2024-12-29T00:51:40,957 Created temporary directory: /tmp/pip-build-tracker-njot65dr 2024-12-29T00:51:40,958 Initialized build tracking at /tmp/pip-build-tracker-njot65dr 2024-12-29T00:51:40,959 Created build tracker: /tmp/pip-build-tracker-njot65dr 2024-12-29T00:51:40,959 Entered build tracker: /tmp/pip-build-tracker-njot65dr 2024-12-29T00:51:40,960 Created temporary directory: /tmp/pip-wheel-iwqf55sr 2024-12-29T00:51:40,964 Created temporary directory: /tmp/pip-ephem-wheel-cache-bhwhg_pg 2024-12-29T00:51:41,007 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2024-12-29T00:51:41,009 2 location(s) to search for versions of kssdutils: 2024-12-29T00:51:41,009 * https://pypi.org/simple/kssdutils/ 2024-12-29T00:51:41,009 * https://www.piwheels.org/simple/kssdutils/ 2024-12-29T00:51:41,010 Fetching project page and analyzing links: https://pypi.org/simple/kssdutils/ 2024-12-29T00:51:41,011 Getting page https://pypi.org/simple/kssdutils/ 2024-12-29T00:51:41,012 Found index url https://pypi.org/simple/ 2024-12-29T00:51:41,805 Fetched page https://pypi.org/simple/kssdutils/ as application/vnd.pypi.simple.v1+json 2024-12-29T00:51:41,810 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 2024-12-29T00:51:41,811 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 2024-12-29T00:51:41,812 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 2024-12-29T00:51:41,813 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 2024-12-29T00:51:41,814 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 2024-12-29T00:51:41,816 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 2024-12-29T00:51:41,817 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 2024-12-29T00:51:41,818 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdutils/ 2024-12-29T00:51:41,820 Getting page https://www.piwheels.org/simple/kssdutils/ 2024-12-29T00:51:41,823 Found index url https://www.piwheels.org/simple/ 2024-12-29T00:51:42,041 Fetched page https://www.piwheels.org/simple/kssdutils/ as text/html 2024-12-29T00:51:42,047 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp311-cp311-linux_armv6l.whl#sha256=24cea74c37c72ec3f541e6eca026f6a906455d0e0160dc7d0f4526ab89a58125 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,048 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp311-cp311-linux_armv7l.whl#sha256=24cea74c37c72ec3f541e6eca026f6a906455d0e0160dc7d0f4526ab89a58125 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,048 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp39-cp39-linux_armv6l.whl#sha256=bfe64af80d2aab63dccf6fb0418e3b806f4ee1b2fcff0eab77094040d2b6dca5 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,049 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.6-cp39-cp39-linux_armv7l.whl#sha256=bfe64af80d2aab63dccf6fb0418e3b806f4ee1b2fcff0eab77094040d2b6dca5 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,049 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp311-cp311-linux_armv6l.whl#sha256=29ec8af3f080743643fee31ce978f3d65a6d90b950248e2ed6827316567aaa62 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,050 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp311-cp311-linux_armv7l.whl#sha256=29ec8af3f080743643fee31ce978f3d65a6d90b950248e2ed6827316567aaa62 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,051 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp39-cp39-linux_armv6l.whl#sha256=fb21de5c7d85619ac9cc1fafe3280f0130178032b169f1cf7ceac0cb6326d42e (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,051 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.5-cp39-cp39-linux_armv7l.whl#sha256=fb21de5c7d85619ac9cc1fafe3280f0130178032b169f1cf7ceac0cb6326d42e (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,052 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp311-cp311-linux_armv6l.whl#sha256=85c10f6c3223fb99e39dfddbef722fd2913bd5c63f089283ce23dae20c6a4a4d (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,052 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp311-cp311-linux_armv7l.whl#sha256=85c10f6c3223fb99e39dfddbef722fd2913bd5c63f089283ce23dae20c6a4a4d (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,053 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp39-cp39-linux_armv6l.whl#sha256=809195defd92c452797e9a87d99cfa8217c9ca4800c4a57d3e669846368160b1 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,053 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.2-cp39-cp39-linux_armv7l.whl#sha256=809195defd92c452797e9a87d99cfa8217c9ca4800c4a57d3e669846368160b1 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,054 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp311-cp311-linux_armv6l.whl#sha256=88788d94e7e118cfdf4e2cb04c558d2032ffa4f9352b663efd1a76f098c9f31d (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,054 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp311-cp311-linux_armv7l.whl#sha256=88788d94e7e118cfdf4e2cb04c558d2032ffa4f9352b663efd1a76f098c9f31d (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,055 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp39-cp39-linux_armv6l.whl#sha256=29a695a62aae6fa18fcad3ae6bfc6bbe19f545f66740fde177ddbf23efa45d15 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,056 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.1-cp39-cp39-linux_armv7l.whl#sha256=29a695a62aae6fa18fcad3ae6bfc6bbe19f545f66740fde177ddbf23efa45d15 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,056 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp311-cp311-linux_armv6l.whl#sha256=e93f43f34a8ab412f6a0c97bc930a5c9c72997258d109e3f069a56b6270ff331 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,057 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp311-cp311-linux_armv7l.whl#sha256=e93f43f34a8ab412f6a0c97bc930a5c9c72997258d109e3f069a56b6270ff331 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,057 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp39-cp39-linux_armv6l.whl#sha256=0d9c0566cba326dbedbea1c1ea643cc81efe1b0b47b292f956e933d1a9fedb35 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,058 Skipping link: No binaries permitted for kssdutils: https://www.piwheels.org/simple/kssdutils/kssdutils-1.0.0-cp39-cp39-linux_armv7l.whl#sha256=0d9c0566cba326dbedbea1c1ea643cc81efe1b0b47b292f956e933d1a9fedb35 (from https://www.piwheels.org/simple/kssdutils/) 2024-12-29T00:51:42,059 Skipping link: not a file: https://www.piwheels.org/simple/kssdutils/ 2024-12-29T00:51:42,059 Skipping link: not a file: https://pypi.org/simple/kssdutils/ 2024-12-29T00:51:42,077 Given no hashes to check 1 links for project 'kssdutils': discarding no candidates 2024-12-29T00:51:42,079 Collecting kssdutils==1.0.7 2024-12-29T00:51:42,081 Created temporary directory: /tmp/pip-unpack-4i8tw0fp 2024-12-29T00:51:42,222 Downloading kssdutils-1.0.7.tar.gz (44 kB) 2024-12-29T00:51:42,323 