2026-03-06T15:56:15,248 Created temporary directory: /tmp/pip-ephem-wheel-cache-k6cw_ywk 2026-03-06T15:56:15,250 Created temporary directory: /tmp/pip-build-tracker-9vvp63dj 2026-03-06T15:56:15,251 Initialized build tracking at /tmp/pip-build-tracker-9vvp63dj 2026-03-06T15:56:15,251 Created build tracker: /tmp/pip-build-tracker-9vvp63dj 2026-03-06T15:56:15,251 Entered build tracker: /tmp/pip-build-tracker-9vvp63dj 2026-03-06T15:56:15,252 Created temporary directory: /tmp/pip-wheel-i7wxpxlc 2026-03-06T15:56:15,255 DEPRECATION: --no-binary currently disables reading from the cache of locally built wheels. In the future --no-binary will not influence the wheel cache. pip 23.1 will enforce this behaviour change. A possible replacement is to use the --no-cache-dir option. You can use the flag --use-feature=no-binary-enable-wheel-cache to test the upcoming behaviour. Discussion can be found at https://github.com/pypa/pip/issues/11453 2026-03-06T15:56:15,257 Created temporary directory: /tmp/pip-ephem-wheel-cache-iw1_si6y 2026-03-06T15:56:15,281 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2026-03-06T15:56:15,285 2 location(s) to search for versions of kssdutils: 2026-03-06T15:56:15,285 * https://pypi.org/simple/kssdutils/ 2026-03-06T15:56:15,285 * https://www.piwheels.org/simple/kssdutils/ 2026-03-06T15:56:15,286 Fetching project page and analyzing links: https://pypi.org/simple/kssdutils/ 2026-03-06T15:56:15,287 Getting page https://pypi.org/simple/kssdutils/ 2026-03-06T15:56:15,288 Found index url https://pypi.org/simple 2026-03-06T15:56:15,502 Fetched page https://pypi.org/simple/kssdutils/ as application/vnd.pypi.simple.v1+json 2026-03-06T15:56:15,506 Found link https://files.pythonhosted.org/packages/61/ef/1bdb91b53dbe31ea0be28ab2c2292994b6228b357a8d54b69ac642f81f01/kssdutils-1.0.0.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.0 2026-03-06T15:56:15,507 Found link https://files.pythonhosted.org/packages/6f/f6/cc67acf92ea770b5f6a8bd97d375432881861935beafe9ebd4031a73482c/kssdutils-1.0.1.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.1 2026-03-06T15:56:15,507 Found link https://files.pythonhosted.org/packages/57/17/dd41697db7220423d0ab77f9f035b9a347edc1edefc2c35d9890178cbe17/kssdutils-1.0.2.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.2 2026-03-06T15:56:15,508 Found link https://files.pythonhosted.org/packages/3e/92/7a94130bd54e0e3dd20c1a609aef2f24875b86e9d61752f63b500d3f86f5/kssdutils-1.0.3.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.3 2026-03-06T15:56:15,509 Found link https://files.pythonhosted.org/packages/42/01/15ec102f7ac6b4fc3158ba60de64598a005cefffc773fa69eecbd3c9b016/kssdutils-1.0.5.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.5 2026-03-06T15:56:15,509 Found link https://files.pythonhosted.org/packages/aa/08/08fa5f76478fd3dbe9534ad21332b5dc03826197935c2b696e189af49f0b/kssdutils-1.0.6.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.6 2026-03-06T15:56:15,510 Found link https://files.pythonhosted.org/packages/78/17/7776b7c3b149fedfb0fba98bce07fdf08cb53773dafa174f7fda9ce4df55/kssdutils-1.0.7.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.0.7 2026-03-06T15:56:15,511 Found link https://files.pythonhosted.org/packages/a7/50/138f2b5f98dcd2327609362e505af19857468da67dba88eaf6c8d8fdb83a/kssdutils-1.1.0.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.0 2026-03-06T15:56:15,511 Found link https://files.pythonhosted.org/packages/be/be/659d775f3dd37e727d782fa46b7b665e69a59c78312fa5fc1bad8640f980/kssdutils-1.1.2.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.2 2026-03-06T15:56:15,512 Found link https://files.pythonhosted.org/packages/d0/e9/badb25888a9e48aa82e2389e848aff81ae6affd17af96622974dc314ae52/kssdutils-1.1.3.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.3 2026-03-06T15:56:15,512 Found link https://files.pythonhosted.org/packages/b3/43/18e812a7529c356cfa20627f201f1956e4b8203e1db782861ad6e5900bf8/kssdutils-1.1.4.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.4 2026-03-06T15:56:15,513 Found link https://files.pythonhosted.org/packages/98/8c/0eb4850f10a9da51072d7be474ecffd0f808423f21838f543dc88db7ddd2/kssdutils-1.1.5.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.5 2026-03-06T15:56:15,514 Found link https://files.pythonhosted.org/packages/c3/44/c52bfc36ee73ebbc978099403a176e76446f23b1691c9df71bd38bbe6430/kssdutils-1.1.7.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.7 2026-03-06T15:56:15,514 Found link https://files.pythonhosted.org/packages/a8/d7/8426d81d46965dcb35320a45f5b457453be5160b18551902b31860952f69/kssdutils-1.1.8.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.8 2026-03-06T15:56:15,515 Found link https://files.pythonhosted.org/packages/4e/b4/5e5af5267d953d53d92b1f74c11fac8874cc94a7e1f5a0e699ba3ecc57f2/kssdutils-1.1.9.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.1.9 2026-03-06T15:56:15,515 Found link https://files.pythonhosted.org/packages/bd/e0/d7aec62c770afea4b416e12c6e0afcb31d4d07c6a9320c903e87821c1512/kssdutils-1.2.0.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.2.0 2026-03-06T15:56:15,516 Found link https://files.pythonhosted.org/packages/bc/23/9cb4f9e681bcb9f0b76a4ba9ba04ee7196be39eb751f096b15c73846da91/kssdutils-1.2.1.tar.gz (from https://pypi.org/simple/kssdutils/), version: 1.2.1 2026-03-06T15:56:15,517 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdutils/ 2026-03-06T15:56:15,517 Getting page https://www.piwheels.org/simple/kssdutils/ 2026-03-06T15:56:15,518 Found index url https://www.piwheels.org/simple 2026-03-06T15:56:15,673 Fetched page https://www.piwheels.org/simple/kssdutils/ as text/html 2026-03-06T15:56:15,689 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.2.0-cp311-cp311-linux_armv6l.whl#sha256=f4620cb11cd680f7dcbbd7744c03dee2183ec0a4c4c6abd29bc599c70af26d1d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-06T15:56:15,690 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.2.0-cp311-cp311-linux_armv7l.whl#sha256=f4620cb11cd680f7dcbbd7744c03dee2183ec0a4c4c6abd29bc599c70af26d1d (from https://www.piwheels.org/simple/kssdutils/) 2026-03-06T15:56:15,690 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.2.0-cp39-cp39-linux_armv6l.whl#sha256=0674b995d5f29ef2b9143b006e7cc27c8e11a011739c5415abbec13423c68cd1 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-06T15:56:15,691 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.2.0-cp39-cp39-linux_armv7l.whl#sha256=0674b995d5f29ef2b9143b006e7cc27c8e11a011739c5415abbec13423c68cd1 (from https://www.piwheels.org/simple/kssdutils/) 2026-03-06T15:56:15,691 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/) 2026-03-06T15:56:15,692 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/) 2026-03-06T15:56:15,693 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/) 2026-03-06T15:56:15,693 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/) 2026-03-06T15:56:15,694 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/) 2026-03-06T15:56:15,694 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/) 2026-03-06T15:56:15,695 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/) 2026-03-06T15:56:15,696 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/) 2026-03-06T15:56:15,696 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/) 2026-03-06T15:56:15,697 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/) 2026-03-06T15:56:15,697 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/) 2026-03-06T15:56:15,697 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/) 2026-03-06T15:56:15,698 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/) 2026-03-06T15:56:15,699 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/) 2026-03-06T15:56:15,699 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/) 2026-03-06T15:56:15,700 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/) 2026-03-06T15:56:15,700 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/) 2026-03-06T15:56:15,701 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/) 2026-03-06T15:56:15,701 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/) 2026-03-06T15:56:15,702 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/) 2026-03-06T15:56:15,703 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/) 2026-03-06T15:56:15,703 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/) 2026-03-06T15:56:15,704 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/) 2026-03-06T15:56:15,704 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/) 2026-03-06T15:56:15,705 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/) 2026-03-06T15:56:15,705 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/) 2026-03-06T15:56:15,709 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/) 2026-03-06T15:56:15,709 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/) 2026-03-06T15:56:15,710 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/) 2026-03-06T15:56:15,710 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/) 2026-03-06T15:56:15,711 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/) 2026-03-06T15:56:15,711 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/) 2026-03-06T15:56:15,712 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/) 2026-03-06T15:56:15,712 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/) 2026-03-06T15:56:15,713 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/) 2026-03-06T15:56:15,713 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/) 2026-03-06T15:56:15,714 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/) 2026-03-06T15:56:15,714 