2025-06-01T00:15:37,893 Created temporary directory: /tmp/pip-build-tracker-shpbtxuo 2025-06-01T00:15:37,895 Initialized build tracking at /tmp/pip-build-tracker-shpbtxuo 2025-06-01T00:15:37,895 Created build tracker: /tmp/pip-build-tracker-shpbtxuo 2025-06-01T00:15:37,896 Entered build tracker: /tmp/pip-build-tracker-shpbtxuo 2025-06-01T00:15:37,896 Created temporary directory: /tmp/pip-wheel-k62_8u6l 2025-06-01T00:15:37,900 Created temporary directory: /tmp/pip-ephem-wheel-cache-a52ann8b 2025-06-01T00:15:37,952 Looking in indexes: https://pypi.org/simple, https://www.piwheels.org/simple 2025-06-01T00:15:37,954 2 location(s) to search for versions of kssdutils: 2025-06-01T00:15:37,954 * https://pypi.org/simple/kssdutils/ 2025-06-01T00:15:37,954 * https://www.piwheels.org/simple/kssdutils/ 2025-06-01T00:15:37,955 Fetching project page and analyzing links: https://pypi.org/simple/kssdutils/ 2025-06-01T00:15:37,956 Getting page https://pypi.org/simple/kssdutils/ 2025-06-01T00:15:37,957 Found index url https://pypi.org/simple/ 2025-06-01T00:15:38,181 Fetched page https://pypi.org/simple/kssdutils/ as application/vnd.pypi.simple.v1+json 2025-06-01T00:15:38,186 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 2025-06-01T00:15:38,188 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 2025-06-01T00:15:38,189 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 2025-06-01T00:15:38,190 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 2025-06-01T00:15:38,191 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 2025-06-01T00:15:38,192 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 2025-06-01T00:15:38,193 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 2025-06-01T00:15:38,195 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 2025-06-01T00:15:38,196 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 2025-06-01T00:15:38,197 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 2025-06-01T00:15:38,198 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 2025-06-01T00:15:38,199 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 2025-06-01T00:15:38,200 Fetching project page and analyzing links: https://www.piwheels.org/simple/kssdutils/ 2025-06-01T00:15:38,201 Getting page https://www.piwheels.org/simple/kssdutils/ 2025-06-01T00:15:38,202 Found index url https://www.piwheels.org/simple/ 2025-06-01T00:15:38,364 WARNING: Retrying (Retry(total=4, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/kssdutils/ 2025-06-01T00:15:39,024 WARNING: Retrying (Retry(total=3, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/kssdutils/ 2025-06-01T00:15:40,195 WARNING: Retrying (Retry(total=2, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/kssdutils/ 2025-06-01T00:15:42,363 WARNING: Retrying (Retry(total=1, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/kssdutils/ 2025-06-01T00:15:46,538 WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))': /simple/kssdutils/ 2025-06-01T00:15:46,709 Could not fetch URL https://www.piwheels.org/simple/kssdutils/: There was a problem confirming the ssl certificate: HTTPSConnectionPool(host='www.piwheels.org', port=443): Max retries exceeded with url: /simple/kssdutils/ (Caused by SSLError(SSLCertVerificationError(1, '[SSL: CERTIFICATE_VERIFY_FAILED] certificate verify failed: certificate is not yet valid (_ssl.c:992)'))) - skipping 2025-06-01T00:15:46,711 Skipping link: not a file: https://www.piwheels.org/simple/kssdutils/ 2025-06-01T00:15:46,712 Skipping link: not a file: https://pypi.org/simple/kssdutils/ 2025-06-01T00:15:46,733 Given no hashes to check 1 links for project 'kssdutils': discarding no candidates 2025-06-01T00:15:46,735 Collecting kssdutils==1.1.5 2025-06-01T00:15:46,737 Created temporary directory: /tmp/pip-unpack-7g3a52gf 2025-06-01T00:15:46,963 Downloading kssdutils-1.1.5.tar.gz (47 kB) 2025-06-01T00:15:47,092 Added kssdutils==1.1.5 from https://files.pythonhosted.org/packages/98/8c/0eb4850f10a9da51072d7be474ecffd0f808423f21838f543dc88db7ddd2/kssdutils-1.1.5.tar.gz to build tracker '/tmp/pip-build-tracker-shpbtxuo' 2025-06-01T00:15:47,094 Running setup.py (path:/tmp/pip-wheel-k62_8u6l/kssdutils_ba8adc70ee454b4eb31cc4c6f3a98e3b/setup.py) egg_info for package kssdutils 2025-06-01T00:15:47,095 Created temporary directory: /tmp/pip-pip-egg-info-phi_7jqs 2025-06-01T00:15:47,095 Preparing metadata (setup.py): started 2025-06-01T00:15:47,097 Running command python setup.py egg_info 2025-06-01T00:15:48,014 running egg_info 2025-06-01T00:15:48,042 creating /tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info 2025-06-01T00:15:48,043 writing /tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/PKG-INFO 2025-06-01T00:15:48,047 writing dependency_links to /tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/dependency_links.txt 2025-06-01T00:15:48,049 writing requirements to /tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/requires.txt 2025-06-01T00:15:48,050 writing top-level names to /tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/top_level.txt 2025-06-01T00:15:48,052 writing manifest file '/tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/SOURCES.txt' 2025-06-01T00:15:48,167 reading manifest file '/tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/SOURCES.txt' 2025-06-01T00:15:48,169 reading manifest template 'MANIFEST.in' 2025-06-01T00:15:48,178 writing manifest file '/tmp/pip-pip-egg-info-phi_7jqs/kssdutils.egg-info/SOURCES.txt' 2025-06-01T00:15:48,285 Preparing metadata (setup.py): finished with status 'done' 2025-06-01T00:15:48,290 Source in /tmp/pip-wheel-k62_8u6l/kssdutils_ba8adc70ee454b4eb31cc4c6f3a98e3b has version 1.1.5, which satisfies requirement kssdutils==1.1.5 from https://files.pythonhosted.org/packages/98/8c/0eb4850f10a9da51072d7be474ecffd0f808423f21838f543dc88db7ddd2/kssdutils-1.1.5.tar.gz 2025-06-01T00:15:48,291 Removed kssdutils==1.1.5 from https://files.pythonhosted.org/packages/98/8c/0eb4850f10a9da51072d7be474ecffd0f808423f21838f543dc88db7ddd2/kssdutils-1.1.5.tar.gz from build tracker '/tmp/pip-build-tracker-shpbtxuo' 2025-06-01T00:15:48,296 Created temporary directory: /tmp/pip-unpack-yu8n_2na 2025-06-01T00:15:48,297 Created temporary directory: /tmp/pip-unpack-qetsvxvo 2025-06-01T00:15:48,297 Building wheels for collected packages: kssdutils 2025-06-01T00:15:48,302 Created temporary directory: /tmp/pip-wheel-vp51su6n 2025-06-01T00:15:48,303 DEPRECATION: Building 'kssdutils' using the legacy setup.py bdist_wheel mechanism, which will be removed in a future version. pip 25.3 will enforce this behaviour change. A possible replacement is to use the standardized build interface by setting the `--use-pep517` option, (possibly combined with `--no-build-isolation`), or adding a `pyproject.toml` file to the source tree of 'kssdutils'. Discussion can be found at https://github.com/pypa/pip/issues/6334 2025-06-01T00:15:48,304 Building wheel for kssdutils (setup.py): started 2025-06-01T00:15:48,305 Destination directory: /tmp/pip-wheel-vp51su6n 2025-06-01T00:15:48,306 Running command python setup.py bdist_wheel 2025-06-01T00:15:49,156 running bdist_wheel 2025-06-01T00:15:49,290 running build 2025-06-01T00:15:49,291 running build_py 2025-06-01T00:15:49,320 creating build/lib.linux-armv7l-cpython-311 2025-06-01T00:15:49,322 copying kssdutils.py -> build/lib.linux-armv7l-cpython-311 2025-06-01T00:15:49,324 running egg_info 2025-06-01T00:15:49,353 writing kssdutils.egg-info/PKG-INFO 2025-06-01T00:15:49,356 