Added kssdutils==1.0.7 from https://files.pythonhosted.org/packages/78/17/7776b7c3b149fedfb0fba98bce07fdf08cb53773dafa174f7fda9ce4df55/kssdutils-1.0.7.tar.gz to build tracker '/tmp/pip-build-tracker-njot65dr' 2024-12-29T00:51:42,325 Running setup.py (path:/tmp/pip-wheel-iwqf55sr/kssdutils_6affbc049d5f41ccaee622b84aeb7fe4/setup.py) egg_info for package kssdutils 2024-12-29T00:51:42,326 Created temporary directory: /tmp/pip-pip-egg-info-_08kxfqs 2024-12-29T00:51:42,326 Preparing metadata (setup.py): started 2024-12-29T00:51:42,328 Running command python setup.py egg_info 2024-12-29T00:51:43,432 running egg_info 2024-12-29T00:51:43,462 creating /tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info 2024-12-29T00:51:43,463 writing /tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info/PKG-INFO 2024-12-29T00:51:43,466 writing dependency_links to /tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info/dependency_links.txt 2024-12-29T00:51:43,468 writing top-level names to /tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info/top_level.txt 2024-12-29T00:51:43,470 writing manifest file '/tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info/SOURCES.txt' 2024-12-29T00:51:43,581 reading manifest file '/tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info/SOURCES.txt' 2024-12-29T00:51:43,583 reading manifest template 'MANIFEST.in' 2024-12-29T00:51:43,591 writing manifest file '/tmp/pip-pip-egg-info-_08kxfqs/kssdutils.egg-info/SOURCES.txt' 2024-12-29T00:51:43,699 Preparing metadata (setup.py): finished with status 'done' 2024-12-29T00:51:43,702 Source in /tmp/pip-wheel-iwqf55sr/kssdutils_6affbc049d5f41ccaee622b84aeb7fe4 has version 1.0.7, which satisfies requirement kssdutils==1.0.7 from https://files.pythonhosted.org/packages/78/17/7776b7c3b149fedfb0fba98bce07fdf08cb53773dafa174f7fda9ce4df55/kssdutils-1.0.7.tar.gz 2024-12-29T00:51:43,703 Removed kssdutils==1.0.7 from https://files.pythonhosted.org/packages/78/17/7776b7c3b149fedfb0fba98bce07fdf08cb53773dafa174f7fda9ce4df55/kssdutils-1.0.7.tar.gz from build tracker '/tmp/pip-build-tracker-njot65dr' 2024-12-29T00:51:43,707 Created temporary directory: /tmp/pip-unpack-5dzyjn3g 2024-12-29T00:51:43,708 Created temporary directory: /tmp/pip-unpack-nqm8mui_ 2024-12-29T00:51:43,708 Building wheels for collected packages: kssdutils 2024-12-29T00:51:43,712 Created temporary directory: /tmp/pip-wheel-88ktz__a 2024-12-29T00:51:43,713 Building wheel for kssdutils (setup.py): started 2024-12-29T00:51:43,714 Destination directory: /tmp/pip-wheel-88ktz__a 2024-12-29T00:51:43,715 Running command python setup.py bdist_wheel 2024-12-29T00:51:44,731 running bdist_wheel 2024-12-29T00:51:44,864 running build 2024-12-29T00:51:44,865 running build_py 2024-12-29T00:51:44,893 creating build/lib.linux-armv7l-cpython-311 2024-12-29T00:51:44,895 copying kssdutils.py -> build/lib.linux-armv7l-cpython-311 2024-12-29T00:51:44,897 running egg_info 2024-12-29T00:51:44,925 writing kssdutils.egg-info/PKG-INFO 2024-12-29T00:51:44,928 writing dependency_links to kssdutils.egg-info/dependency_links.txt 2024-12-29T00:51:44,930 writing top-level names to kssdutils.egg-info/top_level.txt 2024-12-29T00:51:44,959 reading manifest file 'kssdutils.egg-info/SOURCES.txt' 2024-12-29T00:51:44,962 reading manifest template 'MANIFEST.in' 2024-12-29T00:51:44,970 writing manifest file 'kssdutils.egg-info/SOURCES.txt' 2024-12-29T00:51:44,971 running build_ext 2024-12-29T00:51:45,433 building 'kssdtool' extension 2024-12-29T00:51:45,434 creating build/temp.linux-armv7l-cpython-311 2024-12-29T00:51:45,436 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 2024-12-29T00:51:45,616 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2024-12-29T00:51:45,623 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-12-29T00:51:45,624 109 | for (unsigned int i = 0; i < comp_num; i++) { 2024-12-29T00:51:45,625 | ^ 2024-12-29T00:51:45,626 co2mco.c: In function ‘co2unitllmco’: 2024-12-29T00:51:45,626 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2024-12-29T00:51:45,627 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2024-12-29T00:51:45,628 | ^ 2024-12-29T00:51:46,326 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 2024-12-29T00:51:46,703 command_composite.c: In function ‘get_species_abundance’: 2024-12-29T00:51:46,704 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-12-29T00:51:46,704 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2024-12-29T00:51:46,705 | ^~ 2024-12-29T00:51:46,706 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2024-12-29T00:51:46,706 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2024-12-29T00:51:46,707 | ^~ 2024-12-29T00:51:46,708 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:46,708 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-12-29T00:51:46,709 | ^ 2024-12-29T00:51:46,709 command_composite.c:64:31: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:46,710 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-12-29T00:51:46,711 | ^~~~~~~~~~ 2024-12-29T00:51:46,711 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-12-29T00:51:46,712 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2024-12-29T00:51:46,712 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:46,713 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:46,714 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-12-29T00:51:46,714 | ^ 2024-12-29T00:51:46,715 command_composite.c:70:31: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:46,716 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-12-29T00:51:46,717 | ^~~~~~~~~~ 2024-12-29T00:51:46,717 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-12-29T00:51:46,718 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2024-12-29T00:51:46,718 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:46,718 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:46,719 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-12-29T00:51:46,719 | ^ 2024-12-29T00:51:46,720 command_composite.c:76:31: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:46,720 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-12-29T00:51:46,721 | ^~~~~~~~~~ 2024-12-29T00:51:46,721 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-12-29T00:51:46,722 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2024-12-29T00:51:46,722 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:46,723 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:46,723 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-12-29T00:51:46,724 | ^ 2024-12-29T00:51:46,725 command_composite.c:82:31: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:46,725 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-12-29T00:51:46,726 | ^~~~~~~~~~ 2024-12-29T00:51:46,727 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2024-12-29T00:51:46,727 