2021-07-14T14:04:38,832 Created temporary directory: /tmp/pip-ephem-wheel-cache-kr2eh3fv 2021-07-14T14:04:38,835 Created temporary directory: /tmp/pip-req-tracker-6wfoad7p 2021-07-14T14:04:38,835 Initialized build tracking at /tmp/pip-req-tracker-6wfoad7p 2021-07-14T14:04:38,835 Created build tracker: /tmp/pip-req-tracker-6wfoad7p 2021-07-14T14:04:38,836 Entered build tracker: /tmp/pip-req-tracker-6wfoad7p 2021-07-14T14:04:38,836 Created temporary directory: /tmp/pip-wheel-hug0fhlb 2021-07-14T14:04:38,865 1 location(s) to search for versions of moods-python: 2021-07-14T14:04:38,865 * https://pypi.org/simple/moods-python/ 2021-07-14T14:04:38,866 Fetching project page and analyzing links: https://pypi.org/simple/moods-python/ 2021-07-14T14:04:38,866 Getting page https://pypi.org/simple/moods-python/ 2021-07-14T14:04:38,868 Found index url https://pypi.org/simple 2021-07-14T14:04:39,049 Found link https://files.pythonhosted.org/packages/7b/5c/f98bfcf66c2dade3f616cf614eef2d243f9d8d8006ff84d8c522147f35f3/MOODS-python-1.9.3.tar.gz#sha256=6022878918e82e84c3d764d2f725bbb56b41942565e7595c478bb40f02ff8b14 (from https://pypi.org/simple/moods-python/), version: 1.9.3 2021-07-14T14:04:39,050 Found link https://files.pythonhosted.org/packages/c8/26/b93e9fe2f78d5f9bf07f8aa6f5870a3ae593cb880f918c8213aaf98d6dd7/MOODS-python-1.9.3.1.tar.gz#sha256=4deec2c3b872a549be462612f98a9956ae376b8f4949fcb0f276dcd2da6ac596 (from https://pypi.org/simple/moods-python/), version: 1.9.3.1 2021-07-14T14:04:39,050 Found link https://files.pythonhosted.org/packages/f7/34/c623e9b57e3e3f1edf030201603d8110bf9969921790d950836176be4749/MOODS-python-1.9.4.1.tar.gz#sha256=b3b5e080cb0cd13c0fd175d0ee0d453fde3e42794fa7ac39a4f6db1ac5ddb4cc (from https://pypi.org/simple/moods-python/), version: 1.9.4.1 2021-07-14T14:04:39,050 Skipping link: not a file: https://pypi.org/simple/moods-python/ 2021-07-14T14:04:39,069 Given no hashes to check 1 links for project 'moods-python': discarding no candidates 2021-07-14T14:04:39,091 Collecting moods-python==1.9.4.1 2021-07-14T14:04:39,092 Created temporary directory: /tmp/pip-unpack-771kuw0b 2021-07-14T14:04:39,133 Downloading MOODS-python-1.9.4.1.tar.gz (250 kB) 2021-07-14T14:04:39,356 Added moods-python==1.9.4.1 from https://files.pythonhosted.org/packages/f7/34/c623e9b57e3e3f1edf030201603d8110bf9969921790d950836176be4749/MOODS-python-1.9.4.1.tar.gz#sha256=b3b5e080cb0cd13c0fd175d0ee0d453fde3e42794fa7ac39a4f6db1ac5ddb4cc to build tracker '/tmp/pip-req-tracker-6wfoad7p' 2021-07-14T14:04:39,357 Running setup.py (path:/tmp/pip-wheel-hug0fhlb/moods-python_ddb82df78d96486894eb317451438fdf/setup.py) egg_info for package moods-python 2021-07-14T14:04:39,358 Created temporary directory: /tmp/pip-pip-egg-info-ptahdqsb 2021-07-14T14:04:39,358 Running command python setup.py egg_info 2021-07-14T14:04:40,545 running egg_info 2021-07-14T14:04:40,547 creating /tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info 2021-07-14T14:04:40,548 writing /tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info/PKG-INFO 2021-07-14T14:04:40,550 writing dependency_links to /tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info/dependency_links.txt 2021-07-14T14:04:40,553 writing top-level names to /tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info/top_level.txt 2021-07-14T14:04:40,554 writing manifest file '/tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info/SOURCES.txt' 2021-07-14T14:04:40,918 reading manifest file '/tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info/SOURCES.txt' 2021-07-14T14:04:40,920 reading manifest template 'MANIFEST.in' 2021-07-14T14:04:40,923 warning: no files found matching 'scripts/example-data/readme.MD' 2021-07-14T14:04:40,923 warning: no files found matching 'scripts/example-data/seq/chr1-5k-55k.fa' 2021-07-14T14:04:40,924 warning: no files found matching 'scripts/example-data/matrices/*' 2021-07-14T14:04:40,925 adding license file 'COPYING.BIOPYTHON' 2021-07-14T14:04:40,925 adding license file 'COPYING.GPLv3' 2021-07-14T14:04:40,929 writing manifest file '/tmp/pip-pip-egg-info-ptahdqsb/MOODS_python.egg-info/SOURCES.txt' 2021-07-14T14:04:41,016 Source in /tmp/pip-wheel-hug0fhlb/moods-python_ddb82df78d96486894eb317451438fdf has version 1.9.4.1, which satisfies requirement moods-python==1.9.4.1 from https://files.pythonhosted.org/packages/f7/34/c623e9b57e3e3f1edf030201603d8110bf9969921790d950836176be4749/MOODS-python-1.9.4.1.tar.gz#sha256=b3b5e080cb0cd13c0fd175d0ee0d453fde3e42794fa7ac39a4f6db1ac5ddb4cc 2021-07-14T14:04:41,017 Removed moods-python==1.9.4.1 from https://files.pythonhosted.org/packages/f7/34/c623e9b57e3e3f1edf030201603d8110bf9969921790d950836176be4749/MOODS-python-1.9.4.1.tar.gz#sha256=b3b5e080cb0cd13c0fd175d0ee0d453fde3e42794fa7ac39a4f6db1ac5ddb4cc from build tracker '/tmp/pip-req-tracker-6wfoad7p' 2021-07-14T14:04:41,021 Created temporary directory: /tmp/pip-unpack-ik49l9cc 2021-07-14T14:04:41,022 Building wheels for collected packages: moods-python 2021-07-14T14:04:41,026 Created temporary directory: /tmp/pip-wheel-g8ha1qne 2021-07-14T14:04:41,027 Building wheel for moods-python (setup.py): started 2021-07-14T14:04:41,027 Destination directory: /tmp/pip-wheel-g8ha1qne 2021-07-14T14:04:41,027 Running command /usr/bin/python3 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-wheel-hug0fhlb/moods-python_ddb82df78d96486894eb317451438fdf/setup.py'"'"'; __file__='"'"'/tmp/pip-wheel-hug0fhlb/moods-python_ddb82df78d96486894eb317451438fdf/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-g8ha1qne 2021-07-14T14:04:42,228 running bdist_wheel 2021-07-14T14:04:42,390 running build 2021-07-14T14:04:42,390 running build_py 2021-07-14T14:04:42,530 creating build 2021-07-14T14:04:42,530 creating build/lib.linux-armv7l-3.9 2021-07-14T14:04:42,530 creating build/lib.linux-armv7l-3.9/MOODS 2021-07-14T14:04:42,532 copying MOODS/tools.py -> build/lib.linux-armv7l-3.9/MOODS 2021-07-14T14:04:42,534 copying MOODS/__init__.py -> build/lib.linux-armv7l-3.9/MOODS 2021-07-14T14:04:42,535 copying MOODS/scan.py -> build/lib.linux-armv7l-3.9/MOODS 2021-07-14T14:04:42,538 copying MOODS/parsers.py -> build/lib.linux-armv7l-3.9/MOODS 2021-07-14T14:04:42,541 copying MOODS/misc.py -> build/lib.linux-armv7l-3.9/MOODS 2021-07-14T14:04:42,543 running build_ext 2021-07-14T14:04:42,549 building 'MOODS._tools' extension 2021-07-14T14:04:42,549 creating build/temp.linux-armv7l-3.9 2021-07-14T14:04:42,549 creating build/temp.linux-armv7l-3.9/core 2021-07-14T14:04:42,550 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/match_types.cpp -o build/temp.linux-armv7l-3.9/core/match_types.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:04:43,447 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_misc.cpp -o build/temp.linux-armv7l-3.9/core/moods_misc.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:04:44,682 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_tools.cpp -o build/temp.linux-armv7l-3.9/core/moods_tools.