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/) 2026-03-06T15:56:15,715 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/) 2026-03-06T15:56:15,715 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/) 2026-03-06T15:56:15,716 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/) 2026-03-06T15:56:15,716 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/) 2026-03-06T15:56:15,717 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/) 2026-03-06T15:56:15,718 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/) 2026-03-06T15:56:15,718 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/) 2026-03-06T15:56:15,719 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/) 2026-03-06T15:56:15,719 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/) 2026-03-06T15:56:15,720 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/) 2026-03-06T15:56:15,720 Skipping link: not a file: https://www.piwheels.org/simple/kssdutils/ 2026-03-06T15:56:15,721 Skipping link: not a file: https://pypi.org/simple/kssdutils/ 2026-03-06T15:56:15,743 Given no hashes to check 1 links for project 'kssdutils': discarding no candidates 2026-03-06T15:56:15,762 Collecting kssdutils==1.2.1 2026-03-06T15:56:15,764 Created temporary directory: /tmp/pip-unpack-q1rp5y3n 2026-03-06T15:56:15,977 Downloading kssdutils-1.2.1.tar.gz (45 kB) 2026-03-06T15:56:16,086 Added kssdutils==1.2.1 from https://files.pythonhosted.org/packages/bc/23/9cb4f9e681bcb9f0b76a4ba9ba04ee7196be39eb751f096b15c73846da91/kssdutils-1.2.1.tar.gz to build tracker '/tmp/pip-build-tracker-9vvp63dj' 2026-03-06T15:56:16,088 Running setup.py (path:/tmp/pip-wheel-i7wxpxlc/kssdutils_3046dc6af33a4a94bbb9fc5dad24badb/setup.py) egg_info for package kssdutils 2026-03-06T15:56:16,089 Created temporary directory: /tmp/pip-pip-egg-info-fafa8wl7 2026-03-06T15:56:16,089 Preparing metadata (setup.py): started 2026-03-06T15:56:16,091 Running command python setup.py egg_info 2026-03-06T15:56:16,121 Error processing line 1 of /home/piwheels/.local/lib/python3.11/site-packages/cntimer.pth: 2026-03-06T15:56:16,161 Traceback (most recent call last): 2026-03-06T15:56:16,162 File "", line 192, in addpackage 2026-03-06T15:56:16,162 File "", line 1, in 2026-03-06T15:56:16,163 ModuleNotFoundError: No module named 'cntimer' 2026-03-06T15:56:16,164 Remainder of file ignored 2026-03-06T15:56:16,989 running egg_info 2026-03-06T15:56:17,016 creating /tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info 2026-03-06T15:56:17,017 writing /tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info/PKG-INFO 2026-03-06T15:56:17,021 writing dependency_links to /tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info/dependency_links.txt 2026-03-06T15:56:17,023 writing top-level names to /tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info/top_level.txt 2026-03-06T15:56:17,024 writing manifest file '/tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info/SOURCES.txt' 2026-03-06T15:56:17,111 reading manifest file '/tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info/SOURCES.txt' 2026-03-06T15:56:17,112 reading manifest template 'MANIFEST.in' 2026-03-06T15:56:17,120 writing manifest file '/tmp/pip-pip-egg-info-fafa8wl7/kssdutils.egg-info/SOURCES.txt' 2026-03-06T15:56:17,228 Preparing metadata (setup.py): finished with status 'done' 2026-03-06T15:56:17,231 Source in /tmp/pip-wheel-i7wxpxlc/kssdutils_3046dc6af33a4a94bbb9fc5dad24badb has version 1.2.1, which satisfies requirement kssdutils==1.2.1 from https://files.pythonhosted.org/packages/bc/23/9cb4f9e681bcb9f0b76a4ba9ba04ee7196be39eb751f096b15c73846da91/kssdutils-1.2.1.tar.gz 2026-03-06T15:56:17,232 Removed kssdutils==1.2.1 from https://files.pythonhosted.org/packages/bc/23/9cb4f9e681bcb9f0b76a4ba9ba04ee7196be39eb751f096b15c73846da91/kssdutils-1.2.1.tar.gz from build tracker '/tmp/pip-build-tracker-9vvp63dj' 2026-03-06T15:56:17,236 Created temporary directory: /tmp/pip-unpack-1guxxjzk 2026-03-06T15:56:17,236 Building wheels for collected packages: kssdutils 2026-03-06T15:56:17,240 Created temporary directory: /tmp/pip-wheel-btpnb757 2026-03-06T15:56:17,241 Building wheel for kssdutils (setup.py): started 2026-03-06T15:56:17,242 Destination directory: /tmp/pip-wheel-btpnb757 2026-03-06T15:56:17,243 Running command python setup.py bdist_wheel 2026-03-06T15:56:17,273 Error processing line 1 of /home/piwheels/.local/lib/python3.11/site-packages/cntimer.pth: 2026-03-06T15:56:17,312 Traceback (most recent call last): 2026-03-06T15:56:17,312 File "", line 192, in addpackage 2026-03-06T15:56:17,313 File "", line 1, in 2026-03-06T15:56:17,313 ModuleNotFoundError: No module named 'cntimer' 2026-03-06T15:56:17,314 Remainder of file ignored 2026-03-06T15:56:18,065 running bdist_wheel 2026-03-06T15:56:18,168 running build 2026-03-06T15:56:18,169 running build_py 2026-03-06T15:56:18,200 creating build/lib.linux-armv7l-cpython-311 2026-03-06T15:56:18,201 copying kssdutils.py -> build/lib.linux-armv7l-cpython-311 2026-03-06T15:56:18,204 running egg_info 2026-03-06T15:56:18,231 writing kssdutils.egg-info/PKG-INFO 2026-03-06T15:56:18,233 writing dependency_links to kssdutils.egg-info/dependency_links.txt 2026-03-06T15:56:18,235 writing top-level names to kssdutils.egg-info/top_level.txt 2026-03-06T15:56:18,263 reading manifest file 'kssdutils.egg-info/SOURCES.txt' 2026-03-06T15:56:18,266 reading manifest template 'MANIFEST.in' 2026-03-06T15:56:18,274 writing manifest file 'kssdutils.egg-info/SOURCES.txt' 2026-03-06T15:56:18,276 running build_ext 2026-03-06T15:56:18,815 building 'kssdtool' extension 2026-03-06T15:56:18,817 creating build/temp.linux-armv7l-cpython-311 2026-03-06T15:56:18,818 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c co2mco.c -o build/temp.linux-armv7l-cpython-311/co2mco.o -fopenmp 2026-03-06T15:56:18,986 co2mco.c: In function ‘combco2mco’: 2026-03-06T15:56:18,988 co2mco.c:38:22: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘4294967296’ to ‘0’ [-Woverflow] 2026-03-06T15:56:18,989 38 | size_t comp_sz = (1LLU << 4 * COMPONENT_SZ); 2026-03-06T15:56:18,990 | ^ 2026-03-06T15:56:18,992 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2026-03-06T15:56:18,993 co2mco.c:96:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:18,994 96 | size_t comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:18,995 | ^~ 2026-03-06T15:56:18,995 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2026-03-06T15:56:18,996 109 | for (unsigned int i = 0; i < comp_num; i++) { 2026-03-06T15:56:18,997 | ^ 2026-03-06T15:56:19,001 co2mco.c: In function ‘co2unitllmco’: 2026-03-06T15:56:19,001 co2mco.c:184:31: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,002 184 | unsigned int comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,002 | ^~ 2026-03-06T15:56:19,003 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2026-03-06T15:56:19,004 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2026-03-06T15:56:19,004 | ^ 2026-03-06T15:56:19,005 co2mco.c: In function ‘llmco2arrmco’: 2026-03-06T15:56:19,006 co2mco.c:213:31: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,007 213 | unsigned int comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,007 | ^~ 2026-03-06T15:56:19,009 co2mco.c: In function ‘write_unit_arrmco_file’: 2026-03-06T15:56:19,010 co2mco.c:251:31: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,010 251 | unsigned int comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,011 | ^~ 2026-03-06T15:56:19,012 co2mco.c: In function ‘read_unit_arrmco_file’: 2026-03-06T15:56:19,013 co2mco.c:267:31: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,013 267 | unsigned int comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,014 | ^~ 2026-03-06T15:56:19,015 co2mco.c: In function ‘free_unit_arrmco’: 2026-03-06T15:56:19,015 co2mco.c:282:31: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,016 282 | unsigned int comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,017 | ^~ 2026-03-06T15:56:19,018 co2mco.c: In function ‘est_unitllmco_mem’: 2026-03-06T15:56:19,018 co2mco.c:292:32: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,019 292 | unsigned int comp_sz = (1U << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,020 | ^~ 2026-03-06T15:56:19,021 co2mco.c: In function ‘precise_est_unitllmco_mem’: 2026-03-06T15:56:19,021 co2mco.c:308:32: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:19,022 308 | unsigned int comp_sz = (1U << 4 * COMPONENT_SZ); 2026-03-06T15:56:19,023 | ^~ 2026-03-06T15:56:19,328 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2026-03-06T15:56:19,329 co2mco.c:101:23: warning: array subscript 0 is outside array bounds of ‘void[0]’ [-Warray-bounds] 2026-03-06T15:56:19,329 101 | mco_map.row_offset[0] = 0; 2026-03-06T15:56:19,330 | ~~~~~~~~~~~~~~~~~~^~~ 2026-03-06T15:56:19,330 co2mco.c:100:26: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:19,331 100 | mco_map.row_offset = malloc(comp_sz * sizeof(size_t)); 2026-03-06T15:56:19,332 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,437 co2mco.c: In function ‘co2unitllmco’: 2026-03-06T15:56:19,437 co2mco.c:197:20: warning: array subscript [0, 536870911] is outside array bounds of ‘mco_entry_stat_t *[0]’ [-Warray-bounds] 2026-03-06T15:56:19,438 197 | if (mco[ind] == NULL) mco[ind] = calloc(1, sizeof(mco_entry_stat_t)); 2026-03-06T15:56:19,438 | ~~~^~~~~ 2026-03-06T15:56:19,439 co2mco.c:185:30: note: object of size 0 allocated by ‘calloc’ 2026-03-06T15:56:19,440 185 | mco_entry_stat_t **mco = calloc(comp_sz, sizeof(mco_entry_stat_t *)); 2026-03-06T15:56:19,440 