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2024-12-29T00:51:46,728 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:46,729 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:46,729 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-12-29T00:51:46,730 | ^ 2024-12-29T00:51:46,731 command_composite.c:88:31: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:46,731 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-12-29T00:51:46,732 | ^~~~~~~~~~~~ 2024-12-29T00:51:46,732 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2024-12-29T00:51:46,733 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2024-12-29T00:51:46,734 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:46,980 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 2024-12-29T00:51:47,263 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-12-29T00:51:47,265 command_dist.c:677:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:47,265 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-12-29T00:51:47,266 | ~~^ 2024-12-29T00:51:47,266 | | 2024-12-29T00:51:47,267 | long unsigned int 2024-12-29T00:51:47,267 | %u 2024-12-29T00:51:47,268 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-12-29T00:51:47,268 | ~~~~~~~ 2024-12-29T00:51:47,268 | | 2024-12-29T00:51:47,269 | size_t {aka unsigned int} 2024-12-29T00:51:47,269 command_dist.c:677:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:47,270 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-12-29T00:51:47,270 | ~~^ 2024-12-29T00:51:47,271 | | 2024-12-29T00:51:47,271 | long unsigned int 2024-12-29T00:51:47,272 | %u 2024-12-29T00:51:47,273 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-12-29T00:51:47,273 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-12-29T00:51:47,274 | ~~~~~~~~~ 2024-12-29T00:51:47,274 | | 2024-12-29T00:51:47,275 | size_t {aka unsigned int} 2024-12-29T00:51:47,276 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-12-29T00:51:47,277 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-12-29T00:51:47,277 | ~~^ 2024-12-29T00:51:47,278 | | 2024-12-29T00:51:47,279 | long unsigned int 2024-12-29T00:51:47,279 | %u 2024-12-29T00:51:47,280 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-12-29T00:51:47,280 679 | maplength, (size_t) b * unitsz_distf_mapped); 2024-12-29T00:51:47,281 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:47,282 | | 2024-12-29T00:51:47,282 | unsigned int 2024-12-29T00:51:47,283 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-12-29T00:51:47,284 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2024-12-29T00:51:47,285 | ^ 2024-12-29T00:51:47,292 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-12-29T00:51:47,294 command_dist.c:863:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:47,295 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-12-29T00:51:47,296 | ~~^ ~~~~~~~ 2024-12-29T00:51:47,296 | | | 2024-12-29T00:51:47,297 | long unsigned int size_t {aka unsigned int} 2024-12-29T00:51:47,297 | %u 2024-12-29T00:51:47,299 command_dist.c:863:93: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:47,299 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-12-29T00:51:47,300 | ~~^ 2024-12-29T00:51:47,300 | | 2024-12-29T00:51:47,301 | long unsigned int 2024-12-29T00:51:47,301 | %u 2024-12-29T00:51:47,302 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-12-29T00:51:47,302 | ~~~~~~~~~ 2024-12-29T00:51:47,303 | | 2024-12-29T00:51:47,303 | size_t {aka unsigned int} 2024-12-29T00:51:47,304 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-12-29T00:51:47,305 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2024-12-29T00:51:47,305 | ~~^ 2024-12-29T00:51:47,306 | | 2024-12-29T00:51:47,307 | long unsigned int 2024-12-29T00:51:47,307 | %u 2024-12-29T00:51:47,308 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2024-12-29T00:51:47,309 865 | (size_t) b * unitsz_distf_mapped); 2024-12-29T00:51:47,309 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:47,310 | | 2024-12-29T00:51:47,310 | unsigned int 2024-12-29T00:51:47,312 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2024-12-29T00:51:47,312 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2024-12-29T00:51:47,313 | ^~~~~~~ 2024-12-29T00:51:47,314 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2024-12-29T00:51:47,314 809 | struct stat cbd_fcode_stat; 2024-12-29T00:51:47,315 | ^~~~~~~~~~~~~~ 2024-12-29T00:51:47,316 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2024-12-29T00:51:47,316 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-12-29T00:51:47,317 | ^~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:47,318 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2024-12-29T00:51:47,318 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2024-12-29T00:51:47,319 | ^~~~~~~~~~~~~~~~~ 2024-12-29T00:51:47,322 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-12-29T00:51:47,324 command_dist.c:1018:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:47,325 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-12-29T00:51:47,325 | ~~^ 2024-12-29T00:51:47,326 | | 2024-12-29T00:51:47,326 | long unsigned int 2024-12-29T00:51:47,327 | %u 2024-12-29T00:51:47,327 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-12-29T00:51:47,328 | ~~~~~~~ 2024-12-29T00:51:47,328 | | 2024-12-29T00:51:47,329 | size_t {aka unsigned int} 2024-12-29T00:51:47,329 command_dist.c:1018:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:47,330 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-12-29T00:51:47,331 | ~~^ 2024-12-29T00:51:47,331 | | 2024-12-29T00:51:47,332 | long unsigned int 2024-12-29T00:51:47,333 | %u 2024-12-29T00:51:47,333 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-12-29T00:51:47,334 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-12-29T00:51:47,335 | ~~~~~~~~~ 2024-12-29T00:51:47,336 | | 2024-12-29T00:51:47,336 | size_t {aka unsigned int} 2024-12-29T00:51:47,337 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2024-12-29T00:51:47,338 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2024-12-29T00:51:47,338 | ~~^ 2024-12-29T00:51:47,339 | | 2024-12-29T00:51:47,340 | long unsigned int 2024-12-29T00:51:47,340 | %u 2024-12-29T00:51:47,341 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2024-12-29T00:51:47,342 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2024-12-29T00:51:47,343 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:47,344 | | 2024-12-29T00:51:47,344 | unsigned int 2024-12-29T00:51:47,345 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2024-12-29T00:51:47,346 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2024-12-29T00:51:47,346 | ^ 2024-12-29T00:51:47,347 command_dist.c: In function ‘mco_co_dist_core’: 2024-12-29T00:51:47,347 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-12-29T00:51:47,348 