dist_wrapper.o -fopenmp 2026-03-05T19:29:52,952 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_set.c -o build/temp.linux-armv7l-cpython-39/command_set.o -fopenmp 2026-03-05T19:29:53,316 command_set.c: In function ‘sketch_operate’: 2026-03-05T19:29:53,317 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2026-03-05T19:29:53,317 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2026-03-05T19:29:53,318 | ^ 2026-03-05T19:29:53,341 command_set.c: In function ‘combin_subset_pans’: 2026-03-05T19:29:53,341 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2026-03-05T19:29:53,342 457 | free(co_dstat_fpath); 2026-03-05T19:29:53,342 | ^~~~~~~~~~~~~~ 2026-03-05T19:29:53,343 In file included from kssdheaders/global_basic.h:159, 2026-03-05T19:29:53,343 from command_set.c:15: 2026-03-05T19:29:53,344 /usr/include/stdlib.h:565:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2026-03-05T19:29:53,345 565 | extern void free (void *__ptr) __THROW; 2026-03-05T19:29:53,345 | ~~~~~~^~~~~ 2026-03-05T19:29:53,354 command_set.c: In function ‘grouping_genomes’: 2026-03-05T19:29:53,354 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2026-03-05T19:29:53,355 562 | free(co_dstat_fpath); 2026-03-05T19:29:53,356 | ^~~~~~~~~~~~~~ 2026-03-05T19:29:53,356 In file included from kssdheaders/global_basic.h:159, 2026-03-05T19:29:53,357 from command_set.c:15: 2026-03-05T19:29:53,357 /usr/include/stdlib.h:565:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2026-03-05T19:29:53,358 565 | extern void free (void *__ptr) __THROW; 2026-03-05T19:29:53,358 | ~~~~~~^~~~~ 2026-03-05T19:29:53,645 command_set.c: In function ‘sketch_union’: 2026-03-05T19:29:53,646 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:53,646 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:53,647 | ^ 2026-03-05T19:29:53,647 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:53,648 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:53,648 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,649 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,649 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-05T19:29:53,650 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:53,650 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:53,651 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-05T19:29:53,651 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,652 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,652 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2026-03-05T19:29:53,653 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:53,653 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-05T19:29:53,654 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2026-03-05T19:29:53,654 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,921 command_set.c: In function ‘sketch_operate’: 2026-03-05T19:29:53,921 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,922 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2026-03-05T19:29:53,922 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:53,923 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-05T19:29:53,923 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2026-03-05T19:29:53,923 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,924 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,924 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2026-03-05T19:29:53,925 | ^~ ~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,925 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2026-03-05T19:29:53,926 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2026-03-05T19:29:53,926 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,927 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,927 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-05T19:29:53,928 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:53,928 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-05T19:29:53,929 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-05T19:29:53,929 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,930 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,930 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-05T19:29:53,930 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:53,931 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:53,931 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-05T19:29:53,932 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,932 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,933 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2026-03-05T19:29:53,933 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:53,934 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:53,934 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2026-03-05T19:29:53,935 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,935 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:53,936 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2026-03-05T19:29:53,936 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:53,937 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-05T19:29:53,937 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2026-03-05T19:29:53,938 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:53,938 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:53,938 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:53,939 | ^ 2026-03-05T19:29:53,940 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:53,940 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:53,941 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,292 command_set.c: In function ‘uniq_sketch_union’: 2026-03-05T19:29:54,292 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:54,293 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:54,293 | ^ 2026-03-05T19:29:54,294 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:54,294 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:54,295 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,295 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:54,295 