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,441 co2mco.c:197:38: warning: array subscript [0, 536870911] is outside array bounds of ‘mco_entry_stat_t *[0]’ [-Warray-bounds] 2026-03-06T15:56:19,442 197 | if (mco[ind] == NULL) mco[ind] = calloc(1, sizeof(mco_entry_stat_t)); 2026-03-06T15:56:19,442 | ~~~^~~~~ 2026-03-06T15:56:19,443 co2mco.c:185:30: note: object of size 0 allocated by ‘calloc’ 2026-03-06T15:56:19,443 185 | mco_entry_stat_t **mco = calloc(comp_sz, sizeof(mco_entry_stat_t *)); 2026-03-06T15:56:19,443 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,444 co2mco.c:198:22: warning: array subscript [0, 536870911] is outside array bounds of ‘mco_entry_stat_t *[0]’ [-Warray-bounds] 2026-03-06T15:56:19,444 198 | mod = mco[ind]->g_num % GID_ARR_SZ; 2026-03-06T15:56:19,445 | ~~~^~~~~ 2026-03-06T15:56:19,445 co2mco.c:185:30: note: object of size 0 allocated by ‘calloc’ 2026-03-06T15:56:19,446 185 | mco_entry_stat_t **mco = calloc(comp_sz, sizeof(mco_entry_stat_t *)); 2026-03-06T15:56:19,446 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,447 co2mco.c:201:32: warning: array subscript [0, 536870911] is outside array bounds of ‘mco_entry_stat_t *[0]’ [-Warray-bounds] 2026-03-06T15:56:19,447 201 | tmp->next = mco[ind]->next; 2026-03-06T15:56:19,448 | ~~~^~~~~ 2026-03-06T15:56:19,448 co2mco.c:185:30: note: object of size 0 allocated by ‘calloc’ 2026-03-06T15:56:19,449 185 | mco_entry_stat_t **mco = calloc(comp_sz, sizeof(mco_entry_stat_t *)); 2026-03-06T15:56:19,450 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,450 co2mco.c:204:16: warning: array subscript [0, 536870911] is outside array bounds of ‘mco_entry_stat_t *[0]’ [-Warray-bounds] 2026-03-06T15:56:19,451 204 | mco[ind]->next->gidobj[mod] = i; 2026-03-06T15:56:19,451 | ~~~^~~~~ 2026-03-06T15:56:19,452 co2mco.c:185:30: note: object of size 0 allocated by ‘calloc’ 2026-03-06T15:56:19,453 185 | mco_entry_stat_t **mco = calloc(comp_sz, sizeof(mco_entry_stat_t *)); 2026-03-06T15:56:19,453 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,520 co2mco.c: In function ‘read_unit_arrmco_file’: 2026-03-06T15:56:19,521 co2mco.c:273:15: warning: array subscript [0, 536870911] is outside array bounds of ‘gidobj_t *[0]’ {aka ‘unsigned int *[]’} [-Warray-bounds] 2026-03-06T15:56:19,521 273 | arrmco[ind] = malloc(sizeof(gidobj_t) * ((unsigned int) gid_arr_len + 1)); 2026-03-06T15:56:19,522 | ~~~~~~^~~~~ 2026-03-06T15:56:19,522 co2mco.c:269:25: note: object of size 0 allocated by ‘calloc’ 2026-03-06T15:56:19,523 269 | gidobj_t **arrmco = calloc(comp_sz, sizeof(gidobj_t *)); 2026-03-06T15:56:19,524 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,612 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_composite.c -o build/temp.linux-armv7l-cpython-311/command_composite.o -fopenmp 2026-03-06T15:56:19,985 command_composite.c: In function ‘get_species_abundance’: 2026-03-06T15:56:19,986 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2026-03-06T15:56:19,987 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2026-03-06T15:56:19,987 | ^~ 2026-03-06T15:56:19,988 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2026-03-06T15:56:19,989 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2026-03-06T15:56:19,989 | ^~ 2026-03-06T15:56:19,990 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:19,990 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2026-03-06T15:56:19,991 | ^ 2026-03-06T15:56:19,991 command_composite.c:64:31: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:19,991 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2026-03-06T15:56:19,992 | ^~~~~~~~~~ 2026-03-06T15:56:19,992 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2026-03-06T15:56:19,993 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2026-03-06T15:56:19,993 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,993 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:19,994 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2026-03-06T15:56:19,994 | ^ 2026-03-06T15:56:19,995 command_composite.c:70:31: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:19,995 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2026-03-06T15:56:19,996 | ^~~~~~~~~~ 2026-03-06T15:56:19,996 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2026-03-06T15:56:19,997 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2026-03-06T15:56:19,997 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:19,998 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:19,999 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2026-03-06T15:56:20,000 | ^ 2026-03-06T15:56:20,000 command_composite.c:76:31: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:20,001 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2026-03-06T15:56:20,002 | ^~~~~~~~~~ 2026-03-06T15:56:20,002 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2026-03-06T15:56:20,003 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2026-03-06T15:56:20,003 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,004 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:20,005 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2026-03-06T15:56:20,005 | ^ 2026-03-06T15:56:20,006 command_composite.c:82:31: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:20,006 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2026-03-06T15:56:20,007 | ^~~~~~~~~~ 2026-03-06T15:56:20,008 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2026-03-06T15:56:20,008 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2026-03-06T15:56:20,010 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,010 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:20,011 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2026-03-06T15:56:20,011 | ^ 2026-03-06T15:56:20,012 command_composite.c:88:31: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:20,012 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2026-03-06T15:56:20,013 | ^~~~~~~~~~~~ 2026-03-06T15:56:20,013 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2026-03-06T15:56:20,014 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2026-03-06T15:56:20,014 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,257 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_dist.c -o build/temp.linux-armv7l-cpython-311/command_dist.o -fopenmp 2026-03-06T15:56:20,485 command_dist.c: In function ‘mco_cbd_co_dist’: 2026-03-06T15:56:20,486 command_dist.c:637:22: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:20,487 637 | int comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:20,487 | ^~ 2026-03-06T15:56:20,489 command_dist.c:664:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2026-03-06T15:56:20,490 664 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-06T15:56:20,491 | ~~^ 2026-03-06T15:56:20,491 | | 2026-03-06T15:56:20,492 | long unsigned int 2026-03-06T15:56:20,493 | %u 2026-03-06T15:56:20,493 665 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-06T15:56:20,494 | ~~~~~~~ 2026-03-06T15:56:20,495 | | 2026-03-06T15:56:20,495 | size_t {aka unsigned int} 2026-03-06T15:56:20,496 command_dist.c:664:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2026-03-06T15:56:20,497 664 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-06T15:56:20,497 | ~~^ 2026-03-06T15:56:20,498 | | 2026-03-06T15:56:20,499 | long unsigned int 2026-03-06T15:56:20,499 | %u 2026-03-06T15:56:20,500 665 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-06T15:56:20,501 666 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-06T15:56:20,501 | ~~~~~~~~~ 2026-03-06T15:56:20,502 | | 2026-03-06T15:56:20,503 | size_t {aka unsigned int} 2026-03-06T15:56:20,503 command_dist.c:664:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2026-03-06T15:56:20,504 664 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-06T15:56:20,504 | ~~^ 2026-03-06T15:56:20,505 | | 2026-03-06T15:56:20,505 | long unsigned int 2026-03-06T15:56:20,506 | %u 2026-03-06T15:56:20,506 665 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-06T15:56:20,507 666 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-06T15:56:20,508 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,508 | | 2026-03-06T15:56:20,509 | unsigned int 2026-03-06T15:56:20,509 command_dist.c:702:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2026-03-06T15:56:20,510 702 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2026-03-06T15:56:20,510 | ^ 2026-03-06T15:56:20,511 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2026-03-06T15:56:20,511 command_dist.c:791:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:20,512 791 | size_t comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:20,512 | ^~ 2026-03-06T15:56:20,513 command_dist.c:850:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2026-03-06T15:56:20,513 850 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2026-03-06T15:56:20,513 | ~~^ ~~~~~~~ 2026-03-06T15:56:20,514 | | | 2026-03-06T15:56:20,515 | long unsigned int size_t {aka unsigned int} 2026-03-06T15:56:20,515 | %u 2026-03-06T15:56:20,516 command_dist.c:850:93: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2026-03-06T15:56:20,516 850 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2026-03-06T15:56:20,517 | ~~^ 2026-03-06T15:56:20,518 | | 2026-03-06T15:56:20,518 | long unsigned int 2026-03-06T15:56:20,519 | %u 2026-03-06T15:56:20,519 851 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2026-03-06T15:56:20,520 | ~~~~~~~~~ 2026-03-06T15:56:20,520 | | 2026-03-06T15:56:20,521 | size_t {aka unsigned int} 2026-03-06T15:56:20,521 