writing dependency_links to kssdutils.egg-info/dependency_links.txt 2025-06-01T00:15:49,358 writing requirements to kssdutils.egg-info/requires.txt 2025-06-01T00:15:49,359 writing top-level names to kssdutils.egg-info/top_level.txt 2025-06-01T00:15:49,390 reading manifest file 'kssdutils.egg-info/SOURCES.txt' 2025-06-01T00:15:49,393 reading manifest template 'MANIFEST.in' 2025-06-01T00:15:49,402 writing manifest file 'kssdutils.egg-info/SOURCES.txt' 2025-06-01T00:15:49,403 running build_ext 2025-06-01T00:15:49,818 building 'kssdtool' extension 2025-06-01T00:15:49,819 creating build/temp.linux-armv7l-cpython-311 2025-06-01T00:15:49,821 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 2025-06-01T00:15:50,016 co2mco.c: In function ‘cdb_kmerf2kmerdb’: 2025-06-01T00:15:50,017 co2mco.c:109:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-06-01T00:15:50,018 109 | for (unsigned int i = 0; i < comp_num; i++) { 2025-06-01T00:15:50,018 | ^ 2025-06-01T00:15:50,021 co2mco.c: In function ‘co2unitllmco’: 2025-06-01T00:15:50,021 co2mco.c:191:32: warning: comparison of integer expressions of different signedness: ‘unsigned int’ and ‘int’ [-Wsign-compare] 2025-06-01T00:15:50,022 191 | for (unsigned int i = 0; i < bin_sz; i++) { 2025-06-01T00:15:50,023 | ^ 2025-06-01T00:15:50,728 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 2025-06-01T00:15:51,125 command_composite.c: In function ‘get_species_abundance’: 2025-06-01T00:15:51,126 command_composite.c:32:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-06-01T00:15:51,126 32 | if (ref_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, ref_dstat_fpath); 2025-06-01T00:15:51,127 | ^~ 2025-06-01T00:15:51,127 command_composite.c:34:72: warning: ‘%s’ directive argument is null [-Wformat-overflow=] 2025-06-01T00:15:51,128 34 | if (qry_dstat_fpath == NULL) fprintf(stderr, "cannot find %s under %s ", co_dstat, qry_dstat_fpath); 2025-06-01T00:15:51,129 | ^~ 2025-06-01T00:15:51,129 command_composite.c:64:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:51,130 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-06-01T00:15:51,130 | ^ 2025-06-01T00:15:51,131 command_composite.c:64:31: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:51,131 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-06-01T00:15:51,132 | ^~~~~~~~~~ 2025-06-01T00:15:51,133 command_composite.c:64:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-06-01T00:15:51,133 64 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, skch_prefix, c); 2025-06-01T00:15:51,134 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,135 command_composite.c:70:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:51,135 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-06-01T00:15:51,136 | ^ 2025-06-01T00:15:51,136 command_composite.c:70:31: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:51,137 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-06-01T00:15:51,138 | ^~~~~~~~~~ 2025-06-01T00:15:51,138 command_composite.c:70:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-06-01T00:15:51,139 70 | sprintf(tmpfname, "%s/%s.%d", composite_opt->refdir, idx_prefix, c); 2025-06-01T00:15:51,139 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,140 command_composite.c:76:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:51,141 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-06-01T00:15:51,141 | ^ 2025-06-01T00:15:51,142 command_composite.c:76:31: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:51,143 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-06-01T00:15:51,143 | ^~~~~~~~~~ 2025-06-01T00:15:51,144 command_composite.c:76:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-06-01T00:15:51,144 76 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, skch_prefix, c); 2025-06-01T00:15:51,145 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,146 command_composite.c:82:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:51,146 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-06-01T00:15:51,147 | ^ 2025-06-01T00:15:51,148 command_composite.c:82:31: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:51,149 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-06-01T00:15:51,149 | ^~~~~~~~~~ 2025-06-01T00:15:51,150 command_composite.c:82:13: note: ‘sprintf’ output 4 or more bytes (assuming 269) into a destination of size 256 2025-06-01T00:15:51,150 82 | sprintf(tmpfname, "%s/%s.%d", composite_opt->qrydir, idx_prefix, c); 2025-06-01T00:15:51,151 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,151 command_composite.c:88:37: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:51,152 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-06-01T00:15:51,152 | ^ 2025-06-01T00:15:51,153 command_composite.c:88:31: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:51,153 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-06-01T00:15:51,154 | ^~~~~~~~~~~~ 2025-06-01T00:15:51,154 command_composite.c:88:13: note: ‘sprintf’ output 6 or more bytes (assuming 271) into a destination of size 256 2025-06-01T00:15:51,155 88 | sprintf(tmpfname, "%s/%s.%d.a", composite_opt->qrydir, skch_prefix, c); 2025-06-01T00:15:51,155 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,392 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 2025-06-01T00:15:51,637 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-06-01T00:15:51,638 command_dist.c:677:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:51,639 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-06-01T00:15:51,639 | ~~^ 2025-06-01T00:15:51,640 | | 2025-06-01T00:15:51,640 | long unsigned int 2025-06-01T00:15:51,641 | %u 2025-06-01T00:15:51,642 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-06-01T00:15:51,642 | ~~~~~~~ 2025-06-01T00:15:51,643 | | 2025-06-01T00:15:51,644 | size_t {aka unsigned int} 2025-06-01T00:15:51,645 command_dist.c:677:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:51,645 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-06-01T00:15:51,646 | ~~^ 2025-06-01T00:15:51,646 | | 2025-06-01T00:15:51,647 | long unsigned int 2025-06-01T00:15:51,648 | %u 2025-06-01T00:15:51,648 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-06-01T00:15:51,649 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-06-01T00:15:51,650 | ~~~~~~~~~ 2025-06-01T00:15:51,651 | | 2025-06-01T00:15:51,651 | size_t {aka unsigned int} 2025-06-01T00:15:51,652 command_dist.c:677:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-06-01T00:15:51,652 677 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-06-01T00:15:51,653 | ~~^ 2025-06-01T00:15:51,653 | | 2025-06-01T00:15:51,654 | long unsigned int 2025-06-01T00:15:51,654 | %u 2025-06-01T00:15:51,655 678 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-06-01T00:15:51,655 679 | maplength, (size_t) b * unitsz_distf_mapped); 2025-06-01T00:15:51,656 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,656 | | 2025-06-01T00:15:51,657 | unsigned int 2025-06-01T00:15:51,657 command_dist.c:715:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-06-01T00:15:51,658 715 | for (int n = 0; n < fco_pos[k + 1] - fco_pos[k]; n++) { 2025-06-01T00:15:51,658 | ^ 2025-06-01T00:15:51,659 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-06-01T00:15:51,659 command_dist.c:863:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:51,660 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-06-01T00:15:51,660 | ~~^ ~~~~~~~ 2025-06-01T00:15:51,661 | | | 2025-06-01T00:15:51,661 | long unsigned int size_t {aka unsigned int} 2025-06-01T00:15:51,662 | %u 2025-06-01T00:15:51,663 command_dist.c:863:93: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:51,664 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-06-01T00:15:51,664 | ~~^ 2025-06-01T00:15:51,665 | | 2025-06-01T00:15:51,665 | long unsigned int 2025-06-01T00:15:51,666 | %u 2025-06-01T00:15:51,666 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-06-01T00:15:51,667 | ~~~~~~~~~ 2025-06-01T00:15:51,668 | | 2025-06-01T00:15:51,668 | size_t {aka unsigned int} 2025-06-01T00:15:51,669 command_dist.c:863:98: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-06-01T00:15:51,670 863 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%d\tbatch_qrynum=%d\t%lu\t%lu\n", disf_sz, 2025-06-01T00:15:51,670 | ~~^ 2025-06-01T00:15:51,671 | | 2025-06-01T00:15:51,671 | long unsigned int 2025-06-01T00:15:51,672 | %u 2025-06-01T00:15:51,672 864 | mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, maplength, 2025-06-01T00:15:51,673 865 | (size_t) b * unitsz_distf_mapped); 2025-06-01T00:15:51,673 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,674 | | 2025-06-01T00:15:51,674 | unsigned int 2025-06-01T00:15:51,675 command_dist.c:810:13: warning: unused variable ‘fco_pos’ [-Wunused-variable] 2025-06-01T00:15:51,675 810 | size_t *fco_pos = malloc(sizeof(size_t) * (co_dstat_readin.infile_num + 1)); 2025-06-01T00:15:51,676 | ^~~~~~~ 2025-06-01T00:15:51,677 command_dist.c:809:17: warning: unused variable ‘cbd_fcode_stat’ [-Wunused-variable] 2025-06-01T00:15:51,677 809 | struct stat cbd_fcode_stat; 2025-06-01T00:15:51,678 | ^~~~~~~~~~~~~~ 2025-06-01T00:15:51,679 command_dist.c:808:31: warning: unused variable ‘cbd_fcode_comp_index_fp’ [-Wunused-variable] 2025-06-01T00:15:51,679 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-06-01T00:15:51,680 | ^~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,680 command_dist.c:808:11: warning: unused variable ‘cbd_fcode_comp_fp’ [-Wunused-variable] 2025-06-01T00:15:51,681 808 | FILE *cbd_fcode_comp_fp, *cbd_fcode_comp_index_fp; 2025-06-01T00:15:51,682 | ^~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,682 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-06-01T00:15:51,683 command_dist.c:1018:27: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 2 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:51,683 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-06-01T00:15:51,684 | ~~^ 2025-06-01T00:15:51,685 | | 2025-06-01T00:15:51,685 | long unsigned int 2025-06-01T00:15:51,686 | %u 2025-06-01T00:15:51,686 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-06-01T00:15:51,687 | ~~~~~~~ 2025-06-01T00:15:51,687 | | 2025-06-01T00:15:51,688 | size_t {aka unsigned int} 2025-06-01T00:15:51,689 command_dist.c:1018:92: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 7 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:51,690 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-06-01T00:15:51,690 | ~~^ 2025-06-01T00:15:51,691 | | 2025-06-01T00:15:51,691 | long unsigned int 2025-06-01T00:15:51,692 | %u 2025-06-01T00:15:51,693 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-06-01T00:15:51,693 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-06-01T00:15:51,694 | ~~~~~~~~~ 2025-06-01T00:15:51,694 | | 2025-06-01T00:15:51,695 | size_t {aka unsigned int} 2025-06-01T00:15:51,695 command_dist.c:1018:97: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 8 has type ‘unsigned int’ [-Wformat=] 2025-06-01T00:15:51,696 1018 | printf("disf_sz=%lu\trefnum=%d\tqrynum=%d\tnum_mapping_distf=%dbnum_infile=%d\t\t%lu\t%lu\tflag1:Ok\n", 2025-06-01T00:15:51,696 | ~~^ 2025-06-01T00:15:51,697 | | 2025-06-01T00:15:51,697 | long unsigned int 2025-06-01T00:15:51,698 | %u 2025-06-01T00:15:51,698 1019 | disf_sz, mco_dstat_readin.infile_num, co_dstat_readin.infile_num, num_mapping_distf, bnum_infile, 2025-06-01T00:15:51,699 1020 | maplength, (size_t) b * unitsz_distf_mapped); 2025-06-01T00:15:51,700 | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:51,701 | | 2025-06-01T00:15:51,701 | unsigned int 2025-06-01T00:15:51,702 command_dist.c:1034:27: warning: comparison of integer expressions of different signedness: ‘__off_t’ {aka ‘long int’} and ‘unsigned int’ [-Wsign-compare] 2025-06-01T00:15:51,702 1034 | if (s.st_size > sizeof(gidobj_t) * MCOMM_SZ) mco_mem = (gidobj_t *) realloc(mco_mem, s.st_size); 2025-06-01T00:15:51,703 | ^ 2025-06-01T00:15:51,704 command_dist.c: In function ‘mco_co_dist_core’: 2025-06-01T00:15:51,704 command_dist.c:1116:31: warning: comparison of integer expressions of different signedness: ‘int’ and ‘gidobj_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-06-01T00:15:51,705 1116 | for (int k = 1; k < unit_arrmco[ind][0] + 1; k++) { 2025-06-01T00:15:51,705 | ^ 2025-06-01T00:15:51,706 command_dist.c: In function ‘koc_dist_print_nobin’: 2025-06-01T00:15:51,707 command_dist.c:1239:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-06-01T00:15:51,707 1239 | for (int rid = 0; rid < ref_num; rid++) 2025-06-01T00:15:51,708 | ^ 2025-06-01T00:15:51,709 command_dist.c:1245:35: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-06-01T00:15:51,709 1245 | for (int rid = 0; rid < ref_num; rid++) { 2025-06-01T00:15:51,710 | ^ 2025-06-01T00:15:51,715 command_dist.c: In function ‘dist_print_nobin’: 2025-06-01T00:15:51,716 command_dist.c:1335:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-06-01T00:15:51,717 1335 | if ((N_max > NREF) || (N_max > ref_num)) { 2025-06-01T00:15:51,717 | ^ 2025-06-01T00:15:51,720 command_dist.c:1356:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-06-01T00:15:51,720 1356 | for (int rid = 0; rid < ref_num; rid++) { 2025-06-01T00:15:51,721 | ^ 2025-06-01T00:15:51,722 command_dist.c:1382:39: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2025-06-01T00:15:51,723 1382 | for (int rid = 0; rid < ref_num; rid++) 2025-06-01T00:15:51,723 | ^ 2025-06-01T00:15:52,084 command_dist.c: In function ‘run_stageI._omp_fn.1’: 2025-06-01T00:15:52,085 command_dist.c:403:21: warning: ‘com_abund_fp’ may be used uninitialized [-Wmaybe-uninitialized] 2025-06-01T00:15:52,085 403 | fwrite(tmp_mem, sizeof(unsigned short) * tmpkmerct, 1, com_abund_fp); 2025-06-01T00:15:52,086 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:52,086 command_dist.c:375:40: note: ‘com_abund_fp’ was declared here 2025-06-01T00:15:52,087 375 | FILE *com_cofp, *indexfp, *com_abund_fp; 2025-06-01T00:15:52,087 | ^~~~~~~~~~~~ 2025-06-01T00:15:52,927 command_dist.c: In function ‘get_dim_shuffle’: 2025-06-01T00:15:52,928 command_dist.c:267:36: warning: ‘%s’ directive writing up to 264 bytes into a region of size 256 [-Wformat-overflow=] 2025-06-01T00:15:52,929 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-06-01T00:15:52,929 | ^~ ~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:52,930 command_dist.c:267:9: note: ‘sprintf’ output between 6 and 270 bytes into a destination of size 256 2025-06-01T00:15:52,931 267 | sprintf(shuf_infile_name, "%s.shuf", shuf_infile_name_prefix); 2025-06-01T00:15:52,931 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:53,837 command_dist.c: In function ‘mco_cbd_co_dist’: 2025-06-01T00:15:53,838 command_dist.c:596:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:53,839 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-06-01T00:15:53,839 | ^~ ~~~~~~~~~ 2025-06-01T00:15:53,840 command_dist.c:596:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-06-01T00:15:53,840 