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2024-12-29T00:51:47,348 | ^ 2024-12-29T00:51:47,349 command_dist.c: In function ‘koc_dist_print_nobin’: 2024-12-29T00:51:47,349 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-12-29T00:51:47,350 1239 | for (int rid = 0; rid < ref_num; rid++) 2024-12-29T00:51:47,350 | ^ 2024-12-29T00:51:47,351 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-12-29T00:51:47,352 1245 | for (int rid = 0; rid < ref_num; rid++) { 2024-12-29T00:51:47,352 | ^ 2024-12-29T00:51:47,358 command_dist.c: In function ‘dist_print_nobin’: 2024-12-29T00:51:47,360 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-12-29T00:51:47,360 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2024-12-29T00:51:47,361 | ^ 2024-12-29T00:51:47,363 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-12-29T00:51:47,364 1356 | for (int rid = 0; rid < ref_num; rid++) { 2024-12-29T00:51:47,364 | ^ 2024-12-29T00:51:47,366 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2024-12-29T00:51:47,367 1382 | for (int rid = 0; rid < ref_num; rid++) 2024-12-29T00:51:47,367 | ^ 2024-12-29T00:51:47,729 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2024-12-29T00:51:47,730 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2024-12-29T00:51:47,730 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2024-12-29T00:51:47,731 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:47,731 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2024-12-29T00:51:47,732 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2024-12-29T00:51:47,733 | ^~~~~~~~~~~~ 2024-12-29T00:51:48,567 command_dist.c: In function ‘get_dim_shuffle’: 2024-12-29T00:51:48,568 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2024-12-29T00:51:48,568 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-12-29T00:51:48,569 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:48,570 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2024-12-29T00:51:48,571 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2024-12-29T00:51:48,571 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,471 command_dist.c: In function ‘mco_cbd_co_dist’: 2024-12-29T00:51:49,472 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:49,472 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-12-29T00:51:49,473 | ^~ ~~~~~~~~~ 2024-12-29T00:51:49,473 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-12-29T00:51:49,474 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-12-29T00:51:49,474 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,475 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:49,476 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-12-29T00:51:49,477 | ^~~~~~~~~~~~~~~ 2024-12-29T00:51:49,477 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-12-29T00:51:49,478 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-12-29T00:51:49,478 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,479 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:49,479 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-12-29T00:51:49,480 | ^~~~~~~~~~~ 2024-12-29T00:51:49,481 command_dist.c:681:38: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:49,481 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-12-29T00:51:49,482 | ^~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,483 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-12-29T00:51:49,483 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-12-29T00:51:49,484 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,485 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:49,485 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-12-29T00:51:49,486 | ^~~~~ 2024-12-29T00:51:49,487 command_dist.c:682:32: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:49,487 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-12-29T00:51:49,488 | ^~~~~~~~~~~ 2024-12-29T00:51:49,489 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-12-29T00:51:49,489 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-12-29T00:51:49,490 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,721 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2024-12-29T00:51:49,722 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:49,723 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-12-29T00:51:49,723 | ^~ ~~~~~~~~~ 2024-12-29T00:51:49,724 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-12-29T00:51:49,725 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-12-29T00:51:49,726 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,726 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:49,726 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-12-29T00:51:49,727 | ^~~~~~~~~~~~~~~ 2024-12-29T00:51:49,727 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-12-29T00:51:49,728 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-12-29T00:51:49,728 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,729 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:49,729 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-12-29T00:51:49,730 | ^~~~~~~~~~~~~ 2024-12-29T00:51:49,730 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-12-29T00:51:49,730 823 | sprintf(distf, "%s/distance.out", distout_dir); 2024-12-29T00:51:49,731 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,731 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:49,732 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-12-29T00:51:49,732 | ^ 2024-12-29T00:51:49,733 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2024-12-29T00:51:49,733 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-12-29T00:51:49,734 | ^~~~~~~~~~ 2024-12-29T00:51:49,734 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-12-29T00:51:49,735 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2024-12-29T00:51:49,736 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:49,737 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:49,737 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-12-29T00:51:49,738 | ^ 2024-12-29T00:51:49,739 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2024-12-29T00:51:49,739 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-12-29T00:51:49,740 | ^~~~~~~~~~ 2024-12-29T00:51:49,740 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2024-12-29T00:51:49,741 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2024-12-29T00:51:49,742 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,007 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2024-12-29T00:51:50,009 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:50,009 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-12-29T00:51:50,010 | ^~ ~~~~~~~~~ 2024-12-29T00:51:50,011 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2024-12-29T00:51:50,011 