command_dist.c:850:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2026-03-06T15:56:20,522 850 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2026-03-06T15:56:20,522 | ~~^ 2026-03-06T15:56:20,523 | | 2026-03-06T15:56:20,523 | long unsigned int 2026-03-06T15:56:20,524 | %u 2026-03-06T15:56:20,524 851 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2026-03-06T15:56:20,525 852 | (size_t) b * unitsz_distf_mapped); 2026-03-06T15:56:20,525 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,526 | | 2026-03-06T15:56:20,527 | unsigned int 2026-03-06T15:56:20,527 command_dist.c:797:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2026-03-06T15:56:20,528 797 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2026-03-06T15:56:20,529 | ^~~~~~~ 2026-03-06T15:56:20,529 command_dist.c:796:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2026-03-06T15:56:20,530 796 | struct stat cbd_fcode_stat; 2026-03-06T15:56:20,531 | ^~~~~~~~~~~~~~ 2026-03-06T15:56:20,531 command_dist.c:795:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2026-03-06T15:56:20,532 795 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2026-03-06T15:56:20,532 | ^~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,533 command_dist.c:795:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2026-03-06T15:56:20,534 795 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2026-03-06T15:56:20,534 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,535 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2026-03-06T15:56:20,535 command_dist.c:957:25: warning: left shift count >= width of type [-Wshift-count-overflow] 2026-03-06T15:56:20,536 957 | size_t comp_sz = (1 << 4 * COMPONENT_SZ); 2026-03-06T15:56:20,536 | ^~ 2026-03-06T15:56:20,537 command_dist.c:1005:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2026-03-06T15:56:20,537 1005 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-06T15:56:20,538 | ~~^ 2026-03-06T15:56:20,539 | | 2026-03-06T15:56:20,539 | long unsigned int 2026-03-06T15:56:20,540 | %u 2026-03-06T15:56:20,540 1006 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-06T15:56:20,541 | ~~~~~~~ 2026-03-06T15:56:20,542 | | 2026-03-06T15:56:20,542 | size_t {aka unsigned int} 2026-03-06T15:56:20,543 command_dist.c:1005:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2026-03-06T15:56:20,544 1005 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-06T15:56:20,544 | ~~^ 2026-03-06T15:56:20,545 | | 2026-03-06T15:56:20,545 | long unsigned int 2026-03-06T15:56:20,546 | %u 2026-03-06T15:56:20,546 1006 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-06T15:56:20,547 1007 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-06T15:56:20,548 | ~~~~~~~~~ 2026-03-06T15:56:20,548 | | 2026-03-06T15:56:20,549 | size_t {aka unsigned int} 2026-03-06T15:56:20,549 command_dist.c:1005:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2026-03-06T15:56:20,550 1005 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2026-03-06T15:56:20,550 | ~~^ 2026-03-06T15:56:20,551 | | 2026-03-06T15:56:20,552 | long unsigned int 2026-03-06T15:56:20,553 | %u 2026-03-06T15:56:20,553 1006 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2026-03-06T15:56:20,554 1007 | maplength, (size_t) b * unitsz_distf_mapped); 2026-03-06T15:56:20,554 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,555 | | 2026-03-06T15:56:20,555 | unsigned int 2026-03-06T15:56:20,556 command_dist.c:1021:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2026-03-06T15:56:20,557 1021 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2026-03-06T15:56:20,558 | ^ 2026-03-06T15:56:20,558 command_dist.c: In function ‘mco_co_dist_core’: 2026-03-06T15:56:20,559 command_dist.c:1103:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2026-03-06T15:56:20,560 1103 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2026-03-06T15:56:20,560 | ^ 2026-03-06T15:56:20,561 command_dist.c: In function ‘koc_dist_print_nobin’: 2026-03-06T15:56:20,561 command_dist.c:1226:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-06T15:56:20,562 1226 | for (int rid = 0; rid < ref_num; rid++) 2026-03-06T15:56:20,563 | ^ 2026-03-06T15:56:20,564 command_dist.c:1232:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-06T15:56:20,565 1232 | for (int rid = 0; rid < ref_num; rid++) { 2026-03-06T15:56:20,566 | ^ 2026-03-06T15:56:20,571 command_dist.c: In function ‘dist_print_nobin’: 2026-03-06T15:56:20,572 command_dist.c:1322:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-06T15:56:20,573 1322 | if ((N_max > NREF) || (N_max > ref_num)) { 2026-03-06T15:56:20,573 | ^ 2026-03-06T15:56:20,576 command_dist.c:1343:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-06T15:56:20,576 1343 | for (int rid = 0; rid < ref_num; rid++) { 2026-03-06T15:56:20,577 | ^ 2026-03-06T15:56:20,578 command_dist.c:1369:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2026-03-06T15:56:20,579 1369 | for (int rid = 0; rid < ref_num; rid++) 2026-03-06T15:56:20,580 | ^ 2026-03-06T15:56:20,939 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2026-03-06T15:56:20,939 command_dist.c:390:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2026-03-06T15:56:20,940 390 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2026-03-06T15:56:20,941 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:20,941 command_dist.c:362:40: note: ‘com_abund_fp’ was declared here 2026-03-06T15:56:20,942 362 | FILE *com_cofp, *indexfp, *com_abund_fp; 2026-03-06T15:56:20,943 | ^~~~~~~~~~~~ 2026-03-06T15:56:21,775 command_dist.c: In function ‘get_dim_shuffle’: 2026-03-06T15:56:21,776 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2026-03-06T15:56:21,776 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2026-03-06T15:56:21,777 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:21,778 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2026-03-06T15:56:21,778 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2026-03-06T15:56:21,779 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,674 command_dist.c: In function ‘mco_cbd_co_dist’: 2026-03-06T15:56:22,675 command_dist.c:583:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:22,675 583 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-06T15:56:22,676 | ^~ ~~~~~~~~~ 2026-03-06T15:56:22,676 command_dist.c:583:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2026-03-06T15:56:22,677 583 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-06T15:56:22,678 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,678 command_dist.c:612:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:22,679 612 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-06T15:56:22,679 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:22,680 command_dist.c:612:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2026-03-06T15:56:22,680 612 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-06T15:56:22,681 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,682 command_dist.c:668:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:22,683 668 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-06T15:56:22,683 | ^~~~~~~~~~~ 2026-03-06T15:56:22,684 command_dist.c:668:38: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:22,684 668 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-06T15:56:22,685 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,685 command_dist.c:668:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2026-03-06T15:56:22,686 668 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-06T15:56:22,686 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,687 command_dist.c:669:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:22,688 669 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-06T15:56:22,688 | ^~~~~ 2026-03-06T15:56:22,689 command_dist.c:669:32: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:22,689 669 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-06T15:56:22,690 | ^~~~~~~~~~~ 2026-03-06T15:56:22,690 command_dist.c:669:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-06T15:56:22,691 669 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-06T15:56:22,692 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,916 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2026-03-06T15:56:22,917 command_dist.c:750:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:22,917 750 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-06T15:56:22,918 | ^~ ~~~~~~~~~ 2026-03-06T15:56:22,919 command_dist.c:750:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2026-03-06T15:56:22,919 750 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-06T15:56:22,920 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,920 command_dist.c:777:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:22,921 777 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-06T15:56:22,921 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:22,922 command_dist.c:777:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2026-03-06T15:56:22,922 777 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-06T15:56:22,923 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,923 command_dist.c:810:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:22,924 810 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-06T15:56:22,924 | ^~~~~~~~~~~~~ 2026-03-06T15:56:22,925 command_dist.c:810:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2026-03-06T15:56:22,925 810 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-06T15:56:22,926 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,926 