596 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-06-01T00:15:53,841 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:53,841 command_dist.c:625:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:53,842 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-06-01T00:15:53,842 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:53,843 command_dist.c:625:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-06-01T00:15:53,843 625 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-06-01T00:15:53,844 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:53,844 command_dist.c:681:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:53,845 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-06-01T00:15:53,846 | ^~~~~~~~~~~ 2025-06-01T00:15:53,846 command_dist.c:681:38: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:53,847 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-06-01T00:15:53,848 | ^~~~~~~~~~~~~~~~~ 2025-06-01T00:15:53,849 command_dist.c:681:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-06-01T00:15:53,849 681 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-06-01T00:15:53,850 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:53,850 command_dist.c:682:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:53,851 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-06-01T00:15:53,851 | ^~~~~ 2025-06-01T00:15:53,852 command_dist.c:682:32: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:53,852 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-06-01T00:15:53,853 | ^~~~~~~~~~~ 2025-06-01T00:15:53,853 command_dist.c:682:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-06-01T00:15:53,854 682 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-06-01T00:15:53,854 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,087 command_dist.c: In function ‘mco_cbdco_nobin_dist’: 2025-06-01T00:15:54,088 command_dist.c:763:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:54,089 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-06-01T00:15:54,089 | ^~ ~~~~~~~~~ 2025-06-01T00:15:54,090 command_dist.c:763:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-06-01T00:15:54,090 763 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-06-01T00:15:54,091 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,091 command_dist.c:790:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:54,092 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-06-01T00:15:54,093 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:54,093 command_dist.c:790:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-06-01T00:15:54,094 790 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-06-01T00:15:54,095 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,095 command_dist.c:823:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:54,096 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-06-01T00:15:54,096 | ^~~~~~~~~~~~~ 2025-06-01T00:15:54,097 command_dist.c:823:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-06-01T00:15:54,097 823 | sprintf(distf, "%s/distance.out", distout_dir); 2025-06-01T00:15:54,098 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,098 command_dist.c:849:39: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:54,099 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-06-01T00:15:54,100 | ^ 2025-06-01T00:15:54,100 command_dist.c:849:33: note: directive argument in the range [0, 536870912] 2025-06-01T00:15:54,101 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-06-01T00:15:54,102 | ^~~~~~~~~~ 2025-06-01T00:15:54,103 command_dist.c:849:8: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-06-01T00:15:54,103 849 | sprintf(mco_index_fcode, "%s/%s.%d", refmco_dname, mco_idx_prefix, j); 2025-06-01T00:15:54,104 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,105 command_dist.c:851:34: warning: ‘.’ directive writing 1 byte into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:54,105 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-06-01T00:15:54,106 | ^ 2025-06-01T00:15:54,106 command_dist.c:851:28: note: directive argument in the range [0, 536870912] 2025-06-01T00:15:54,107 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-06-01T00:15:54,107 | ^~~~~~~~~~ 2025-06-01T00:15:54,108 command_dist.c:851:9: note: ‘sprintf’ output 4 or more bytes (assuming 267) into a destination of size 256 2025-06-01T00:15:54,109 851 | sprintf(mco_fcode, "%s/%s.%d", refmco_dname, mco_gids_prefix, j); 2025-06-01T00:15:54,109 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,367 command_dist.c: In function ‘mco_cbd_koc_compatible_dist’: 2025-06-01T00:15:54,369 command_dist.c:927:37: warning: ‘%s’ directive writing 13 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:54,369 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-06-01T00:15:54,369 | ^~ ~~~~~~~~~ 2025-06-01T00:15:54,370 command_dist.c:927:5: note: ‘sprintf’ output between 15 and 270 bytes into a destination of size 256 2025-06-01T00:15:54,371 927 | sprintf(refmco_dstat_fpath, "%s/%s", refmco_dname, mco_dstat); 2025-06-01T00:15:54,371 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,372 command_dist.c:956:25: warning: ‘/sharedk_ct.dat’ directive writing 15 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:54,372 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-06-01T00:15:54,373 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:54,373 command_dist.c:956:5: note: ‘sprintf’ output between 16 and 271 bytes into a destination of size 256 2025-06-01T00:15:54,374 956 | sprintf(onedist, "%s/sharedk_ct.dat", distout_dir); 2025-06-01T00:15:54,375 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,375 command_dist.c:990:23: warning: ‘/distance.out’ directive writing 13 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:54,376 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-06-01T00:15:54,376 | ^~~~~~~~~~~~~ 2025-06-01T00:15:54,377 command_dist.c:990:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-06-01T00:15:54,377 990 | sprintf(distf, "%s/distance.out", distout_dir); 2025-06-01T00:15:54,378 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,378 command_dist.c:1022:41: warning: ‘/mco.index.’ directive writing 11 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:54,379 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-06-01T00:15:54,379 | ^~~~~~~~~~~ 2025-06-01T00:15:54,380 command_dist.c:1022:38: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:54,381 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-06-01T00:15:54,381 | ^~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,382 command_dist.c:1022:13: note: ‘sprintf’ output between 13 and 278 bytes into a destination of size 256 2025-06-01T00:15:54,383 1022 | sprintf(mco_index_fcode, "%s/mco.index.%d", refmco_dname, j); 2025-06-01T00:15:54,384 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,384 command_dist.c:1023:35: warning: ‘/mco.’ directive writing 5 bytes into a region of size between 1 and 256 [-Wformat-overflow=] 2025-06-01T00:15:54,385 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-06-01T00:15:54,385 | ^~~~~ 2025-06-01T00:15:54,386 command_dist.c:1023:32: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:54,386 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-06-01T00:15:54,387 | ^~~~~~~~~~~ 2025-06-01T00:15:54,387 command_dist.c:1023:13: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-06-01T00:15:54,388 1023 | sprintf(mco_fcode, "%s/mco.