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:04:45,518 core/moods_tools.cpp: In function ‘double MOODS::tools::threshold_from_p_with_precision(const score_matrix&, const std::vector&, const double&, double)’: 2021-07-14T14:04:45,519 core/moods_tools.cpp:153:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,519 153 | for (size_t i = 0; i < n; ++i) 2021-07-14T14:04:45,519 | ~~^~~ 2021-07-14T14:04:45,519 core/moods_tools.cpp:155:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,520 155 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:04:45,520 | ~~^~~ 2021-07-14T14:04:45,521 core/moods_tools.cpp:166:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,521 166 | for (size_t i = 0; i < n; ++i) 2021-07-14T14:04:45,521 | ~~^~~ 2021-07-14T14:04:45,522 core/moods_tools.cpp:170:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,522 170 | for (size_t j = 1; j < a; ++j) 2021-07-14T14:04:45,522 | ~~^~~ 2021-07-14T14:04:45,523 core/moods_tools.cpp:188:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,523 188 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:04:45,524 | ~~^~~ 2021-07-14T14:04:45,524 core/moods_tools.cpp:191:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,524 191 | for (size_t i = 1; i < n; ++i) 2021-07-14T14:04:45,525 | ~~^~~ 2021-07-14T14:04:45,525 core/moods_tools.cpp:193:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,525 193 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:04:45,525 | ~~^~~ 2021-07-14T14:04:45,532 core/moods_tools.cpp: In function ‘score_matrix MOODS::tools::log_odds(const std::vector >&, const std::vector >&, const std::vector&, double, std::size_t)’: 2021-07-14T14:04:45,532 core/moods_tools.cpp:323:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:04:45,533 323 | for (size_t PCODE = 0; PCODE < 1 << (SHIFT * r); ++PCODE ){ 2021-07-14T14:04:45,533 | ~~~~~~^~~~~~~~~~~~~~~~~~ 2021-07-14T14:04:45,534 core/moods_tools.cpp:331:46: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:04:45,534 331 | for (size_t SCODE = 0; SCODE < 1 << (SHIFT * (q - r - 1)); ++SCODE){ 2021-07-14T14:04:45,534 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:04:45,543 core/moods_tools.cpp: In function ‘double MOODS::tools::threshold_from_p_with_precision(const score_matrix&, const std::vector&, const double&, double, std::size_t)’: 2021-07-14T14:04:45,543 core/moods_tools.cpp:457:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,544 457 | for (size_t i = 0; i < cols; ++i) 2021-07-14T14:04:45,544 | ~~^~~~~~ 2021-07-14T14:04:45,544 core/moods_tools.cpp:459:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,544 459 | for (size_t CODE = 0; CODE < rows; ++CODE) 2021-07-14T14:04:45,544 | ~~~~~^~~~~~ 2021-07-14T14:04:45,545 core/moods_tools.cpp:471:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,546 471 | for (size_t i = 0; i < cols; ++i) 2021-07-14T14:04:45,546 | ~~^~~~~~ 2021-07-14T14:04:45,546 core/moods_tools.cpp:475:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,546 475 | for (size_t CODE = 1; CODE < rows; ++CODE) 2021-07-14T14:04:45,547 | ~~~~~^~~~~~ 2021-07-14T14:04:45,548 core/moods_tools.cpp:492:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:04:45,548 492 | for (size_t CODE = 0; CODE < (1 << (SHIFT * q)); ++CODE){ 2021-07-14T14:04:45,548 | ~~~~~^~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:04:45,549 core/moods_tools.cpp:503:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:04:45,549 503 | for (size_t i = 1; i < cols; ++i) 2021-07-14T14:04:45,549 | ~~^~~~~~ 2021-07-14T14:04:45,550 core/moods_tools.cpp:506:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:04:45,551 506 | for (size_t CODE = 0; CODE < (1 << (SHIFT * q)); ++CODE) 2021-07-14T14:04:45,551 | ~~~~~^~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:04:49,895 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/tools_wrap.cxx -o build/temp.linux-armv7l-3.9/core/tools_wrap.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:04:52,704 core/tools_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’: 2021-07-14T14:04:52,704 core/tools_wrap.cxx:3896:64: required from ‘Type swig::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:04:52,705 core/tools_wrap.cxx:4463:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = std::vector]’ 2021-07-14T14:04:52,705 core/tools_wrap.cxx:4714:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont >; Seq = std::vector >]’ 2021-07-14T14:04:52,705 core/tools_wrap.cxx:4736:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = std::vector; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ 2021-07-14T14:04:52,705 core/tools_wrap.cxx:4797:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = std::vector; PyObject = _object]’ 2021-07-14T14:04:52,705 core/tools_wrap.cxx:3788:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ 2021-07-14T14:04:52,706 core/tools_wrap.cxx:10419:34: required from here 2021-07-14T14:04:52,706 core/tools_wrap.cxx:3871:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘class std::vector’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:04:52,706 3871 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:04:52,706 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:04:52,706 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:04:52,706 from core/moods.h:5, 2021-07-14T14:04:52,706 from core/tools_wrap.cxx:3136: 2021-07-14T14:04:52,707 /usr/include/c++/10/bits/stl_vector.h:389:11: note: ‘class std::vector’ declared here 2021-07-14T14:04:52,707 389 | class vector : protected _Vector_base<_Tp, _Alloc> 2021-07-14T14:04:52,707 | ^~~~~~ 2021-07-14T14:04:52,709 core/tools_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = MOODS::variant; PyObject = _object]’: 2021-07-14T14:04:52,710 core/tools_wrap.cxx:3896:64: required from ‘Type swig::as(PyObject*, bool) [with Type = MOODS::variant; PyObject = _object]’ 2021-07-14T14:04:52,710 core/tools_wrap.cxx:4463:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = MOODS::variant]’ 2021-07-14T14:04:52,710 core/tools_wrap.cxx:4714:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector]’ 2021-07-14T14:04:52,710 core/tools_wrap.cxx:4736:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector; T = MOODS::variant; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector]’ 2021-07-14T14:04:52,710 core/tools_wrap.cxx:4797:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = MOODS::variant; PyObject = _object]’ 2021-07-14T14:04:52,710 core/tools_wrap.cxx:3788:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:04:52,711 core/tools_wrap.cxx:12367:34: required from here 2021-07-14T14:04:52,711 core/tools_wrap.cxx:3871:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct MOODS::variant’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:04:52,711 3871 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:04:52,711 