command_dist.c:836:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:22,927 836 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2026-03-06T15:56:22,927 | ^ 2026-03-06T15:56:22,928 command_dist.c:836:33: note: directive argument in the range [0, 536870912] 2026-03-06T15:56:22,929 836 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2026-03-06T15:56:22,929 | ^~~~~~~~~~ 2026-03-06T15:56:22,930 command_dist.c:836:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2026-03-06T15:56:22,930 836 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2026-03-06T15:56:22,931 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:22,931 command_dist.c:838:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:22,932 838 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2026-03-06T15:56:22,932 | ^ 2026-03-06T15:56:22,933 command_dist.c:838:28: note: directive argument in the range [0, 536870912] 2026-03-06T15:56:22,933 838 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2026-03-06T15:56:22,934 | ^~~~~~~~~~ 2026-03-06T15:56:22,934 command_dist.c:838:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2026-03-06T15:56:22,935 838 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2026-03-06T15:56:22,935 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,188 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2026-03-06T15:56:23,189 command_dist.c:914:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:23,190 914 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-06T15:56:23,190 | ^~ ~~~~~~~~~ 2026-03-06T15:56:23,191 command_dist.c:914:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2026-03-06T15:56:23,191 914 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2026-03-06T15:56:23,192 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,192 command_dist.c:943:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:23,193 943 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-06T15:56:23,193 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:23,194 command_dist.c:943:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2026-03-06T15:56:23,195 943 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2026-03-06T15:56:23,195 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,196 command_dist.c:977:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:23,196 977 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-06T15:56:23,197 | ^~~~~~~~~~~~~ 2026-03-06T15:56:23,197 command_dist.c:977:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2026-03-06T15:56:23,198 977 | sprintf(distf, "%s/distance.out", distout_dir); 2026-03-06T15:56:23,199 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,199 command_dist.c:1009:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:23,200 1009 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-06T15:56:23,200 | ^~~~~~~~~~~ 2026-03-06T15:56:23,201 command_dist.c:1009:38: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:23,202 1009 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-06T15:56:23,202 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,202 command_dist.c:1009:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2026-03-06T15:56:23,203 1009 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2026-03-06T15:56:23,203 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,204 command_dist.c:1010:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2026-03-06T15:56:23,204 1010 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-06T15:56:23,205 | ^~~~~ 2026-03-06T15:56:23,205 command_dist.c:1010:32: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:23,206 1010 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-06T15:56:23,206 | ^~~~~~~~~~~ 2026-03-06T15:56:23,207 command_dist.c:1010:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-06T15:56:23,207 1010 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2026-03-06T15:56:23,208 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,472 command_dist.c: In function ‘combine_queries’: 2026-03-06T15:56:23,474 command_dist.c:1479:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:23,474 1479 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2026-03-06T15:56:23,475 | ^ 2026-03-06T15:56:23,476 command_dist.c:1479:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:23,476 1479 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2026-03-06T15:56:23,477 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,478 command_dist.c:1486:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:23,478 1486 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2026-03-06T15:56:23,479 | ^ 2026-03-06T15:56:23,480 command_dist.c:1486:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:23,480 1486 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2026-03-06T15:56:23,481 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,483 command_dist.c:1590:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:23,484 1590 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2026-03-06T15:56:23,484 | ^~ ~~~~~~~~ 2026-03-06T15:56:23,485 command_dist.c:1590:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2026-03-06T15:56:23,486 1590 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2026-03-06T15:56:23,486 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:23,967 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_dist_wrapper.c -o build/temp.linux-armv7l-cpython-311/command_dist_wrapper.o -fopenmp 2026-03-06T15:56:24,140 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_set.c -o build/temp.linux-armv7l-cpython-311/command_set.o -fopenmp 2026-03-06T15:56:24,304 command_set.c: In function ‘sketch_union’: 2026-03-06T15:56:24,305 command_set.c:77:22: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘4294967296’ to ‘0’ [-Woverflow] 2026-03-06T15:56:24,305 77 | size_t comp_sz = (1LLU << 4*COMPONENT_SZ); 2026-03-06T15:56:24,306 | ^ 2026-03-06T15:56:24,308 command_set.c: In function ‘sketch_operate’: 2026-03-06T15:56:24,308 command_set.c:148:22: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘4294967296’ to ‘0’ [-Woverflow] 2026-03-06T15:56:24,309 148 | size_t comp_sz = (1LLU << 4*COMPONENT_SZ); 2026-03-06T15:56:24,309 | ^ 2026-03-06T15:56:24,310 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2026-03-06T15:56:24,311 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2026-03-06T15:56:24,311 | ^ 2026-03-06T15:56:24,313 command_set.c: In function ‘uniq_sketch_union’: 2026-03-06T15:56:24,314 command_set.c:240:22: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘4294967296’ to ‘0’ [-Woverflow] 2026-03-06T15:56:24,315 240 | size_t comp_sz = (1LLU << 4*COMPONENT_SZ); 2026-03-06T15:56:24,315 | ^ 2026-03-06T15:56:24,324 command_set.c: In function ‘combin_subset_pans’: 2026-03-06T15:56:24,325 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2026-03-06T15:56:24,325 457 | free(co_dstat_fpath); 2026-03-06T15:56:24,326 | ^~~~~~~~~~~~~~ 2026-03-06T15:56:24,327 In file included from kssdheaders/global_basic.h:159, 2026-03-06T15:56:24,327 from command_set.c:15: 2026-03-06T15:56:24,328 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2026-03-06T15:56:24,329 568 | extern void free (void *__ptr) __THROW; 2026-03-06T15:56:24,330 | ~~~~~~^~~~~ 2026-03-06T15:56:24,330 command_set.c:465:22: warning: conversion from ‘long long unsigned int’ to ‘size_t’ {aka ‘unsigned int’} changes value from ‘4294967296’ to ‘0’ [-Woverflow] 2026-03-06T15:56:24,331 465 | size_t comp_sz = (1LLU << 4*COMPONENT_SZ); 2026-03-06T15:56:24,332 | ^ 2026-03-06T15:56:24,332 command_set.c: In function ‘grouping_genomes’: 2026-03-06T15:56:24,333 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2026-03-06T15:56:24,334 562 | free(co_dstat_fpath); 2026-03-06T15:56:24,334 | ^~~~~~~~~~~~~~ 2026-03-06T15:56:24,335 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2026-03-06T15:56:24,336 568 | extern void free (void *__ptr) __THROW; 2026-03-06T15:56:24,336 | ~~~~~~^~~~~ 2026-03-06T15:56:24,469 command_set.c: In function ‘sketch_union’: 2026-03-06T15:56:24,469 command_set.c:89:17: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,470 89 | dict[tmpcbdco/64] |= ( 0x8000000000000000LLU >> (tmpcbdco % 64) ) ; 2026-03-06T15:56:24,471 | ~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,472 command_set.c:78:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,472 78 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,473 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,473 command_set.c:89:17: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,474 89 | dict[tmpcbdco/64] |= ( 0x8000000000000000LLU >> (tmpcbdco % 64) ) ; 2026-03-06T15:56:24,474 | ~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,475 command_set.c:78:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,475 78 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,476 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,484 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:24,484 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,485 | ^ 2026-03-06T15:56:24,486 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:24,486 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,487 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,487 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,488 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-06T15:56:24,488 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,489 command_set.c:82:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,490 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-06T15:56:24,491 | ^~~~~~~~~~ 2026-03-06T15:56:24,491 