%d", refmco_dname, j); 2025-06-01T00:15:54,388 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,658 command_dist.c: In function ‘combine_queries’: 2025-06-01T00:15:54,659 command_dist.c:1492:41: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:54,660 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-06-01T00:15:54,660 | ^ 2025-06-01T00:15:54,661 command_dist.c:1492:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:54,661 1492 | sprintf(one_kmerct_list_name, "%s/%s", co_dir, kmerct_list_fname); 2025-06-01T00:15:54,662 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,662 command_dist.c:1499:40: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:54,663 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-06-01T00:15:54,663 | ^ 2025-06-01T00:15:54,664 command_dist.c:1499:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:54,665 1499 | sprintf(one_infilename_name, "%s/%s", co_dir, fname_fname); 2025-06-01T00:15:54,665 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:54,667 command_dist.c:1603:32: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:54,667 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-06-01T00:15:54,668 | ^~ ~~~~~~~~ 2025-06-01T00:15:54,669 command_dist.c:1603:5: note: ‘sprintf’ output between 14 and 269 bytes into a destination of size 256 2025-06-01T00:15:54,669 1603 | sprintf(one_stat_name, "%s/%s", co_dir, co_dstat); 2025-06-01T00:15:54,670 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,165 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 2025-06-01T00:15:55,349 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 2025-06-01T00:15:55,537 command_set.c: In function ‘sketch_operate’: 2025-06-01T00:15:55,537 command_set.c:178:30: warning: comparison of integer expressions of different signedness: ‘int’ and ‘size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2025-06-01T00:15:55,538 178 | for(int n = 0; n < fco_pos[i+1] - fco_pos[i]; n++){ 2025-06-01T00:15:55,539 | ^ 2025-06-01T00:15:55,550 command_set.c: In function ‘combin_subset_pans’: 2025-06-01T00:15:55,551 command_set.c:457:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-06-01T00:15:55,551 457 | free(co_dstat_fpath); 2025-06-01T00:15:55,552 | ^~~~~~~~~~~~~~ 2025-06-01T00:15:55,552 In file included from kssdheaders/global_basic.h:159, 2025-06-01T00:15:55,553 from command_set.c:15: 2025-06-01T00:15:55,553 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-06-01T00:15:55,554 568 | extern void free (void *__ptr) __THROW; 2025-06-01T00:15:55,554 | ~~~~~~^~~~~ 2025-06-01T00:15:55,557 command_set.c: In function ‘grouping_genomes’: 2025-06-01T00:15:55,558 command_set.c:562:10: warning: passing argument 1 of ‘free’ discards ‘const’ qualifier from pointer target type [-Wdiscarded-qualifiers] 2025-06-01T00:15:55,558 562 | free(co_dstat_fpath); 2025-06-01T00:15:55,559 | ^~~~~~~~~~~~~~ 2025-06-01T00:15:55,559 /usr/include/stdlib.h:568:25: note: expected ‘void *’ but argument is of type ‘const char *’ 2025-06-01T00:15:55,560 568 | extern void free (void *__ptr) __THROW; 2025-06-01T00:15:55,561 | ~~~~~~^~~~~ 2025-06-01T00:15:55,725 command_set.c: In function ‘sketch_union’: 2025-06-01T00:15:55,726 command_set.c:71:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:55,727 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:55,727 | ^ 2025-06-01T00:15:55,728 command_set.c:71:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:55,728 71 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:55,729 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,730 command_set.c:82:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,730 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-06-01T00:15:55,731 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:55,731 command_set.c:82:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,732 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-06-01T00:15:55,733 | ^~~~~~~~~~ 2025-06-01T00:15:55,733 command_set.c:82:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:55,734 82 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-06-01T00:15:55,734 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,735 command_set.c:92:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,736 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-06-01T00:15:55,736 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:55,737 command_set.c:92:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,737 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-06-01T00:15:55,738 | ^~~~~~~~~~ 2025-06-01T00:15:55,738 command_set.c:92:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-06-01T00:15:55,739 92 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,pan_prefix,i); 2025-06-01T00:15:55,740 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,857 command_set.c: In function ‘sketch_operate’: 2025-06-01T00:15:55,857 command_set.c:153:29: warning: ‘%s’ directive writing 3 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,858 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-06-01T00:15:55,858 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:55,859 command_set.c:153:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,859 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-06-01T00:15:55,860 | ^~~~~~~~~~ 2025-06-01T00:15:55,860 command_set.c:153:9: note: ‘sprintf’ output between 7 and 272 bytes into a destination of size 256 2025-06-01T00:15:55,861 153 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, pan_prefix, c); 2025-06-01T00:15:55,861 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,862 command_set.c:155:33: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,862 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-06-01T00:15:55,863 | ^~ ~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,863 command_set.c:155:29: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,864 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-06-01T00:15:55,864 | ^~~~~~~~~~ 2025-06-01T00:15:55,865 command_set.c:155:13: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-06-01T00:15:55,866 155 | sprintf(tmppath,"%s/%s.%d",set_opt.pansketchpath, uniq_pan_prefix, c); 2025-06-01T00:15:55,866 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,867 command_set.c:165:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,867 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-06-01T00:15:55,868 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:55,869 command_set.c:165:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,870 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-06-01T00:15:55,870 | ^~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,871 command_set.c:165:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-06-01T00:15:55,872 165 | sprintf(tmppath,"%s/%s.index.