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:04:52,711 In file included from core/moods_tools.h:5, 2021-07-14T14:04:52,711 from core/tools_wrap.cxx:3137: 2021-07-14T14:04:52,712 core/match_types.h:17:12: note: ‘struct MOODS::variant’ declared here 2021-07-14T14:04:52,712 17 | struct variant 2021-07-14T14:04:52,712 | ^~~~~~~ 2021-07-14T14:05:04,686 In file included from /usr/include/string.h:495, 2021-07-14T14:05:04,687 from /usr/include/python3.9/Python.h:30, 2021-07-14T14:05:04,687 from core/tools_wrap.cxx:173: 2021-07-14T14:05:04,687 In function ‘char* strncpy(char*, const char*, size_t)’, 2021-07-14T14:05:04,687 inlined from ‘void SWIG_Python_FixMethods(PyMethodDef*, swig_const_info*, swig_type_info**, swig_type_info**)’ at core/tools_wrap.cxx:16834:22, 2021-07-14T14:05:04,687 inlined from ‘PyObject* PyInit__tools()’ at core/tools_wrap.cxx:16929:25: 2021-07-14T14:05:04,687 /usr/include/arm-linux-gnueabihf/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ output truncated before terminating nul copying 10 bytes from a string of the same length [-Wstringop-truncation] 2021-07-14T14:05:04,687 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); 2021-07-14T14:05:04,688 | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:06,734 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:05:06,734 from core/moods.h:5, 2021-07-14T14:05:06,734 from core/tools_wrap.cxx:3136: 2021-07-14T14:05:06,734 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:05:06,735 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:05:06,735 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:05:06,735 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:06,735 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:05:06,770 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:06,771 from core/moods.h:5, 2021-07-14T14:05:06,771 from core/tools_wrap.cxx:3136: 2021-07-14T14:05:06,771 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_append(PyObject*, PyObject*)’: 2021-07-14T14:05:06,771 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:06,771 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:05:06,771 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:05:06,836 /usr/include/c++/10/bits/stl_vector.h: In function ‘Sequence* swig::getslice(const Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector; Difference = int]’: 2021-07-14T14:05:06,836 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:06,837 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:05:06,837 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:05:06,837 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:06,837 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:05:06,837 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:05:06,837 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:06,916 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_push_back(PyObject*, PyObject*)’: 2021-07-14T14:05:06,916 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:06,916 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:05:06,916 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:05:06,978 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:05:06,979 from core/moods.h:5, 2021-07-14T14:05:06,979 from core/tools_wrap.cxx:3136: 2021-07-14T14:05:06,979 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:05:06,979 /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:05:06,979 509 | vector<_Tp, _Alloc>:: 2021-07-14T14:05:06,979 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:13,068 /usr/include/c++/10/bits/vector.tcc: In function ‘PyObject* _wrap_vector_double_insert(PyObject*, PyObject*)’: 2021-07-14T14:05:13,068 /usr/include/c++/10/bits/vector.tcc:161:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:13,068 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); 2021-07-14T14:05:13,069 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:13,071 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:13,071 from core/moods.h:5, 2021-07-14T14:05:13,071 from core/tools_wrap.cxx:3136: 2021-07-14T14:05:13,071 /usr/include/c++/10/bits/stl_vector.h:1338:16: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:13,071 1338 | _M_fill_insert(begin() + __offset, __n, __x); 2021-07-14T14:05:13,071 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:13,313 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_resize(PyObject*, PyObject*)’: 2021-07-14T14:05:13,314 /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:13,314 960 | _M_fill_insert(end(), __new_size - size(), __x); 2021-07-14T14:05:13,314 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:28,412 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/core/match_types.o build/temp.linux-armv7l-3.9/core/moods_misc.o build/temp.linux-armv7l-3.9/core/moods_tools.o build/temp.linux-armv7l-3.9/core/tools_wrap.o -o build/lib.linux-armv7l-3.9/MOODS/_tools.cpython-39-arm-linux-gnueabihf.so 2021-07-14T14:05:28,998 building 'MOODS._scan' extension 2021-07-14T14:05:28,999 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/match_types.cpp -o build/temp.linux-armv7l-3.9/core/match_types.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:29,874 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_misc.cpp -o build/temp.linux-armv7l-3.9/core/moods_misc.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:31,105 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_scan.cpp -o build/temp.linux-armv7l-3.9/core/moods_scan.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:32,191 core/moods_scan.cpp: In function ‘std::vector > MOODS::scan::scan_best_hits_dna(const string&, const std::vector > >&, std::size_t, int, unsigned int, std::size_t, std::size_t)’: 2021-07-14T14:05:32,191 core/moods_scan.cpp:97:14: warning: unused variable ‘done’ [-Wunused-variable] 2021-07-14T14:05:32,191 97 | bool done = 0; 2021-07-14T14:05:32,192 | ^~~~ 2021-07-14T14:05:32,210 core/moods_scan.cpp: In function ‘std::vector MOODS::scan::naive_scan_dna(const string&, score_matrix, double, std::size_t)’: 2021-07-14T14:05:32,210 core/moods_scan.cpp:252:33: warning: suggest parentheses around arithmetic in operand of ‘|’ [-Wparentheses] 2021-07-14T14:05:32,210 252 | CODE = MASK & (CODE << SHIFT) | alphabet_map[seq[i+j+q-1]]; 2021-07-14T14:05:32,211 | ~~~~~^~~~~~~~~~~~~~~~~ 2021-07-14T14:05:33,502 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:05:33,502 from core/moods.h:5, 2021-07-14T14:05:33,502 from core/moods_scan.cpp:3: 2021-07-14T14:05:33,503 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:05:33,503 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:05:33,503 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:05:33,503 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:33,897 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:33,897 from core/moods.h:5, 2021-07-14T14:05:33,897 from core/moods_scan.cpp:3: 2021-07-14T14:05:33,897 /usr/include/c++/10/bits/stl_vector.h: In function ‘std::vector > MOODS::scan::scan_best_hits_dna(const string&, const std::vector > >&, std::size_t, int, unsigned int, std::size_t, std::size_t)’: 2021-07-14T14:05:33,897 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:33,898 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:05:33,898 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:05:34,644 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:05:34,645 from core/moods.h:5, 2021-07-14T14:05:34,645 from core/moods_scan.cpp:3: 2021-07-14T14:05:34,645 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {MOODS::match}; _Tp = MOODS::match; _Alloc = std::allocator]’: 2021-07-14T14:05:34,645 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:05:34,645 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:05:34,645 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:34,714 /usr/include/c++/10/bits/vector.tcc: In function ‘std::vector MOODS::scan::naive_scan_dna(const string&, score_matrix, double, std::size_t)’: 2021-07-14T14:05:34,714 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:34,714 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:05:34,714 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:34,821 /usr/include/c++/10/bits/vector.tcc: In function ‘std::vector MOODS::scan::naive_scan_dna(const string&, score_matrix, double)’: 2021-07-14T14:05:34,821 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:05:34,821 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:05:34,821 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:35,383 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_tools.cpp -o build/temp.linux-armv7l-3.9/core/moods_tools.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:36,216 core/moods_tools.cpp: In function ‘double MOODS::tools::threshold_from_p_with_precision(const score_matrix&, const std::vector&, const double&, double)’: 2021-07-14T14:05:36,216 core/moods_tools.cpp:153:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,216 153 | for (size_t i = 0; i < n; ++i) 2021-07-14T14:05:36,217 | ~~^~~ 2021-07-14T14:05:36,217 core/moods_tools.cpp:155:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,217 155 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:05:36,217 | ~~^~~ 2021-07-14T14:05:36,217 core/moods_tools.cpp:166:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,218 166 | for (size_t i = 0; i < n; ++i) 2021-07-14T14:05:36,218 | ~~^~~ 2021-07-14T14:05:36,218 core/moods_tools.cpp:170:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,218 170 | for (size_t j = 1; j < a; ++j) 2021-07-14T14:05:36,218 | ~~^~~ 2021-07-14T14:05:36,218 core/moods_tools.cpp:188:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,219 188 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:05:36,219 | ~~^~~ 2021-07-14T14:05:36,219 core/moods_tools.cpp:191:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,219 191 | for (size_t i = 1; i < n; ++i) 2021-07-14T14:05:36,219 | ~~^~~ 2021-07-14T14:05:36,219 core/moods_tools.cpp:193:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,220 193 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:05:36,220 | ~~^~~ 2021-07-14T14:05:36,226 core/moods_tools.cpp: In function ‘score_matrix MOODS::tools::log_odds(const std::vector >&, const std::vector >&, const std::vector&, double, std::size_t)’: 2021-07-14T14:05:36,226 core/moods_tools.cpp:323:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:05:36,226 323 | for (size_t PCODE = 0; PCODE < 1 << (SHIFT * r); ++PCODE ){ 2021-07-14T14:05:36,226 | ~~~~~~^~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:36,227 core/moods_tools.cpp:331:46: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:05:36,227 331 | for (size_t SCODE = 0; SCODE < 1 << (SHIFT * (q - r - 1)); ++SCODE){ 2021-07-14T14:05:36,227 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:36,235 core/moods_tools.cpp: In function ‘double MOODS::tools::threshold_from_p_with_precision(const score_matrix&, const std::vector&, const double&, double, std::size_t)’: 2021-07-14T14:05:36,236 core/moods_tools.cpp:457:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,236 457 | for (size_t i = 0; i < cols; ++i) 2021-07-14T14:05:36,236 | ~~^~~~~~ 2021-07-14T14:05:36,236 core/moods_tools.cpp:459:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,236 459 | for (size_t CODE = 0; CODE < rows; ++CODE) 2021-07-14T14:05:36,236 | ~~~~~^~~~~~ 2021-07-14T14:05:36,236 core/moods_tools.cpp:471:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,237 471 | for (size_t i = 0; i < cols; ++i) 2021-07-14T14:05:36,237 | ~~^~~~~~ 2021-07-14T14:05:36,237 core/moods_tools.cpp:475:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,237 475 | for (size_t CODE = 1; CODE < rows; ++CODE) 2021-07-14T14:05:36,237 | ~~~~~^~~~~~ 2021-07-14T14:05:36,237 core/moods_tools.cpp:492:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:05:36,238 492 | for (size_t CODE = 0; CODE < (1 << (SHIFT * q)); ++CODE){ 2021-07-14T14:05:36,238 | ~~~~~^~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:36,238 core/moods_tools.cpp:503:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:05:36,238 503 | for (size_t i = 1; i < cols; ++i) 2021-07-14T14:05:36,238 | ~~^~~~~~ 2021-07-14T14:05:36,239 core/moods_tools.cpp:506:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:05:36,239 506 | for (size_t CODE = 0; CODE < (1 << (SHIFT * q)); ++CODE) 2021-07-14T14:05:36,239 | ~~~~~^~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:40,569 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/motif_0.cpp -o build/temp.linux-armv7l-3.9/core/motif_0.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:41,442 core/motif_0.cpp: In function ‘std::vector MOODS::scan::expected_differences(const score_matrix&, const std::vector&)’: 2021-07-14T14:05:41,442 core/motif_0.cpp:28:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T14:05:41,442 28 | for (int i = 0; i < m; ++i) 2021-07-14T14:05:41,443 | ~~^~~ 2021-07-14T14:05:41,443 core/motif_0.cpp:31:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T14:05:41,443 31 | for (int j = 0; j < a; ++j) 2021-07-14T14:05:41,443 | ~~^~~ 2021-07-14T14:05:41,444 core/motif_0.cpp:38:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘std::size_t’ {aka ‘unsigned int’} [-Wsign-compare] 2021-07-14T14:05:41,444 38 | for (int j = 0; j < a; ++j) 2021-07-14T14:05:41,445 | ~~^~~ 2021-07-14T14:05:41,447 core/motif_0.cpp: In function ‘unsigned int MOODS::scan::window_position(const std::vector&, unsigned int, unsigned int)’: 2021-07-14T14:05:41,447 core/motif_0.cpp:64:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T14:05:41,447 64 | for (int i = 0; i < m - l; ++i) 2021-07-14T14:05:41,447 | ~~^~~~~~~ 2021-07-14T14:05:41,453 core/motif_0.cpp: In function ‘std::vector MOODS::scan::compute_lookahead_order(const std::vector&, unsigned int, unsigned int, unsigned int)’: 2021-07-14T14:05:41,453 core/motif_0.cpp:96:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T14:05:41,454 96 | for (int i = 0; i < window_pos; ++i) 2021-07-14T14:05:41,454 | ~~^~~~~~~~~~~~ 2021-07-14T14:05:41,454 core/motif_0.cpp:100:38: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T14:05:41,454 100 | for (int i = window_pos+l; i < m; ++i) 2021-07-14T14:05:41,455 | ~~^~~ 2021-07-14T14:05:42,976 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/motif_h.cpp -o build/temp.linux-armv7l-3.9/core/motif_h.