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-05T19:29:54,296 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:54,296 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:54,297 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-05T19:29:54,297 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,298 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:54,298 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2026-03-05T19:29:54,299 | ^~ ~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,299 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2026-03-05T19:29:54,300 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2026-03-05T19:29:54,300 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,600 command_set.c: In function ‘combin_pans’: 2026-03-05T19:29:54,600 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:54,601 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:54,601 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:54,602 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2026-03-05T19:29:54,602 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:54,602 | ^~~~~~~~~~ 2026-03-05T19:29:54,603 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2026-03-05T19:29:54,603 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:54,604 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,604 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:54,605 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:54,605 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:54,606 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2026-03-05T19:29:54,606 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:54,607 | ^~~~~~~~~~ 2026-03-05T19:29:54,607 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2026-03-05T19:29:54,607 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:54,608 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:54,608 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:54,609 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:54,609 | ^ 2026-03-05T19:29:54,610 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:54,610 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:54,611 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,062 command_set.c: In function ‘combin_subset_pans’: 2026-03-05T19:29:55,063 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,064 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-05T19:29:55,064 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:55,065 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:55,065 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-05T19:29:55,066 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,066 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,066 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-05T19:29:55,067 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:55,067 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-05T19:29:55,068 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-05T19:29:55,068 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,069 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,069 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:55,070 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:55,070 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:55,070 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:55,071 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,072 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,072 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:55,073 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:55,073 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-05T19:29:55,074 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:55,074 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,075 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:55,075 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:55,076 | ^ 2026-03-05T19:29:55,076 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:55,076 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:55,077 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,561 command_set.c: In function ‘grouping_genomes’: 2026-03-05T19:29:55,562 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,563 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-05T19:29:55,563 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:55,564 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:55,564 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-05T19:29:55,565 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,565 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,565 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-05T19:29:55,566 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:55,566 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-05T19:29:55,567 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-05T19:29:55,567 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,570 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,570 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:55,571 | ^~ ~~~~~~~~~~~ 2026-03-05T19:29:55,571 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-05T19:29:55,572 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-05T19:29:55,572 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,573 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-05T19:29:55,574 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:55,574 | ^~ ~~~~~~~~~~ 2026-03-05T19:29:55,575 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-05T19:29:55,575 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-05T19:29:55,576 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:55,576 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-05T19:29:55,577 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:55,577 | ^ 2026-03-05T19:29:55,577 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-05T19:29:55,578 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-05T19:29:55,578 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:29:56,246 