%d",set_opt.insketchpath,skch_prefix, c); 2025-06-01T00:15:55,872 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,873 command_set.c:169:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,874 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-06-01T00:15:55,874 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:55,875 command_set.c:169:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,875 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-06-01T00:15:55,876 | ^~~~~~~~~~ 2025-06-01T00:15:55,877 command_set.c:169:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:55,878 169 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix, c); 2025-06-01T00:15:55,879 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,879 command_set.c:174:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,880 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-06-01T00:15:55,880 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:55,880 command_set.c:174:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,881 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-06-01T00:15:55,882 | ^~~~~~~~~~ 2025-06-01T00:15:55,882 command_set.c:174:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:55,883 174 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix, c); 2025-06-01T00:15:55,883 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,884 command_set.c:187:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:55,884 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-06-01T00:15:55,885 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:55,886 command_set.c:187:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:55,886 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-06-01T00:15:55,887 | ^~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,887 command_set.c:187:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-06-01T00:15:55,888 187 | sprintf(tmppath,"%s/%s.index.%d",set_opt.outdir,skch_prefix, c); 2025-06-01T00:15:55,889 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:55,889 command_set.c:192:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:55,890 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:55,890 | ^ 2025-06-01T00:15:55,891 command_set.c:192:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:55,891 192 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:55,892 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,032 command_set.c: In function ‘uniq_sketch_union’: 2025-06-01T00:15:56,032 command_set.c:219:39: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:56,033 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-06-01T00:15:56,034 | ^ 2025-06-01T00:15:56,034 command_set.c:219:17: note: ‘sprintf’ output between 11 and 21 bytes into a destination of size 20 2025-06-01T00:15:56,035 219 | sprintf(unionco,"%s.%d",uniq_pan_prefix,i); 2025-06-01T00:15:56,035 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,036 command_set.c:234:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:56,037 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,037 | ^ 2025-06-01T00:15:56,038 command_set.c:234:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:56,039 234 | sprintf(outpath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,039 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,040 command_set.c:247:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,041 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-06-01T00:15:56,041 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:56,042 command_set.c:247:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,042 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-06-01T00:15:56,043 | ^~~~~~~~~~ 2025-06-01T00:15:56,043 command_set.c:247:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:56,044 247 | sprintf(outpath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,i); 2025-06-01T00:15:56,044 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,045 command_set.c:259:29: warning: ‘%s’ directive writing 8 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,045 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-06-01T00:15:56,046 | ^~ ~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,046 command_set.c:259:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,047 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-06-01T00:15:56,047 | ^~~~~~~~~~ 2025-06-01T00:15:56,048 command_set.c:259:9: note: ‘sprintf’ output between 12 and 277 bytes into a destination of size 256 2025-06-01T00:15:56,049 259 | sprintf(outpath,"%s/%s.%d",set_opt.outdir,uniq_pan_prefix,i); 2025-06-01T00:15:56,049 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,177 command_set.c: In function ‘combin_pans’: 2025-06-01T00:15:56,178 command_set.c:297:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,178 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,179 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:56,180 command_set.c:297:25: note: directive argument in the range [0, 1073741823] 2025-06-01T00:15:56,180 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,181 | ^~~~~~~~~~ 2025-06-01T00:15:56,182 command_set.c:297:9: note: ‘sprintf’ output between 10 and 274 bytes into a destination of size 256 2025-06-01T00:15:56,182 297 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,183 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,184 command_set.c:300:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,184 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,185 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:56,185 command_set.c:300:25: note: directive argument in the range [0, 1073741823] 2025-06-01T00:15:56,186 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,186 | ^~~~~~~~~~ 2025-06-01T00:15:56,187 command_set.c:300:9: note: ‘sprintf’ output between 16 and 280 bytes into a destination of size 256 2025-06-01T00:15:56,188 300 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,189 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,189 command_set.c:342:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:56,190 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,191 | ^ 2025-06-01T00:15:56,191 command_set.c:342:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:56,192 342 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,192 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,395 command_set.c: In function ‘combin_subset_pans’: 2025-06-01T00:15:56,396 command_set.c:469:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,396 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-06-01T00:15:56,397 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:56,397 command_set.c:469:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,398 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-06-01T00:15:56,398 | ^~~~~~~~~~ 2025-06-01T00:15:56,399 command_set.c:469:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:56,399 469 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-06-01T00:15:56,400 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,400 command_set.c:475:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,401 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-06-01T00:15:56,402 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:56,402 command_set.c:475:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,403 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-06-01T00:15:56,403 | ^~~~~~~~~~ 2025-06-01T00:15:56,404 command_set.c:475:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-06-01T00:15:56,404 475 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-06-01T00:15:56,405 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,406 command_set.c:481:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,406 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,407 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:56,408 command_set.c:481:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,408 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,409 | ^~~~~~~~~~ 2025-06-01T00:15:56,410 command_set.c:481:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:56,410 481 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,411 