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:43,862 core/motif_h.cpp: In member function ‘std::vector MOODS::scan::MotifH::expected_scores(const std::vector&)’: 2021-07-14T14:05:43,863 core/motif_h.cpp:26:23: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T14:05:43,863 26 | for (int i = 0; i < cols; ++i){ 2021-07-14T14:05:43,863 | ~~^~~~~~ 2021-07-14T14:05:43,863 core/motif_h.cpp:27:27: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare] 2021-07-14T14:05:43,864 27 | for (int j = 0; j < rows; ++j){ 2021-07-14T14:05:43,864 | ~~^~~~~~ 2021-07-14T14:05:43,908 core/motif_h.cpp: In member function ‘virtual std::pair MOODS::scan::MotifH::check_hit(const string&, const std::vector&, std::size_t, double)’: 2021-07-14T14:05:43,908 core/motif_h.cpp:256:25: warning: suggest parentheses around arithmetic in operand of ‘^’ [-Wparentheses] 2021-07-14T14:05:43,908 256 | CODE = MASK & (CODE << SHIFT) ^ alphabet_map[s[ii + i + q - 1]]; 2021-07-14T14:05:43,909 | ~~~~~^~~~~~~~~~~~~~~~~ 2021-07-14T14:05:45,625 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/scan_wrap.cxx -o build/temp.linux-armv7l-3.9/core/scan_wrap.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:05:50,491 core/scan_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’: 2021-07-14T14:05:50,492 core/scan_wrap.cxx:3911:64: required from ‘Type swig::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,492 core/scan_wrap.cxx:4478:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = std::vector]’ 2021-07-14T14:05:50,492 core/scan_wrap.cxx:4729:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont >; Seq = std::vector >]’ 2021-07-14T14:05:50,492 core/scan_wrap.cxx:4751:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = std::vector; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ 2021-07-14T14:05:50,492 core/scan_wrap.cxx:4812:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,493 core/scan_wrap.cxx:3803:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ 2021-07-14T14:05:50,493 core/scan_wrap.cxx:13149:34: required from here 2021-07-14T14:05:50,493 core/scan_wrap.cxx:3886:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘class std::vector’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:05:50,493 3886 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:05:50,493 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,493 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:50,494 from core/moods.h:5, 2021-07-14T14:05:50,494 from core/scan_wrap.cxx:3150: 2021-07-14T14:05:50,494 /usr/include/c++/10/bits/stl_vector.h:389:11: note: ‘class std::vector’ declared here 2021-07-14T14:05:50,494 389 | class vector : protected _Vector_base<_Tp, _Alloc> 2021-07-14T14:05:50,494 | ^~~~~~ 2021-07-14T14:05:50,497 core/scan_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = std::vector >; PyObject = _object]’: 2021-07-14T14:05:50,497 core/scan_wrap.cxx:3911:64: required from ‘Type swig::as(PyObject*, bool) [with Type = std::vector >; PyObject = _object]’ 2021-07-14T14:05:50,497 core/scan_wrap.cxx:4478:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = std::vector >]’ 2021-07-14T14:05:50,497 core/scan_wrap.cxx:4729:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont > >; Seq = std::vector > >]’ 2021-07-14T14:05:50,497 core/scan_wrap.cxx:4751:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector > >; T = std::vector >; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector > >]’ 2021-07-14T14:05:50,498 core/scan_wrap.cxx:4812:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = std::vector >; PyObject = _object]’ 2021-07-14T14:05:50,498 core/scan_wrap.cxx:3803:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector > >; PyObject = _object]’ 2021-07-14T14:05:50,498 core/scan_wrap.cxx:15097:34: required from here 2021-07-14T14:05:50,498 core/scan_wrap.cxx:3886:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘class std::vector >’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:05:50,498 3886 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:05:50,498 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,499 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:50,499 from core/moods.h:5, 2021-07-14T14:05:50,499 from core/scan_wrap.cxx:3150: 2021-07-14T14:05:50,499 /usr/include/c++/10/bits/stl_vector.h:389:11: note: ‘class std::vector >’ declared here 2021-07-14T14:05:50,499 389 | class vector : protected _Vector_base<_Tp, _Alloc> 2021-07-14T14:05:50,499 | ^~~~~~ 2021-07-14T14:05:50,506 core/scan_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’: 2021-07-14T14:05:50,506 core/scan_wrap.cxx:3911:64: required from ‘Type swig::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,506 core/scan_wrap.cxx:4478:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = std::vector]’ 2021-07-14T14:05:50,506 core/scan_wrap.cxx:4729:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont >; Seq = std::vector >]’ 2021-07-14T14:05:50,507 core/scan_wrap.cxx:4751:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = std::vector; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ 2021-07-14T14:05:50,507 core/scan_wrap.cxx:4812:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,507 core/scan_wrap.cxx:3803:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ 2021-07-14T14:05:50,507 core/scan_wrap.cxx:18961:34: required from here 2021-07-14T14:05:50,507 core/scan_wrap.cxx:3886:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘class std::vector’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:05:50,507 3886 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:05:50,508 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,508 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:50,508 from core/moods.h:5, 2021-07-14T14:05:50,508 from core/scan_wrap.cxx:3150: 2021-07-14T14:05:50,508 /usr/include/c++/10/bits/stl_vector.h:389:11: note: ‘class std::vector’ declared here 2021-07-14T14:05:50,508 389 | class vector : protected _Vector_base<_Tp, _Alloc> 2021-07-14T14:05:50,508 | ^~~~~~ 2021-07-14T14:05:50,514 core/scan_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = MOODS::variant; PyObject = _object]’: 2021-07-14T14:05:50,515 core/scan_wrap.cxx:3911:64: required from ‘Type swig::as(PyObject*, bool) [with Type = MOODS::variant; PyObject = _object]’ 2021-07-14T14:05:50,515 core/scan_wrap.cxx:4478:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = MOODS::variant]’ 