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:24,492 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-06T15:56:24,493 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,494 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,494 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2026-03-06T15:56:24,495 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:24,495 command_set.c:92:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,496 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2026-03-06T15:56:24,497 | ^~~~~~~~~~ 2026-03-06T15:56:24,497 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-06T15:56:24,498 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2026-03-06T15:56:24,499 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,570 command_set.c: In function ‘sketch_operate’: 2026-03-06T15:56:24,571 command_set.c:179:49: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,571 179 | if( set_opt.operation == ( (dict[ cbd_fcode_mem[ fco_pos[i] + n ]/64 ] & (0x8000000000000000LLU >> (cbd_fcode_mem[ fco_pos[i] + n ] % 64)) ) > 0 ) ){ 2026-03-06T15:56:24,572 | ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,573 command_set.c:149:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,573 149 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,574 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,575 command_set.c:162:17: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,576 162 | dict[tmppanco/64] |= ( 0x8000000000000000LLU >> (tmppanco % 64) ) ; 2026-03-06T15:56:24,576 | ~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,577 command_set.c:149:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,577 149 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,577 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,578 command_set.c:162:17: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,579 162 | dict[tmppanco/64] |= ( 0x8000000000000000LLU >> (tmppanco % 64) ) ; 2026-03-06T15:56:24,579 | ~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,580 command_set.c:149:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,580 149 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,581 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,603 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,604 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2026-03-06T15:56:24,604 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:24,605 command_set.c:153:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,605 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2026-03-06T15:56:24,606 | ^~~~~~~~~~ 2026-03-06T15:56:24,606 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2026-03-06T15:56:24,607 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2026-03-06T15:56:24,607 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,608 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,609 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2026-03-06T15:56:24,610 | ^~ ~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,610 command_set.c:155:29: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,611 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2026-03-06T15:56:24,612 | ^~~~~~~~~~ 2026-03-06T15:56:24,613 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2026-03-06T15:56:24,613 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2026-03-06T15:56:24,614 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,614 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,615 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-06T15:56:24,616 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,616 command_set.c:165:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,617 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-06T15:56:24,618 | ^~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,619 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-06T15:56:24,620 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-06T15:56:24,620 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,621 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,621 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-06T15:56:24,622 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,622 command_set.c:169:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,623 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-06T15:56:24,623 | ^~~~~~~~~~ 2026-03-06T15:56:24,624 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:24,624 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2026-03-06T15:56:24,625 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,625 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,626 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2026-03-06T15:56:24,626 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,627 command_set.c:174:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,627 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2026-03-06T15:56:24,628 | ^~~~~~~~~~ 2026-03-06T15:56:24,628 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:24,629 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2026-03-06T15:56:24,630 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,630 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,631 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2026-03-06T15:56:24,632 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,633 command_set.c:187:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,633 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2026-03-06T15:56:24,634 | ^~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,635 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-06T15:56:24,635 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2026-03-06T15:56:24,636 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,637 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:24,637 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,638 | ^ 2026-03-06T15:56:24,639 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:24,639 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,640 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,751 command_set.c: In function ‘uniq_sketch_union’: 2026-03-06T15:56:24,752 command_set.c:254:22: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,752 254 | if ( dict[tmpcbdco/64] & ( 0x8000000000000000LLU >> (tmpcbdco % 64) )) 2026-03-06T15:56:24,753 | ~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,753 command_set.c:241:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,754 241 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,754 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,755 command_set.c:255:22: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,756 255 | dict2[tmpcbdco/64] &= ~( 0x8000000000000000LLU >> (tmpcbdco % 64) ); 2026-03-06T15:56:24,756 | ~~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,757 command_set.c:242:28: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,757 242 | llong* dict2 = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,758 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,758 command_set.c:255:22: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,759 255 | dict2[tmpcbdco/64] &= ~( 0x8000000000000000LLU >> (tmpcbdco % 64) ); 2026-03-06T15:56:24,759 | ~~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,760 command_set.c:242:28: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,760 242 | llong* dict2 = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,761 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,761 command_set.c:256:17: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:24,762 256 | dict[tmpcbdco/64] |= ( 0x8000000000000000LLU >> (tmpcbdco % 64) ) ; 2026-03-06T15:56:24,762 | ~~~~^~~~~~~~~~~~~ 2026-03-06T15:56:24,763 command_set.c:241:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:24,764 241 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:24,765 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,771 command_set.c:219:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:24,772 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2026-03-06T15:56:24,772 | ^ 2026-03-06T15:56:24,773 command_set.c:219:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2026-03-06T15:56:24,773 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2026-03-06T15:56:24,774 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,775 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:24,775 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,776 | ^ 2026-03-06T15:56:24,777 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:24,777 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,778 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,779 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,779 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-06T15:56:24,780 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,781 command_set.c:247:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,781 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-06T15:56:24,782 | ^~~~~~~~~~ 2026-03-06T15:56:24,783 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:24,783 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2026-03-06T15:56:24,784 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,784 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,785 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2026-03-06T15:56:24,785 | ^~ ~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,786 command_set.c:259:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:24,786 