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,412 command_set.c:512:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,412 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,413 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:56,413 command_set.c:512:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,414 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,415 | ^~~~~~~~~~ 2025-06-01T00:15:56,417 command_set.c:512:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-06-01T00:15:56,418 512 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,418 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,419 command_set.c:523:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:56,420 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,421 | ^ 2025-06-01T00:15:56,421 command_set.c:523:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:56,422 523 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,423 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,641 command_set.c: In function ‘grouping_genomes’: 2025-06-01T00:15:56,642 command_set.c:574:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,643 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-06-01T00:15:56,643 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:56,643 command_set.c:574:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,644 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-06-01T00:15:56,644 | ^~~~~~~~~~ 2025-06-01T00:15:56,645 command_set.c:574:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:56,645 574 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,skch_prefix,c); 2025-06-01T00:15:56,646 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,647 command_set.c:580:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,647 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-06-01T00:15:56,648 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:56,649 command_set.c:580:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,649 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-06-01T00:15:56,650 | ^~~~~~~~~~ 2025-06-01T00:15:56,651 command_set.c:580:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-06-01T00:15:56,651 580 | sprintf(tmppath,"%s/%s.%d",set_opt.insketchpath,idx_prefix,c); 2025-06-01T00:15:56,652 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,652 command_set.c:612:29: warning: ‘%s’ directive writing 6 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,653 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,654 | ^~ ~~~~~~~~~~~ 2025-06-01T00:15:56,654 command_set.c:612:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,655 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,656 | ^~~~~~~~~~ 2025-06-01T00:15:56,656 command_set.c:612:9: note: ‘sprintf’ output between 10 and 275 bytes into a destination of size 256 2025-06-01T00:15:56,657 612 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,skch_prefix,c); 2025-06-01T00:15:56,658 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,659 command_set.c:634:29: warning: ‘%s’ directive writing 12 bytes into a region of size between 0 and 255 [-Wformat-overflow=] 2025-06-01T00:15:56,659 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,660 | ^~ ~~~~~~~~~~ 2025-06-01T00:15:56,661 command_set.c:634:25: note: directive argument in the range [-2147483644, 2147483646] 2025-06-01T00:15:56,661 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,662 | ^~~~~~~~~~ 2025-06-01T00:15:56,662 command_set.c:634:9: note: ‘sprintf’ output between 16 and 281 bytes into a destination of size 256 2025-06-01T00:15:56,663 634 | sprintf(tmppath,"%s/%s.%d",set_opt.outdir,idx_prefix,c); 2025-06-01T00:15:56,663 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,663 command_set.c:645:27: warning: ‘sprintf’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 2025-06-01T00:15:56,664 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,664 | ^ 2025-06-01T00:15:56,665 command_set.c:645:5: note: ‘sprintf’ output 2 or more bytes (assuming 257) into a destination of size 256 2025-06-01T00:15:56,665 645 | sprintf(tmppath,"%s/%s",set_opt.outdir,co_dstat); 2025-06-01T00:15:56,666 | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2025-06-01T00:15:56,943 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 2025-06-01T00:15:57,278 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 2025-06-01T00:15:57,468 global_basic.c: In function ‘organize_infile_list’: 2025-06-01T00:15:57,469 global_basic.c:195:20: warning: implicit declaration of function ‘isspace’ [-Wimplicit-function-declaration] 2025-06-01T00:15:57,469 195 | while (isspace(*buf)) buf++; 2025-06-01T00:15:57,470 | ^~~~~~~ 2025-06-01T00:15:57,471 global_basic.c:35:1: note: include ‘’ or provide a declaration of ‘isspace’ 2025-06-01T00:15:57,471 34 | #include 2025-06-01T00:15:57,472 +++ |+#include 2025-06-01T00:15:57,473 35 | 2025-06-01T00:15:57,473 global_basic.c:201:69: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:57,474 201 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-06-01T00:15:57,475 | ~~^ 2025-06-01T00:15:57,476 | | 2025-06-01T00:15:57,476 | long unsigned int 2025-06-01T00:15:57,477 | %u 2025-06-01T00:15:57,477 202 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-06-01T00:15:57,478 | ~~~~~~~~~~~ 2025-06-01T00:15:57,479 | | 2025-06-01T00:15:57,479 | size_t {aka unsigned int} 2025-06-01T00:15:57,480 global_basic.c:233:69: warning: format ‘%lu’ expects argument of type ‘long unsigned int’, but argument 6 has type ‘size_t’ {aka ‘unsigned int’} [-Wformat=] 2025-06-01T00:15:57,481 233 | "the input list: %s\n %dth line: %s has %lu characters exceed the maximal allowed length %d", 2025-06-01T00:15:57,482 | ~~^ 2025-06-01T00:15:57,482 | | 2025-06-01T00:15:57,483 | long unsigned int 2025-06-01T00:15:57,483 | %u 2025-06-01T00:15:57,484 234 | list_path, file_num, buf, strlen(buf), PATHLEN); 2025-06-01T00:15:57,484 | ~~~~~~~~~~~ 2025-06-01T00:15:57,485 | | 2025-06-01T00:15:57,485 | size_t {aka unsigned int} 2025-06-01T00:15:58,239 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 2025-06-01T00:15:58,429 iseq2comem.c: In function ‘reads2mco’: 2025-06-01T00:15:58,429 iseq2comem.c:156:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,430 156 | if (base > TL) { 2025-06-01T00:15:58,431 | ^ 2025-06-01T00:15:58,431 iseq2comem.c:160:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,432 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,432 | ^~ 2025-06-01T00:15:58,433 iseq2comem.c:160:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,433 160 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,434 | ^ 2025-06-01T00:15:58,435 iseq2comem.c: In function ‘fasta2co’: 2025-06-01T00:15:58,436 iseq2comem.c:213:69: warning: too many arguments for format [-Wformat-extra-args] 2025-06-01T00:15:58,437 213 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2025-06-01T00:15:58,437 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:58,438 iseq2comem.c:219:69: warning: too many arguments for format [-Wformat-extra-args] 2025-06-01T00:15:58,439 219 | if ((infp = popen(fas_fname, "r")) == NULL) fprintf(stderr, "fasta2co():%s", fas_fname, "\n"); 2025-06-01T00:15:58,439 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:58,440 iseq2comem.c:261:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,441 261 | if (base > TL) { 2025-06-01T00:15:58,441 | ^ 2025-06-01T00:15:58,442 iseq2comem.c:265:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,442 