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-39/command_shuffle.o -fopenmp 2026-03-05T19:29:56,921 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c global_basic.c -o build/temp.linux-armv7l-cpython-39/global_basic.o -fopenmp 2026-03-05T19:29:57,284 global_basic.c: In function ‘organize_infile_list’: 2026-03-05T19:29:57,285 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2026-03-05T19:29:57,286 195 | while (isspace(*buf)) buf++; 2026-03-05T19:29:57,286 | ^~~~~~~ 2026-03-05T19:29:57,288 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=] 2026-03-05T19:29:57,289 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2026-03-05T19:29:57,289 | ~~^ 2026-03-05T19:29:57,290 | | 2026-03-05T19:29:57,290 | long unsigned int 2026-03-05T19:29:57,290 | %u 2026-03-05T19:29:57,291 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2026-03-05T19:29:57,291 | ~~~~~~~~~~~ 2026-03-05T19:29:57,292 | | 2026-03-05T19:29:57,292 | size_t {aka unsigned int} 2026-03-05T19:29:57,296 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=] 2026-03-05T19:29:57,297 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2026-03-05T19:29:57,297 | ~~^ 2026-03-05T19:29:57,297 | | 2026-03-05T19:29:57,298 | long unsigned int 2026-03-05T19:29:57,298 | %u 2026-03-05T19:29:57,299 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2026-03-05T19:29:57,299 | ~~~~~~~~~~~ 2026-03-05T19:29:57,299 | | 2026-03-05T19:29:57,300 | size_t {aka unsigned int} 2026-03-05T19:29:58,930 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c iseq2comem.c -o build/temp.linux-armv7l-cpython-39/iseq2comem.o -fopenmp 2026-03-05T19:29:59,307 iseq2comem.c: In function ‘reads2mco’: 2026-03-05T19:29:59,308 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,308 156 | if (base > TL) { 2026-03-05T19:29:59,309 | ^ 2026-03-05T19:29:59,310 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,310 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,311 | ^~ 2026-03-05T19:29:59,312 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,312 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,313 | ^ 2026-03-05T19:29:59,317 iseq2comem.c: In function ‘fasta2co’: 2026-03-05T19:29:59,317 iseq2comem.c:213:69: warning: too many arguments for format [-Wformat-extra-args] 2026-03-05T19:29:59,318 213 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2026-03-05T19:29:59,318 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:59,320 iseq2comem.c:219:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-05T19:29:59,320 219 | if ((infp = popen(seqfname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2026-03-05T19:29:59,320 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:59,323 iseq2comem.c:261:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,324 261 | if (base > TL) { 2026-03-05T19:29:59,325 | ^ 2026-03-05T19:29:59,325 iseq2comem.c:265:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,326 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,326 | ^~ 2026-03-05T19:29:59,327 iseq2comem.c:265:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,327 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,328 | ^ 2026-03-05T19:29:59,328 iseq2comem.c: In function ‘fastq2co’: 2026-03-05T19:29:59,329 iseq2comem.c:295:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2026-03-05T19:29:59,330 295 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2026-03-05T19:29:59,330 | ^~ 2026-03-05T19:29:59,331 iseq2comem.c:307:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-05T19:29:59,331 307 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2026-03-05T19:29:59,331 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:59,332 iseq2comem.c:313:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-05T19:29:59,332 313 | if ((infp = popen(seqfname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2026-03-05T19:29:59,333 | ^~~~~~~~~~~~~~~ 2026-03-05T19:29:59,333 iseq2comem.c:352:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,334 352 | if (base > TL) { 2026-03-05T19:29:59,334 | ^ 2026-03-05T19:29:59,335 iseq2comem.c:356:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,335 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,336 | ^~ 2026-03-05T19:29:59,336 iseq2comem.c:356:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,337 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,337 | ^ 2026-03-05T19:29:59,338 iseq2comem.c:375:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,338 375 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2026-03-05T19:29:59,339 | ^ 2026-03-05T19:29:59,339 iseq2comem.c: In function ‘fastq2koc’: 2026-03-05T19:29:59,340 iseq2comem.c:403:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-05T19:29:59,340 403 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2026-03-05T19:29:59,341 | ^~~~~~~~~~~~~~~~ 2026-03-05T19:29:59,341 iseq2comem.c:409:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-05T19:29:59,341 409 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2026-03-05T19:29:59,342 | ^~~~~~~~~~~~~~~~ 2026-03-05T19:29:59,342 iseq2comem.c:448:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,343 448 | if (base > TL) { 2026-03-05T19:29:59,343 | ^ 2026-03-05T19:29:59,344 iseq2comem.c:452:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,344 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,345 | ^~ 2026-03-05T19:29:59,345 iseq2comem.c:452:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,346 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,346 | ^ 2026-03-05T19:29:59,357 iseq2comem.c: In function ‘mt_shortreads2koc’: 2026-03-05T19:29:59,358 iseq2comem.c:628:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,359 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,359 | ^~ 2026-03-05T19:29:59,360 iseq2comem.c:628:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-05T19:29:59,360 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-05T19:29:59,361 | ^ 2026-03-05T19:30:02,254 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c mman.c -o build/temp.linux-armv7l-cpython-39/mman.o -fopenmp 