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2024-12-29T00:51:50,012 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,012 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:50,013 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-12-29T00:51:50,013 | ^~~~~~~~~~~~~~~ 2024-12-29T00:51:50,014 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2024-12-29T00:51:50,014 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2024-12-29T00:51:50,014 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,015 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:50,016 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-12-29T00:51:50,016 | ^~~~~~~~~~~~~ 2024-12-29T00:51:50,017 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-12-29T00:51:50,017 990 | sprintf(distf, "%s/distance.out", distout_dir); 2024-12-29T00:51:50,018 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,018 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:50,019 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-12-29T00:51:50,019 | ^~~~~~~~~~~ 2024-12-29T00:51:50,020 command_dist.c:1022:38: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:50,020 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-12-29T00:51:50,021 | ^~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,021 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2024-12-29T00:51:50,022 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2024-12-29T00:51:50,022 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,023 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2024-12-29T00:51:50,023 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-12-29T00:51:50,024 | ^~~~~ 2024-12-29T00:51:50,025 command_dist.c:1023:32: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:50,025 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-12-29T00:51:50,026 | ^~~~~~~~~~~ 2024-12-29T00:51:50,026 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-12-29T00:51:50,027 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2024-12-29T00:51:50,028 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,301 command_dist.c: In function ‘combine_queries’: 2024-12-29T00:51:50,303 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:50,303 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-12-29T00:51:50,304 | ^ 2024-12-29T00:51:50,304 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:50,305 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2024-12-29T00:51:50,306 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,307 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:50,307 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-12-29T00:51:50,308 | ^ 2024-12-29T00:51:50,308 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:50,309 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2024-12-29T00:51:50,309 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,311 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:50,312 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-12-29T00:51:50,312 | ^~ ~~~~~~~~ 2024-12-29T00:51:50,313 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2024-12-29T00:51:50,314 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2024-12-29T00:51:50,314 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:50,795 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 2024-12-29T00:51:50,968 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 2024-12-29T00:51:51,138 command_set.c: In function ‘sketch_operate’: 2024-12-29T00:51:51,138 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2024-12-29T00:51:51,139 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2024-12-29T00:51:51,140 | ^ 2024-12-29T00:51:51,151 command_set.c: In function ‘combin_subset_pans’: 2024-12-29T00:51:51,152 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-12-29T00:51:51,152 457 | free(co_dstat_fpath); 2024-12-29T00:51:51,153 | ^~~~~~~~~~~~~~ 2024-12-29T00:51:51,154 In file included from kssdheaders/global_basic.h:159, 2024-12-29T00:51:51,155 from command_set.c:15: 2024-12-29T00:51:51,155 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-12-29T00:51:51,156 568 | extern void free (void *__ptr) __THROW; 2024-12-29T00:51:51,156 | ~~~~~~^~~~~ 2024-12-29T00:51:51,158 command_set.c: In function ‘grouping_genomes’: 2024-12-29T00:51:51,159 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2024-12-29T00:51:51,159 562 | free(co_dstat_fpath); 2024-12-29T00:51:51,160 | ^~~~~~~~~~~~~~ 2024-12-29T00:51:51,161 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2024-12-29T00:51:51,161 568 | extern void free (void *__ptr) __THROW; 2024-12-29T00:51:51,162 | ~~~~~~^~~~~ 2024-12-29T00:51:51,366 command_set.c: In function ‘sketch_union’: 2024-12-29T00:51:51,366 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:51,367 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,368 | ^ 2024-12-29T00:51:51,369 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:51,369 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,370 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,370 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,371 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-12-29T00:51:51,371 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,372 command_set.c:82:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,372 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-12-29T00:51:51,373 | ^~~~~~~~~~ 2024-12-29T00:51:51,373 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:51,374 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-12-29T00:51:51,375 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,375 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,376 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-12-29T00:51:51,376 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:51,377 command_set.c:92:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,378 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-12-29T00:51:51,378 | ^~~~~~~~~~ 2024-12-29T00:51:51,379 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-12-29T00:51:51,380 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2024-12-29T00:51:51,381 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,497 command_set.c: In function ‘sketch_operate’: 2024-12-29T00:51:51,498 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,499 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-12-29T00:51:51,499 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:51,500 command_set.c:153:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,501 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-12-29T00:51:51,501 | ^~~~~~~~~~ 2024-12-29T00:51:51,502 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2024-12-29T00:51:51,502 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2024-12-29T00:51:51,503 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,504 