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,443 | ^~ 2025-06-01T00:15:58,444 iseq2comem.c:265:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,444 265 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,445 | ^ 2025-06-01T00:15:58,445 iseq2comem.c: In function ‘fastq2co’: 2025-06-01T00:15:58,446 iseq2comem.c:295:11: warning: comparison of integer expressions of different signedness: ‘int’ and ‘long long unsigned int’ [-Wsign-compare] 2025-06-01T00:15:58,446 295 | if (M >= CT_MAX) fprintf(stderr, "fastq2co(): Occurence num should smaller than %d", (int) CT_MAX); 2025-06-01T00:15:58,447 | ^~ 2025-06-01T00:15:58,448 iseq2comem.c:307:68: warning: too many arguments for format [-Wformat-extra-args] 2025-06-01T00:15:58,449 307 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2025-06-01T00:15:58,449 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:58,450 iseq2comem.c:313:68: warning: too many arguments for format [-Wformat-extra-args] 2025-06-01T00:15:58,450 313 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2co():%s", fq_fname, "\n"); 2025-06-01T00:15:58,451 | ^~~~~~~~~~~~~~~ 2025-06-01T00:15:58,453 iseq2comem.c:352:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,454 352 | if (base > TL) { 2025-06-01T00:15:58,454 | ^ 2025-06-01T00:15:58,455 iseq2comem.c:356:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,455 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,456 | ^~ 2025-06-01T00:15:58,456 iseq2comem.c:356:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,457 356 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,457 | ^ 2025-06-01T00:15:58,459 iseq2comem.c:375:44: warning: comparison of integer expressions of different signedness: ‘long long unsigned int’ and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,459 375 | if (!((co[n] & CT_MAX) < M)) co[n] |= CT_MAX; 2025-06-01T00:15:58,460 | ^ 2025-06-01T00:15:58,461 iseq2comem.c: In function ‘fastq2koc’: 2025-06-01T00:15:58,462 iseq2comem.c:403:68: warning: too many arguments for format [-Wformat-extra-args] 2025-06-01T00:15:58,463 403 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2025-06-01T00:15:58,463 | ^~~~~~~~~~~~~~~~ 2025-06-01T00:15:58,464 iseq2comem.c:409:68: warning: too many arguments for format [-Wformat-extra-args] 2025-06-01T00:15:58,464 409 | if ((infp = popen(fq_fname, "r")) == NULL) fprintf(stderr, "fastq2koc():%s", fq_fname, "\n"); 2025-06-01T00:15:58,465 | ^~~~~~~~~~~~~~~~ 2025-06-01T00:15:58,466 iseq2comem.c:448:18: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,467 448 | if (base > TL) { 2025-06-01T00:15:58,467 | ^ 2025-06-01T00:15:58,468 iseq2comem.c:452:26: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,468 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,469 | ^~ 2025-06-01T00:15:58,469 iseq2comem.c:452:50: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,470 452 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,470 | ^ 2025-06-01T00:15:58,477 iseq2comem.c: In function ‘mt_shortreads2koc’: 2025-06-01T00:15:58,478 iseq2comem.c:628:34: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,479 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,479 | ^~ 2025-06-01T00:15:58,480 iseq2comem.c:628:58: warning: comparison of integer expressions of different signedness: ‘llong’ {aka ‘long long unsigned int’} and ‘int’ [-Wsign-compare] 2025-06-01T00:15:58,480 628 | if ((pfilter >= dim_end) || (pfilter < dim_start)) continue; 2025-06-01T00:15:58,481 | ^ 2025-06-01T00:15:59,874 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 2025-06-01T00:15:59,933 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 mytime.c -o build/temp.linux-armv7l-cpython-311/mytime.o -fopenmp 2025-06-01T00:16:00,067 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 2025-06-01T00:16:00,483 pykssd.c: In function ‘py_dist_dispatch’: 2025-06-01T00:16:00,483 pykssd.c:339:13: warning: unused variable ‘state1’ [-Wunused-variable] 2025-06-01T00:16:00,484 339 | int state1 = dist_dispatch(&dist_opt_val1); 2025-06-01T00:16:00,485 | ^~~~~~ 2025-06-01T00:16:00,485 pykssd.c:404:13: warning: unused variable ‘state2’ [-Wunused-variable] 2025-06-01T00:16:00,486 404 | int state2 = dist_dispatch(&dist_opt_val2); 2025-06-01T00:16:00,487 | ^~~~~~ 2025-06-01T00:16:00,489 pykssd.c:538:13: warning: unused variable ‘state4’ [-Wunused-variable] 2025-06-01T00:16:00,489 538 | int state4 = dist_dispatch(&dist_opt_val4); 2025-06-01T00:16:00,490 | ^~~~~~ 2025-06-01T00:16:01,149 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 2025-06-01T00:16:01,340 /usr/local/lib/python3.11/dist-packages/setuptools/_distutils/cmd.py:90: SetuptoolsDeprecationWarning: setup.py install is deprecated. 2025-06-01T00:16:01,340 !! 2025-06-01T00:16:01,341 ******************************************************************************** 2025-06-01T00:16:01,342 Please avoid running ``setup.py`` directly. 2025-06-01T00:16:01,343 Instead, use pypa/build, pypa/installer or other 2025-06-01T00:16:01,343 standards-based tools. 2025-06-01T00:16:01,344 By 2025-Oct-31, you need to update your project and remove deprecated calls 2025-06-01T00:16:01,345 or your builds will no longer be supported. 2025-06-01T00:16:01,346 See https://blog.ganssle.io/articles/2021/10/setup-py-deprecated.html for details. 2025-06-01T00:16:01,346 ******************************************************************************** 2025-06-01T00:16:01,347 !! 2025-06-01T00:16:01,347 self.initialize_options() 2025-06-01T00:16:01,370 installing to build/bdist.linux-armv7l/wheel 2025-06-01T00:16:01,371 running install 2025-06-01T00:16:01,396 running install_lib 2025-06-01T00:16:01,424 creating build/bdist.linux-armv7l/wheel 2025-06-01T00:16:01,425 copying build/lib.linux-armv7l-cpython-311/kssdtool.cpython-311-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/. 2025-06-01T00:16:01,434 copying build/lib.linux-armv7l-cpython-311/kssdutils.py -> build/bdist.linux-armv7l/wheel/. 2025-06-01T00:16:01,437 running install_egg_info 2025-06-01T00:16:01,472 Copying kssdutils.egg-info to build/bdist.linux-armv7l/wheel/./kssdutils-1.1.5-py3.11.egg-info 2025-06-01T00:16:01,486 running install_scripts 2025-06-01T00:16:01,539 creating build/bdist.linux-armv7l/wheel/kssdutils-1.1.5.dist-info/WHEEL 2025-06-01T00:16:01,542 creating '/tmp/pip-wheel-vp51su6n/kssdutils-1.1.5-cp311-cp311-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2025-06-01T00:16:01,628 adding 'kssdtool.cpython-311-arm-linux-gnueabihf.so' 2025-06-01T00:16:01,633 adding 'kssdutils.py' 2025-06-01T00:16:01,635 adding 'kssdutils-1.1.5.dist-info/METADATA' 2025-06-01T00:16:01,636 adding 'kssdutils-1.1.5.dist-info/WHEEL' 2025-06-01T00:16:01,637 adding 'kssdutils-1.1.5.dist-info/dependency_links.txt' 2025-06-01T00:16:01,638 adding 'kssdutils-1.1.5.dist-info/top_level.txt' 2025-06-01T00:16:01,638 adding 'kssdutils-1.1.5.dist-info/RECORD' 2025-06-01T00:16:01,642 removing build/bdist.linux-armv7l/wheel 2025-06-01T00:16:01,779 Building wheel for kssdutils (setup.py): finished with status 'done' 2025-06-01T00:16:01,784 Created wheel for kssdutils: filename=kssdutils-1.1.5-cp311-cp311-linux_armv7l.whl size=181843 sha256=954571c31f45999b6eeb2cc007104d4a864f065c6aac3ff584a2e5d01fe7d22f 2025-06-01T00:16:01,785 Stored in directory: /tmp/pip-ephem-wheel-cache-a52ann8b/wheels/d0/b3/1b/2092870fc48059556fce92efa00997542faaa1952d1ca26a38 2025-06-01T00:16:01,796 Successfully built kssdutils 2025-06-01T00:16:01,806 Removed build tracker: '/tmp/pip-build-tracker-shpbtxuo'