2026-03-05T19:30:02,411 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c mytime.c -o build/temp.linux-armv7l-cpython-39/mytime.o -fopenmp 2026-03-05T19:30:02,715 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/build/python3.9-eDAWto/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.9 -c pykssd.c -o build/temp.linux-armv7l-cpython-39/pykssd.o -fopenmp 2026-03-05T19:30:03,501 pykssd.c: In function ‘py_dist_dispatch’: 2026-03-05T19:30:03,502 pykssd.c:339:13: warning: unused variable ‘state1’ [-Wunused-variable] 2026-03-05T19:30:03,502 339 | int state1 = dist_dispatch(&dist_opt_val1); 2026-03-05T19:30:03,503 | ^~~~~~ 2026-03-05T19:30:03,506 pykssd.c:404:13: warning: unused variable ‘state2’ [-Wunused-variable] 2026-03-05T19:30:03,506 404 | int state2 = dist_dispatch(&dist_opt_val2); 2026-03-05T19:30:03,507 | ^~~~~~ 2026-03-05T19:30:03,511 pykssd.c:538:13: warning: unused variable ‘state4’ [-Wunused-variable] 2026-03-05T19:30:03,512 538 | int state4 = dist_dispatch(&dist_opt_val4); 2026-03-05T19:30:03,512 | ^~~~~~ 2026-03-05T19:30:03,856 pykssd.c: In function ‘rename_file’: 2026-03-05T19:30:03,857 pykssd.c:44:15: warning: ‘strncpy’ specified bound depends on the length of the source argument [-Wstringop-overflow=] 2026-03-05T19:30:03,858 44 | newfile = strncpy(newfile, p1, len - suffix_len); 2026-03-05T19:30:03,858 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-05T19:30:03,859 pykssd.c:41:15: note: length computed here 2026-03-05T19:30:03,859 41 | int len = strlen(p1); 2026-03-05T19:30:03,859 | ^~~~~~~~~~ 2026-03-05T19:30:04,904 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/kssdtool.cpython-39-arm-linux-gnueabihf.so -fopenmp 2026-03-05T19:30:05,407 /usr/local/lib/python3.9/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2026-03-05T19:30:05,408 !! 2026-03-05T19:30:05,409 ******************************************************************************** 2026-03-05T19:30:05,409 Please avoid running ``setup.py`` directly. 2026-03-05T19:30:05,409 Instead, use pypa/build, pypa/installer or other 2026-03-05T19:30:05,410 standards-based tools. 2026-03-05T19:30:05,411 This deprecation is overdue, please update your project and remove deprecated 2026-03-05T19:30:05,411 calls to avoid build errors in the future. 2026-03-05T19:30:05,412 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2026-03-05T19:30:05,412 ******************************************************************************** 2026-03-05T19:30:05,413 !! 2026-03-05T19:30:05,413 self.initialize_options() 2026-03-05T19:30:05,475 installing to build/bdist.linux-armv7l/wheel 2026-03-05T19:30:05,476 running install 2026-03-05T19:30:05,528 running install_lib 2026-03-05T19:30:05,590 creating build/bdist.linux-armv7l/wheel 2026-03-05T19:30:05,594 copying build/lib.linux-armv7l-cpython-39/kssdutils.py -> build/bdist.linux-armv7l/wheel/. 2026-03-05T19:30:05,605 copying build/lib.linux-armv7l-cpython-39/kssdtool.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2026-03-05T19:30:05,662 running install_egg_info 2026-03-05T19:30:05,744 Copying kssdutils.egg-info to build/bdist.linux-armv7l/wheel/./kssdutils-1.1.9-py3.9.egg-info 2026-03-05T19:30:05,767 running install_scripts 2026-03-05T19:30:05,878 creating build/bdist.linux-armv7l/wheel/kssdutils-1.1.9.dist-info/WHEEL 2026-03-05T19:30:05,885 creating '/tmp/pip-wheel-7vo5swwm/kssdutils-1.1.9-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-03-05T19:30:06,151 adding 'kssdtool.cpython-39-arm-linux-gnueabihf.so' 2026-03-05T19:30:06,164 adding 'kssdutils.py' 2026-03-05T19:30:06,170 adding 'kssdutils-1.1.9.dist-info/METADATA' 2026-03-05T19:30:06,173 adding 'kssdutils-1.1.9.dist-info/WHEEL' 2026-03-05T19:30:06,175 adding 'kssdutils-1.1.9.dist-info/dependency_links.txt' 2026-03-05T19:30:06,178 adding 'kssdutils-1.1.9.dist-info/top_level.txt' 2026-03-05T19:30:06,180 adding 'kssdutils-1.1.9.dist-info/RECORD' 2026-03-05T19:30:06,190 removing build/bdist.linux-armv7l/wheel 2026-03-05T19:30:06,202 error: [Errno 39] Directory not empty: 'build/bdist.linux-armv7l/wheel' 2026-03-05T19:30:06,444 Building wheel for kssdutils (setup.py): finished with status 'error' 2026-03-05T19:30:06,446 ERROR: Failed building wheel for kssdutils 2026-03-05T19:30:06,447 Running setup.py clean for kssdutils 2026-03-05T19:30:06,448 Running command /usr/bin/python3 -u -c 'import sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-n333n9s3/kssdutils_ea81bf537d4e438fa62e43b46d06e58d/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-n333n9s3/kssdutils_ea81bf537d4e438fa62e43b46d06e58d/setup.py'"'"';f=getattr(tokenize, '"'"'open'"'"', open)(__file__);code=f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' clean --all 2026-03-05T19:30:08,545 running clean 2026-03-05T19:30:08,669 removing 'build/temp.linux-armv7l-cpython-39' (and everything under it) 2026-03-05T19:30:08,676 removing 'build/lib.linux-armv7l-cpython-39' (and everything under it) 2026-03-05T19:30:08,679 removing 'build/bdist.linux-armv7l' (and everything under it) 2026-03-05T19:30:08,682 'build/scripts-3.9' does not exist -- can't clean it 2026-03-05T19:30:08,683 removing 'build' 2026-03-05T19:30:08,836 Failed to build kssdutils 2026-03-05T19:30:08,837 ERROR: Failed to build one or more wheels 2026-03-05T19:30:08,839 Exception information: 2026-03-05T19:30:08,839 Traceback (most recent call last): 2026-03-05T19:30:08,839 File "/usr/lib/python3/dist-packages/pip/_internal/cli/base_command.py", line 223, in _main 2026-03-05T19:30:08,839 status = self.run(options, args) 2026-03-05T19:30:08,839 File "/usr/lib/python3/dist-packages/pip/_internal/cli/req_command.py", line 180, in wrapper 2026-03-05T19:30:08,839 return func(self, options, args) 2026-03-05T19:30:08,839 File "/usr/lib/python3/dist-packages/pip/_internal/commands/wheel.py", line 194, in run 2026-03-05T19:30:08,839 raise CommandError( 2026-03-05T19:30:08,839 pip._internal.exceptions.CommandError: Failed to build one or more wheels 2026-03-05T19:30:08,845 Removed build tracker: '/tmp/pip-req-tracker-nsoumcgd'