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,504 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-12-29T00:51:51,505 | ^~ ~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,506 command_set.c:155:29: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,506 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-12-29T00:51:51,507 | ^~~~~~~~~~ 2024-12-29T00:51:51,508 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-12-29T00:51:51,509 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2024-12-29T00:51:51,509 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,510 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,510 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-12-29T00:51:51,511 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,511 command_set.c:165:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,512 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-12-29T00:51:51,512 | ^~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,513 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-12-29T00:51:51,514 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2024-12-29T00:51:51,514 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,515 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,515 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-12-29T00:51:51,515 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,516 command_set.c:169:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,517 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-12-29T00:51:51,517 | ^~~~~~~~~~ 2024-12-29T00:51:51,518 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:51,518 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2024-12-29T00:51:51,519 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,520 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,521 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-12-29T00:51:51,521 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,522 command_set.c:174:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,523 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-12-29T00:51:51,523 | ^~~~~~~~~~ 2024-12-29T00:51:51,524 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:51,525 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2024-12-29T00:51:51,525 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,526 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,526 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-12-29T00:51:51,527 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,528 command_set.c:187:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,528 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-12-29T00:51:51,529 | ^~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,530 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-12-29T00:51:51,531 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2024-12-29T00:51:51,532 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,532 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:51,533 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,533 | ^ 2024-12-29T00:51:51,534 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:51,534 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,535 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,672 command_set.c: In function ‘uniq_sketch_union’: 2024-12-29T00:51:51,673 command_set.c:219:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:51,673 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2024-12-29T00:51:51,674 | ^ 2024-12-29T00:51:51,674 command_set.c:219:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2024-12-29T00:51:51,675 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2024-12-29T00:51:51,675 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,676 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:51,677 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,677 | ^ 2024-12-29T00:51:51,678 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:51,679 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,679 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,680 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,681 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-12-29T00:51:51,681 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,682 command_set.c:247:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,683 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-12-29T00:51:51,683 | ^~~~~~~~~~ 2024-12-29T00:51:51,684 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:51,685 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2024-12-29T00:51:51,685 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,686 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,687 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-12-29T00:51:51,687 | ^~ ~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,688 command_set.c:259:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:51,688 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-12-29T00:51:51,689 | ^~~~~~~~~~ 2024-12-29T00:51:51,690 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2024-12-29T00:51:51,690 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2024-12-29T00:51:51,691 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,818 command_set.c: In function ‘combin_pans’: 2024-12-29T00:51:51,819 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,819 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:51,820 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:51,820 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2024-12-29T00:51:51,821 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:51,822 | ^~~~~~~~~~ 2024-12-29T00:51:51,822 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2024-12-29T00:51:51,823 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:51,823 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,824 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:51,825 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:51,826 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:51,826 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2024-12-29T00:51:51,826 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:51,827 | ^~~~~~~~~~ 2024-12-29T00:51:51,827 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2024-12-29T00:51:51,828 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:51,829 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:51,829 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:51,830 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,831 | ^ 2024-12-29T00:51:51,832 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:51,832 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:51,833 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,035 command_set.c: In function ‘combin_subset_pans’: 