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2026-03-06T15:56:24,787 | ^~~~~~~~~~ 2026-03-06T15:56:24,787 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2026-03-06T15:56:24,788 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2026-03-06T15:56:24,788 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,894 command_set.c: In function ‘combin_pans’: 2026-03-06T15:56:24,894 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,895 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:24,895 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:24,896 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2026-03-06T15:56:24,896 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:24,897 | ^~~~~~~~~~ 2026-03-06T15:56:24,898 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2026-03-06T15:56:24,899 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:24,899 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,900 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:24,901 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:24,901 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:24,902 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2026-03-06T15:56:24,903 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:24,903 | ^~~~~~~~~~ 2026-03-06T15:56:24,904 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2026-03-06T15:56:24,905 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:24,905 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:24,906 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:24,907 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,907 | ^ 2026-03-06T15:56:24,908 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:24,909 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:24,909 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,066 command_set.c: In function ‘combin_subset_pans’: 2026-03-06T15:56:25,066 command_set.c:492:25: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:25,067 492 | dict[tmpcombco[i]/64] |= ( 0x8000000000000000LLU >> (tmpcombco[i] % 64) ) ; 2026-03-06T15:56:25,068 | ~~~~^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,068 command_set.c:466:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:25,069 466 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:25,069 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,070 command_set.c:492:25: warning: array subscript 0 is outside array bounds of ‘llong[0]’ {aka ‘long long unsigned int[]’} [-Warray-bounds] 2026-03-06T15:56:25,070 492 | dict[tmpcombco[i]/64] |= ( 0x8000000000000000LLU >> (tmpcombco[i] % 64) ) ; 2026-03-06T15:56:25,071 | ~~~~^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,071 command_set.c:466:27: note: object of size 0 allocated by ‘malloc’ 2026-03-06T15:56:25,072 466 | llong* dict = (llong*)malloc(comp_sz/8); 2026-03-06T15:56:25,072 | ^~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,103 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,103 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-06T15:56:25,104 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:25,104 command_set.c:469:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,105 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-06T15:56:25,105 | ^~~~~~~~~~ 2026-03-06T15:56:25,106 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:25,106 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-06T15:56:25,107 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,108 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,108 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-06T15:56:25,109 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:25,109 command_set.c:475:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,109 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-06T15:56:25,110 | ^~~~~~~~~~ 2026-03-06T15:56:25,111 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-06T15:56:25,111 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-06T15:56:25,112 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,113 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,113 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:25,114 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:25,115 command_set.c:481:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,115 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:25,116 | ^~~~~~~~~~ 2026-03-06T15:56:25,117 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:25,117 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:25,118 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,119 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,119 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:25,120 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:25,120 command_set.c:512:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,121 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:25,121 | ^~~~~~~~~~ 2026-03-06T15:56:25,122 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-06T15:56:25,123 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:25,123 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,124 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:25,124 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:25,125 | ^ 2026-03-06T15:56:25,126 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:25,126 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:25,127 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,322 command_set.c: In function ‘grouping_genomes’: 2026-03-06T15:56:25,323 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,323 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-06T15:56:25,324 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:25,325 command_set.c:574:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,325 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-06T15:56:25,326 | ^~~~~~~~~~ 2026-03-06T15:56:25,326 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:25,327 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2026-03-06T15:56:25,327 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,328 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,329 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-06T15:56:25,329 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:25,330 command_set.c:580:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,330 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-06T15:56:25,331 | ^~~~~~~~~~ 2026-03-06T15:56:25,332 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-06T15:56:25,332 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2026-03-06T15:56:25,333 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,333 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,334 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:25,335 | ^~ ~~~~~~~~~~~ 2026-03-06T15:56:25,336 command_set.c:612:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,336 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:25,337 | ^~~~~~~~~~ 2026-03-06T15:56:25,338 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2026-03-06T15:56:25,338 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2026-03-06T15:56:25,339 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,340 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2026-03-06T15:56:25,340 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:25,341 | ^~ ~~~~~~~~~~ 2026-03-06T15:56:25,341 command_set.c:634:25: note: directive argument in the range [-2147483644, 2147483646] 2026-03-06T15:56:25,342 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:25,342 | ^~~~~~~~~~ 2026-03-06T15:56:25,343 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2026-03-06T15:56:25,343 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2026-03-06T15:56:25,344 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,344 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2026-03-06T15:56:25,344 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:25,345 | ^ 2026-03-06T15:56:25,345 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2026-03-06T15:56:25,346 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2026-03-06T15:56:25,346 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2026-03-06T15:56:25,617 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c command_shuffle.c -o build/temp.linux-armv7l-cpython-311/command_shuffle.o -fopenmp 2026-03-06T15:56:25,933 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c global_basic.c -o build/temp.linux-armv7l-cpython-311/global_basic.o -fopenmp 2026-03-06T15:56:26,108 global_basic.c: In function ‘organize_infile_list’: 2026-03-06T15:56:26,108 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2026-03-06T15:56:26,109 195 | while (isspace(*buf)) buf++; 2026-03-06T15:56:26,110 | ^~~~~~~ 2026-03-06T15:56:26,111 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2026-03-06T15:56:26,111 34 | #include 2026-03-06T15:56:26,112 +++ |+#include 2026-03-06T15:56:26,113 35 | 2026-03-06T15:56:26,113 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=] 2026-03-06T15:56:26,114 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2026-03-06T15:56:26,115 | ~~^ 2026-03-06T15:56:26,115 | | 2026-03-06T15:56:26,116 | long unsigned int 2026-03-06T15:56:26,117 | %u 2026-03-06T15:56:26,118 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2026-03-06T15:56:26,119 | ~~~~~~~~~~~ 2026-03-06T15:56:26,120 | | 2026-03-06T15:56:26,120 | size_t {aka unsigned int} 2026-03-06T15:56:26,121 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=] 2026-03-06T15:56:26,121 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2026-03-06T15:56:26,123 | ~~^ 2026-03-06T15:56:26,123 | | 2026-03-06T15:56:26,124 | long unsigned int 2026-03-06T15:56:26,125 | %u 2026-03-06T15:56:26,125 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2026-03-06T15:56:26,126 | ~~~~~~~~~~~ 2026-03-06T15:56:26,126 | | 2026-03-06T15:56:26,127 | size_t {aka unsigned int} 2026-03-06T15:56:26,882 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c iseq2comem.c -o build/temp.linux-armv7l-cpython-311/iseq2comem.o -fopenmp 2026-03-06T15:56:27,060 iseq2comem.c: In function ‘reads2mco’: 2026-03-06T15:56:27,061 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,062 156 | if (base > TL) { 2026-03-06T15:56:27,062 | ^ 2026-03-06T15:56:27,063 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,064 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,064 | ^~ 2026-03-06T15:56:27,065 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,066 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,066 | ^ 2026-03-06T15:56:27,067 iseq2comem.c: In function ‘fasta2co’: 2026-03-06T15:56:27,068 iseq2comem.c:213:69: warning: too many arguments for format [-Wformat-extra-args] 2026-03-06T15:56:27,068 213 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2026-03-06T15:56:27,069 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:27,070 iseq2comem.c:219:69: warning: too many arguments for format [-Wformat-extra-args] 2026-03-06T15:56:27,070 219 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2026-03-06T15:56:27,071 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:27,072 iseq2comem.c:261:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,072 261 | if (base > TL) { 2026-03-06T15:56:27,073 | ^ 2026-03-06T15:56:27,074 iseq2comem.c:265:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,075 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,075 | ^~ 2026-03-06T15:56:27,076 iseq2comem.c:265:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,076 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,077 | ^ 2026-03-06T15:56:27,077 iseq2comem.c: In function ‘fastq2co’: 2026-03-06T15:56:27,078 iseq2comem.c:295:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2026-03-06T15:56:27,078 295 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2026-03-06T15:56:27,079 | ^~ 2026-03-06T15:56:27,079 iseq2comem.c:307:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-06T15:56:27,080 307 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2026-03-06T15:56:27,081 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:27,081 iseq2comem.c:313:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-06T15:56:27,082 313 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2026-03-06T15:56:27,082 | ^~~~~~~~~~~~~~~ 2026-03-06T15:56:27,083 iseq2comem.c:352:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,084 352 | if (base > TL) { 2026-03-06T15:56:27,084 | ^ 2026-03-06T15:56:27,085 iseq2comem.c:356:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,086 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,087 | ^~ 2026-03-06T15:56:27,087 iseq2comem.c:356:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,088 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,089 | ^ 2026-03-06T15:56:27,090 iseq2comem.c:375:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,090 375 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2026-03-06T15:56:27,091 | ^ 2026-03-06T15:56:27,092 iseq2comem.c: In function ‘fastq2koc’: 2026-03-06T15:56:27,092 iseq2comem.c:403:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-06T15:56:27,093 403 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2026-03-06T15:56:27,093 | ^~~~~~~~~~~~~~~~ 2026-03-06T15:56:27,094 iseq2comem.c:409:68: warning: too many arguments for format [-Wformat-extra-args] 2026-03-06T15:56:27,095 409 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2026-03-06T15:56:27,095 | ^~~~~~~~~~~~~~~~ 2026-03-06T15:56:27,096 iseq2comem.c:448:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,097 448 | if (base > TL) { 2026-03-06T15:56:27,098 | ^ 2026-03-06T15:56:27,098 iseq2comem.c:452:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,099 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,099 | ^~ 2026-03-06T15:56:27,100 iseq2comem.c:452:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,100 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,101 | ^ 2026-03-06T15:56:27,102 iseq2comem.c: In function ‘mt_shortreads2koc’: 2026-03-06T15:56:27,102 iseq2comem.c:628:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,103 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,103 | ^~ 2026-03-06T15:56:27,104 iseq2comem.c:628:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2026-03-06T15:56:27,104 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2026-03-06T15:56:27,105 | ^ 2026-03-06T15:56:28,489 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c mman.c -o build/temp.linux-armv7l-cpython-311/mman.o -fopenmp 2026-03-06T15:56:28,543 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c mytime.c -o build/temp.linux-armv7l-cpython-311/mytime.o -fopenmp 2026-03-06T15:56:28,663 arm-linux-gnueabihf-gcc -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -fPIC -Ikssdheaders -I/usr/include/python3.11 -c pykssd.c -o build/temp.linux-armv7l-cpython-311/pykssd.o -fopenmp 2026-03-06T15:56:29,057 pykssd.c: In function ‘py_dist_dispatch’: 2026-03-06T15:56:29,058 pykssd.c:436:13: warning: unused variable ‘state1’ [-Wunused-variable] 2026-03-06T15:56:29,059 436 | int state1 = dist_dispatch(&dist_opt_val1); 2026-03-06T15:56:29,059 | ^~~~~~ 2026-03-06T15:56:29,060 pykssd.c:501:13: warning: unused variable ‘state2’ [-Wunused-variable] 2026-03-06T15:56:29,060 501 | int state2 = dist_dispatch(&dist_opt_val2); 2026-03-06T15:56:29,061 | ^~~~~~ 2026-03-06T15:56:29,062 pykssd.c:635:13: warning: unused variable ‘state4’ [-Wunused-variable] 2026-03-06T15:56:29,062 635 | int state4 = dist_dispatch(&dist_opt_val4); 2026-03-06T15:56:29,063 | ^~~~~~ 2026-03-06T15:56:29,817 arm-linux-gnueabihf-gcc -shared -Wl,-O1 -Wl,-Bsymbolic-functions -g -fwrapv -O2 build/temp.linux-armv7l-cpython-311/co2mco.o build/temp.linux-armv7l-cpython-311/command_composite.o build/temp.linux-armv7l-cpython-311/command_dist.o build/temp.linux-armv7l-cpython-311/command_dist_wrapper.o build/temp.linux-armv7l-cpython-311/command_set.o build/temp.linux-armv7l-cpython-311/command_shuffle.o build/temp.linux-armv7l-cpython-311/global_basic.o build/temp.linux-armv7l-cpython-311/iseq2comem.o build/temp.linux-armv7l-cpython-311/mman.o build/temp.linux-armv7l-cpython-311/mytime.o build/temp.linux-armv7l-cpython-311/pykssd.o -L/usr/lib/arm-linux-gnueabihf -lz -o build/lib.linux-armv7l-cpython-311/kssdtool.cpython-311-arm-linux-gnueabihf.so -fopenmp 2026-03-06T15:56:30,044 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2026-03-06T15:56:30,045 !! 2026-03-06T15:56:30,047 ******************************************************************************** 2026-03-06T15:56:30,047 Please avoid running ``setup.py`` directly. 2026-03-06T15:56:30,048 Instead, use pypa/build, pypa/installer or other 2026-03-06T15:56:30,048 standards-based tools. 2026-03-06T15:56:30,050 This deprecation is overdue, please update your project and remove deprecated 2026-03-06T15:56:30,050 calls to avoid build errors in the future. 2026-03-06T15:56:30,052 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2026-03-06T15:56:30,052 ******************************************************************************** 2026-03-06T15:56:30,053 !! 2026-03-06T15:56:30,054 self.initialize_options() 2026-03-06T15:56:30,075 installing to build/bdist.linux-armv7l/wheel 2026-03-06T15:56:30,075 running install 2026-03-06T15:56:30,099 running install_lib 2026-03-06T15:56:30,128 creating build/bdist.linux-armv7l/wheel 2026-03-06T15:56:30,130 copying build/lib.linux-armv7l-cpython-311/kssdtool.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2026-03-06T15:56:30,361 copying build/lib.linux-armv7l-cpython-311/kssdutils.py -> build/bdist.linux-armv7l/wheel/. 2026-03-06T15:56:30,365 running install_egg_info 2026-03-06T15:56:30,430 Copying kssdutils.egg-info to build/bdist.linux-armv7l/wheel/./kssdutils-1.2.1-py3.11.egg-info 2026-03-06T15:56:30,441 running install_scripts 2026-03-06T15:56:30,490 creating build/bdist.linux-armv7l/wheel/kssdutils-1.2.1.dist-info/WHEEL 2026-03-06T15:56:30,492 creating '/tmp/pip-wheel-btpnb757/kssdutils-1.2.1-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2026-03-06T15:56:30,575 adding 'kssdtool.cpython-311-arm-linux-gnueabihf.so' 2026-03-06T15:56:30,579 adding 'kssdutils.py' 2026-03-06T15:56:30,581 adding 'kssdutils-1.2.1.dist-info/METADATA' 2026-03-06T15:56:30,583 adding 'kssdutils-1.2.1.dist-info/WHEEL' 2026-03-06T15:56:30,584 adding 'kssdutils-1.2.1.dist-info/dependency_links.txt' 2026-03-06T15:56:30,585 adding 'kssdutils-1.2.1.dist-info/top_level.txt' 2026-03-06T15:56:30,586 adding 'kssdutils-1.2.1.dist-info/RECORD' 2026-03-06T15:56:30,589 removing build/bdist.linux-armv7l/wheel 2026-03-06T15:56:30,745 Building wheel for kssdutils (setup.py): finished with status 'done' 2026-03-06T15:56:30,749 Created wheel for kssdutils: filename=kssdutils-1.2.1-cp311-cp311-linux_armv7l.whl size=178225 sha256=9d55e37a6df79cb1066656b0f52692392178b3f97bda504b42bd688c9f56e70f 2026-03-06T15:56:30,750 Stored in directory: /tmp/pip-ephem-wheel-cache-iw1_si6y/wheels/c5/be/bd/5fd2db3038e3f4595e9de63810baa2c55c3c400e8ad83d8e3d 2026-03-06T15:56:30,759 Successfully built kssdutils 2026-03-06T15:56:30,766 Removed build tracker: '/tmp/pip-build-tracker-9vvp63dj'