2021-07-14T14:05:50,515 core/scan_wrap.cxx:4729:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector]’ 2021-07-14T14:05:50,515 core/scan_wrap.cxx:4751:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector; T = MOODS::variant; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector]’ 2021-07-14T14:05:50,515 core/scan_wrap.cxx:4812:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = MOODS::variant; PyObject = _object]’ 2021-07-14T14:05:50,515 core/scan_wrap.cxx:3803:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,516 core/scan_wrap.cxx:22857:34: required from here 2021-07-14T14:05:50,516 core/scan_wrap.cxx:3886:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct MOODS::variant’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:05:50,516 3886 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:05:50,516 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,516 In file included from core/scanner.h:7, 2021-07-14T14:05:50,516 from core/moods_scan.h:7, 2021-07-14T14:05:50,517 from core/scan_wrap.cxx:3151: 2021-07-14T14:05:50,517 core/match_types.h:17:12: note: ‘struct MOODS::variant’ declared here 2021-07-14T14:05:50,517 17 | struct variant 2021-07-14T14:05:50,517 | ^~~~~~~ 2021-07-14T14:05:50,519 core/scan_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = MOODS::match_with_variant; PyObject = _object]’: 2021-07-14T14:05:50,520 core/scan_wrap.cxx:3911:64: required from ‘Type swig::as(PyObject*, bool) [with Type = MOODS::match_with_variant; PyObject = _object]’ 2021-07-14T14:05:50,520 core/scan_wrap.cxx:4478:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = MOODS::match_with_variant]’ 2021-07-14T14:05:50,520 core/scan_wrap.cxx:4729:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont; Seq = std::vector]’ 2021-07-14T14:05:50,520 core/scan_wrap.cxx:4751:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector; T = MOODS::match_with_variant; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector]’ 2021-07-14T14:05:50,520 core/scan_wrap.cxx:4812:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = MOODS::match_with_variant; PyObject = _object]’ 2021-07-14T14:05:50,520 core/scan_wrap.cxx:3803:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,521 core/scan_wrap.cxx:24773:34: required from here 2021-07-14T14:05:50,521 core/scan_wrap.cxx:3886:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘struct MOODS::match_with_variant’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:05:50,521 3886 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:05:50,521 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,521 In file included from core/scanner.h:7, 2021-07-14T14:05:50,521 from core/moods_scan.h:7, 2021-07-14T14:05:50,522 from core/scan_wrap.cxx:3151: 2021-07-14T14:05:50,522 core/match_types.h:35:12: note: ‘struct MOODS::match_with_variant’ declared here 2021-07-14T14:05:50,522 35 | struct match_with_variant 2021-07-14T14:05:50,522 | ^~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,524 core/scan_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’: 2021-07-14T14:05:50,525 core/scan_wrap.cxx:3911:64: required from ‘Type swig::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,525 core/scan_wrap.cxx:4478:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = std::vector]’ 2021-07-14T14:05:50,525 core/scan_wrap.cxx:4729:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont >; Seq = std::vector >]’ 2021-07-14T14:05:50,525 core/scan_wrap.cxx:4751:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = std::vector; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ 2021-07-14T14:05:50,525 core/scan_wrap.cxx:4812:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = std::vector; PyObject = _object]’ 2021-07-14T14:05:50,525 core/scan_wrap.cxx:3803:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ 2021-07-14T14:05:50,525 core/scan_wrap.cxx:26689:34: required from here 2021-07-14T14:05:50,526 core/scan_wrap.cxx:3886:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘class std::vector’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:05:50,526 3886 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:05:50,526 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:05:50,526 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:05:50,526 from core/moods.h:5, 2021-07-14T14:05:50,526 from core/scan_wrap.cxx:3150: 2021-07-14T14:05:50,526 /usr/include/c++/10/bits/stl_vector.h:389:11: note: ‘class std::vector’ declared here 2021-07-14T14:05:50,527 389 | class vector : protected _Vector_base<_Tp, _Alloc> 2021-07-14T14:05:50,527 | ^~~~~~ 2021-07-14T14:06:16,847 In file included from /usr/include/string.h:495, 2021-07-14T14:06:16,847 from /usr/include/python3.9/Python.h:30, 2021-07-14T14:06:16,848 from core/scan_wrap.cxx:173: 2021-07-14T14:06:16,848 In function ‘char* strncpy(char*, const char*, size_t)’, 2021-07-14T14:06:16,848 inlined from ‘void SWIG_Python_FixMethods(PyMethodDef*, swig_const_info*, swig_type_info**, swig_type_info**)’ at core/scan_wrap.cxx:31682:22, 2021-07-14T14:06:16,848 inlined from ‘PyObject* PyInit__scan()’ at core/scan_wrap.cxx:31777:25: 2021-07-14T14:06:16,848 /usr/include/arm-linux-gnueabihf/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ output truncated before terminating nul copying 10 bytes from a string of the same length [-Wstringop-truncation] 2021-07-14T14:06:16,848 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); 2021-07-14T14:06:16,848 | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:23,122 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:23,122 from core/moods.h:5, 2021-07-14T14:06:23,122 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:23,122 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:06:23,123 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:23,123 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:23,123 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:23,123 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:23,158 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:23,159 from core/moods.h:5, 2021-07-14T14:06:23,159 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:23,159 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_append(PyObject*, PyObject*)’: 2021-07-14T14:06:23,159 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:23,159 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:23,159 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:23,223 /usr/include/c++/10/bits/stl_vector.h: In function ‘Sequence* swig::getslice(const Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector; Difference = int]’: 2021-07-14T14:06:23,224 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:23,224 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:23,224 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:23,224 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:23,224 