2024-12-29T00:51:52,036 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,036 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-12-29T00:51:52,037 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:52,038 command_set.c:469:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,038 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-12-29T00:51:52,039 | ^~~~~~~~~~ 2024-12-29T00:51:52,039 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:52,040 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-12-29T00:51:52,040 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,041 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,042 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-12-29T00:51:52,042 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:52,043 command_set.c:475:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,043 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-12-29T00:51:52,044 | ^~~~~~~~~~ 2024-12-29T00:51:52,045 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-12-29T00:51:52,045 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-12-29T00:51:52,046 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,046 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,047 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:52,048 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:52,048 command_set.c:481:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,049 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:52,049 | ^~~~~~~~~~ 2024-12-29T00:51:52,050 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:52,050 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:52,051 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,051 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,052 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:52,052 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:52,053 command_set.c:512:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,053 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:52,054 | ^~~~~~~~~~ 2024-12-29T00:51:52,055 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-12-29T00:51:52,056 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:52,056 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,057 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:52,058 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:52,058 | ^ 2024-12-29T00:51:52,059 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:52,060 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:52,060 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,280 command_set.c: In function ‘grouping_genomes’: 2024-12-29T00:51:52,281 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,282 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-12-29T00:51:52,283 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:52,283 command_set.c:574:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,284 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-12-29T00:51:52,284 | ^~~~~~~~~~ 2024-12-29T00:51:52,285 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:52,286 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2024-12-29T00:51:52,286 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,287 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,287 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-12-29T00:51:52,288 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:52,288 command_set.c:580:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,289 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-12-29T00:51:52,289 | ^~~~~~~~~~ 2024-12-29T00:51:52,289 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-12-29T00:51:52,290 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2024-12-29T00:51:52,290 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,291 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,291 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:52,291 | ^~ ~~~~~~~~~~~ 2024-12-29T00:51:52,292 command_set.c:612:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,292 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:52,293 | ^~~~~~~~~~ 2024-12-29T00:51:52,293 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2024-12-29T00:51:52,294 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2024-12-29T00:51:52,295 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,295 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2024-12-29T00:51:52,296 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:52,297 | ^~ ~~~~~~~~~~ 2024-12-29T00:51:52,297 command_set.c:634:25: note: directive argument in the range [-2147483644, 2147483646] 2024-12-29T00:51:52,298 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:52,299 | ^~~~~~~~~~ 2024-12-29T00:51:52,300 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2024-12-29T00:51:52,300 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2024-12-29T00:51:52,301 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,302 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2024-12-29T00:51:52,302 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:52,303 | ^ 2024-12-29T00:51:52,303 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2024-12-29T00:51:52,304 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2024-12-29T00:51:52,304 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2024-12-29T00:51:52,577 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 2024-12-29T00:51:52,892 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 2024-12-29T00:51:53,062 global_basic.c: In function ‘organize_infile_list’: 2024-12-29T00:51:53,063 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2024-12-29T00:51:53,064 195 | while (isspace(*buf)) buf++; 2024-12-29T00:51:53,064 | ^~~~~~~ 2024-12-29T00:51:53,065 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2024-12-29T00:51:53,065 34 | #include 2024-12-29T00:51:53,066 +++ |+#include 2024-12-29T00:51:53,067 35 | 2024-12-29T00:51:53,067 global_basic.c:201:69: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:53,068 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-12-29T00:51:53,068 | ~~^ 2024-12-29T00:51:53,069 | | 2024-12-29T00:51:53,069 | long unsigned int 2024-12-29T00:51:53,070 | %u 2024-12-29T00:51:53,070 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-12-29T00:51:53,071 | ~~~~~~~~~~~ 2024-12-29T00:51:53,071 | | 2024-12-29T00:51:53,072 | size_t {aka unsigned int} 2024-12-29T00:51:53,073 global_basic.c:233:69: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2024-12-29T00:51:53,074 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2024-12-29T00:51:53,075 | ~~^ 2024-12-29T00:51:53,076 | | 2024-12-29T00:51:53,077 | long unsigned int 2024-12-29T00:51:53,077 | %u 2024-12-29T00:51:53,078 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2024-12-29T00:51:53,079 | ~~~~~~~~~~~ 2024-12-29T00:51:53,079 | | 2024-12-29T00:51:53,080 | size_t {aka unsigned int} 2024-12-29T00:51:53,825 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 2024-12-29T00:51:54,009 iseq2comem.c: In function ‘reads2mco’: 2024-12-29T00:51:54,010 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,011 156 | if (base > TL) { 2024-12-29T00:51:54,011 | ^ 2024-12-29T00:51:54,012 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,013 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,013 | ^~ 2024-12-29T00:51:54,014 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,015 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,015 | ^ 2024-12-29T00:51:54,016 iseq2comem.c: In function ‘fasta2co’: 2024-12-29T00:51:54,016 iseq2comem.c:239:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,017 239 | if (base > TL) { 2024-12-29T00:51:54,017 | ^ 2024-12-29T00:51:54,018 iseq2comem.c:243:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,018 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,019 | ^~ 2024-12-29T00:51:54,019 iseq2comem.c:243:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,020 243 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,020 | ^ 2024-12-29T00:51:54,021 iseq2comem.c: In function ‘fastq2co’: 2024-12-29T00:51:54,021 iseq2comem.c:272:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2024-12-29T00:51:54,022 272 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2024-12-29T00:51:54,023 | ^~ 2024-12-29T00:51:54,023 iseq2comem.c:318:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,024 318 | if (base > TL) { 2024-12-29T00:51:54,025 | ^ 2024-12-29T00:51:54,025 iseq2comem.c:322:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,026 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,027 | ^~ 2024-12-29T00:51:54,027 iseq2comem.c:322:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,028 322 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,029 | ^ 2024-12-29T00:51:54,030 iseq2comem.c:341:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,030 341 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2024-12-29T00:51:54,031 | ^ 2024-12-29T00:51:54,032 iseq2comem.c: In function ‘fastq2koc’: 2024-12-29T00:51:54,032 iseq2comem.c:402:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,033 402 | if (base > TL) { 2024-12-29T00:51:54,034 | ^ 2024-12-29T00:51:54,034 iseq2comem.c:406:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,035 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,037 | ^~ 2024-12-29T00:51:54,037 iseq2comem.c:406:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,038 406 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,039 | ^ 2024-12-29T00:51:54,039 iseq2comem.c: In function ‘mt_shortreads2koc’: 2024-12-29T00:51:54,040 iseq2comem.c:582:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,040 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,041 | ^~ 2024-12-29T00:51:54,041 iseq2comem.c:582:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2024-12-29T00:51:54,042 582 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2024-12-29T00:51:54,042 | ^ 2024-12-29T00:51:55,388 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 2024-12-29T00:51:55,442 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 2024-12-29T00:51:55,564 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 2024-12-29T00:51:55,956 pykssd.c: In function ‘py_dist_dispatch’: 2024-12-29T00:51:55,957 pykssd.c:335:13: warning: unused variable ‘state1’ [-Wunused-variable] 2024-12-29T00:51:55,958 335 | int state1 = dist_dispatch(&dist_opt_val1); 2024-12-29T00:51:55,959 | ^~~~~~ 2024-12-29T00:51:55,959 pykssd.c:397:13: warning: unused variable ‘state2’ [-Wunused-variable] 2024-12-29T00:51:55,960 397 | int state2 = dist_dispatch(&dist_opt_val2); 2024-12-29T00:51:55,961 | ^~~~~~ 2024-12-29T00:51:55,961 pykssd.c:531:13: warning: unused variable ‘state4’ [-Wunused-variable] 2024-12-29T00:51:55,962 531 | int state4 = dist_dispatch(&dist_opt_val4); 2024-12-29T00:51:55,963 | ^~~~~~ 2024-12-29T00:51:56,617 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 2024-12-29T00:51:56,798 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:66: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2024-12-29T00:51:56,798 !! 2024-12-29T00:51:56,800 ******************************************************************************** 2024-12-29T00:51:56,800 Please avoid running ``setup.py`` directly. 2024-12-29T00:51:56,801 Instead, use pypa/build, pypa/installer or other 2024-12-29T00:51:56,802 standards-based tools. 2024-12-29T00:51:56,803 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2024-12-29T00:51:56,804 ******************************************************************************** 2024-12-29T00:51:56,805 !! 2024-12-29T00:51:56,805 self.initialize_options() 2024-12-29T00:51:56,830 installing to build/bdist.linux-armv7l/wheel 2024-12-29T00:51:56,831 running install 2024-12-29T00:51:56,856 running install_lib 2024-12-29T00:51:56,884 creating build/bdist.linux-armv7l/wheel 2024-12-29T00:51:56,886 copying build/lib.linux-armv7l-cpython-311/kssdutils.py -> build/bdist.linux-armv7l/wheel/. 2024-12-29T00:51:56,889 copying build/lib.linux-armv7l-cpython-311/kssdtool.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2024-12-29T00:51:56,900 running install_egg_info 2024-12-29T00:51:56,933 Copying kssdutils.egg-info to build/bdist.linux-armv7l/wheel/./kssdutils-1.0.7-py3.11.egg-info 2024-12-29T00:51:56,944 running install_scripts 2024-12-29T00:51:56,995 creating build/bdist.linux-armv7l/wheel/kssdutils-1.0.7.dist-info/WHEEL 2024-12-29T00:51:56,998 creating '/tmp/pip-wheel-88ktz__a/kssdutils-1.0.7-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2024-12-29T00:51:57,083 adding 'kssdtool.cpython-311-arm-linux-gnueabihf.so' 2024-12-29T00:51:57,086 adding 'kssdutils.py' 2024-12-29T00:51:57,089 adding 'kssdutils-1.0.7.dist-info/METADATA' 2024-12-29T00:51:57,090 adding 'kssdutils-1.0.7.dist-info/WHEEL' 2024-12-29T00:51:57,090 adding 'kssdutils-1.0.7.dist-info/dependency_links.txt' 2024-12-29T00:51:57,091 adding 'kssdutils-1.0.7.dist-info/top_level.txt' 2024-12-29T00:51:57,092 adding 'kssdutils-1.0.7.dist-info/RECORD' 2024-12-29T00:51:57,095 removing build/bdist.linux-armv7l/wheel 2024-12-29T00:51:57,242 Building wheel for kssdutils (setup.py): finished with status 'done' 2024-12-29T00:51:57,246 Created wheel for kssdutils: filename=kssdutils-1.0.7-cp311-cp311-linux_armv7l.whl size=178815 sha256=c45bd36d62b251ee659d4aeaaca8255ff10d29d84edaf2551a0fed903f1a5fe3 2024-12-29T00:51:57,247 Stored in directory: /tmp/pip-ephem-wheel-cache-bhwhg_pg/wheels/97/e0/7b/3d24064230c5a34f03cdf99e296e9624dbae527fe6a6118377 2024-12-29T00:51:57,256 Successfully built kssdutils 2024-12-29T00:51:57,263 Removed build tracker: '/tmp/pip-build-tracker-njot65dr'