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:23,225 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:23,225 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:23,302 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_push_back(PyObject*, PyObject*)’: 2021-07-14T14:06:23,303 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:23,303 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:23,303 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:23,365 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:23,365 from core/moods.h:5, 2021-07-14T14:06:23,365 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:23,365 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:06:23,365 /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:23,366 509 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:23,366 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:28,288 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const MOODS::match&}; _Tp = MOODS::match; _Alloc = std::allocator]’: 2021-07-14T14:06:28,288 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:28,289 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:28,289 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:28,323 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:28,323 from core/moods.h:5, 2021-07-14T14:06:28,324 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:28,324 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_push_back(PyObject*, PyObject*)’: 2021-07-14T14:06:28,324 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:28,324 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:28,324 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:28,386 /usr/include/c++/10/bits/stl_vector.h: In function ‘Sequence* swig::getslice(const Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector; Difference = int]’: 2021-07-14T14:06:28,386 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:28,386 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:28,386 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:28,386 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:28,387 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:28,387 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:28,387 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:28,467 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_append(PyObject*, PyObject*)’: 2021-07-14T14:06:28,467 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:28,467 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:28,467 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:28,529 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:28,529 from core/moods.h:5, 2021-07-14T14:06:28,529 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:28,529 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = MOODS::match; _Alloc = std::allocator]’: 2021-07-14T14:06:28,529 /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:28,529 509 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:28,530 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:34,137 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:34,137 from core/moods.h:5, 2021-07-14T14:06:34,137 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:34,137 /usr/include/c++/10/bits/stl_vector.h: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::insert(std::vector<_Tp, _Alloc>::const_iterator, _InputIterator, _InputIterator) [with _InputIterator = __gnu_cxx::__normal_iterator >; = void; _Tp = MOODS::match_with_variant; _Alloc = std::allocator]’: 2021-07-14T14:06:34,138 /usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 2021-07-14T14:06:34,138 1379 | insert(const_iterator __position, _InputIterator __first, 2021-07-14T14:06:34,138 | ^~~~~~ 2021-07-14T14:06:34,138 /usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 2021-07-14T14:06:34,138 /usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,138 /usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,139 /usr/include/c++/10/bits/stl_vector.h:1379:2: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,368 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:34,368 from core/moods.h:5, 2021-07-14T14:06:34,368 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:34,368 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const MOODS::match_with_variant&}; _Tp = MOODS::match_with_variant; _Alloc = std::allocator]’: 2021-07-14T14:06:34,369 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:34,369 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:34,369 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:34,449 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:34,449 from core/moods.h:5, 2021-07-14T14:06:34,449 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:34,449 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_variant_append(PyObject*, PyObject*)’: 2021-07-14T14:06:34,449 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,450 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:34,450 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:34,555 /usr/include/c++/10/bits/stl_vector.h: In function ‘Sequence* swig::getslice(const Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector; Difference = int]’: 2021-07-14T14:06:34,555 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,556 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:34,556 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:34,556 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,556 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:34,557 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:34,692 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_variant_push_back(PyObject*, PyObject*)’: 2021-07-14T14:06:34,692 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:34,692 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:06:34,692 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:06:35,186 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:35,187 from core/moods.h:5, 2021-07-14T14:06:35,187 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:35,187 /usr/include/c++/10/bits/vector.tcc: In member function ‘std::vector<_Tp, _Alloc>::iterator std::vector<_Tp, _Alloc>::_M_erase(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::iterator) [with _Tp = MOODS::match_with_variant; _Alloc = std::allocator]’: 2021-07-14T14:06:35,187 /usr/include/c++/10/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:35,187 184 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:35,187 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,187 /usr/include/c++/10/bits/vector.tcc:184:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:35,258 core/scan_wrap.cxx: In function ‘void swig::setslice(Sequence*, Difference, Difference, Py_ssize_t, const InputSeq&) [with Sequence = std::vector; Difference = int; InputSeq = std::vector]’: 2021-07-14T14:06:35,258 core/scan_wrap.cxx:4162:23: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 2021-07-14T14:06:35,258 4162 | self->insert(std::copy(is.begin(), isit, sb), isit, is.end()); 2021-07-14T14:06:35,258 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,258 core/scan_wrap.cxx:4162:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,258 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:35,259 from core/moods.h:5, 2021-07-14T14:06:35,259 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:35,259 /usr/include/c++/10/bits/stl_vector.h:1461:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,259 1461 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); 2021-07-14T14:06:35,259 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,259 core/scan_wrap.cxx:4172:23: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 2021-07-14T14:06:35,259 4172 | self->insert(sb, is.begin(), is.end()); 2021-07-14T14:06:35,260 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,260 core/scan_wrap.cxx:4172:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,355 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:35,355 from core/moods.h:5, 2021-07-14T14:06:35,355 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:35,355 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_variant___delslice__(PyObject*, PyObject*)’: 2021-07-14T14:06:35,355 /usr/include/c++/10/bits/stl_vector.h:1461:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,356 1461 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); 2021-07-14T14:06:35,356 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,435 core/scan_wrap.cxx: In function ‘void swig::setslice(Sequence*, Difference, Difference, Py_ssize_t, const InputSeq&) [with Sequence = std::vector; Difference = int; InputSeq = std::vector]’: 2021-07-14T14:06:35,435 core/scan_wrap.cxx:4162:23: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 2021-07-14T14:06:35,435 4162 | self->insert(std::copy(is.begin(), isit, sb), isit, is.end()); 2021-07-14T14:06:35,435 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,436 core/scan_wrap.cxx:4162:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,436 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:35,436 from core/moods.h:5, 2021-07-14T14:06:35,436 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:35,436 /usr/include/c++/10/bits/stl_vector.h:1461:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,436 1461 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); 2021-07-14T14:06:35,436 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,436 core/scan_wrap.cxx:4172:23: note: parameter passing for argument of type ‘std::vector::const_iterator’ changed in GCC 7.1 2021-07-14T14:06:35,437 4172 | self->insert(sb, is.begin(), is.end()); 2021-07-14T14:06:35,437 | ~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,437 core/scan_wrap.cxx:4172:23: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,558 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:35,558 from core/moods.h:5, 2021-07-14T14:06:35,558 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:35,558 /usr/include/c++/10/bits/stl_vector.h: In function ‘void std_vector_Sl_MOODS_match_with_variant_Sg____setitem____SWIG_1(std::vector*, PySliceObject*)’: 2021-07-14T14:06:35,559 /usr/include/c++/10/bits/stl_vector.h:1461:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:35,559 1461 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); 2021-07-14T14:06:35,559 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,662 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:35,662 from core/moods.h:5, 2021-07-14T14:06:35,662 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:35,662 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_insert_aux(std::vector<_Tp, _Alloc>::iterator, _Arg&&) [with _Arg = MOODS::match_with_variant; _Tp = MOODS::match_with_variant; _Alloc = std::allocator]’: 2021-07-14T14:06:35,662 /usr/include/c++/10/bits/vector.tcc:395:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:35,662 395 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:35,662 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:35,830 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = MOODS::match_with_variant; _Alloc = std::allocator]’: 2021-07-14T14:06:35,831 /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:06:35,831 509 | vector<_Tp, _Alloc>:: 2021-07-14T14:06:35,831 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:42,002 /usr/include/c++/10/bits/vector.tcc: In function ‘PyObject* _wrap_vector_double_insert(PyObject*, PyObject*)’: 2021-07-14T14:06:42,002 /usr/include/c++/10/bits/vector.tcc:161:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:42,002 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); 2021-07-14T14:06:42,002 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:42,003 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:42,003 from core/moods.h:5, 2021-07-14T14:06:42,003 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:42,003 /usr/include/c++/10/bits/stl_vector.h:1338:16: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:42,003 1338 | _M_fill_insert(begin() + __offset, __n, __x); 2021-07-14T14:06:42,004 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:42,170 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_resize(PyObject*, PyObject*)’: 2021-07-14T14:06:42,170 /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:42,170 960 | _M_fill_insert(end(), __new_size - size(), __x); 2021-07-14T14:06:42,170 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:54,322 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:06:54,323 from core/moods.h:5, 2021-07-14T14:06:54,323 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:54,323 /usr/include/c++/10/bits/vector.tcc: In function ‘PyObject* _wrap_vector_match_insert(PyObject*, PyObject*)’: 2021-07-14T14:06:54,323 /usr/include/c++/10/bits/vector.tcc:161:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:54,323 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); 2021-07-14T14:06:54,324 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:54,324 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:06:54,324 from core/moods.h:5, 2021-07-14T14:06:54,324 from core/scan_wrap.cxx:3150: 2021-07-14T14:06:54,324 /usr/include/c++/10/bits/stl_vector.h:1338:16: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:54,324 1338 | _M_fill_insert(begin() + __offset, __n, __x); 2021-07-14T14:06:54,324 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:06:54,503 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_resize(PyObject*, PyObject*)’: 2021-07-14T14:06:54,504 /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:06:54,504 960 | _M_fill_insert(end(), __new_size - size(), __x); 2021-07-14T14:06:54,504 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:03,884 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:07:03,884 from core/moods.h:5, 2021-07-14T14:07:03,884 from core/scan_wrap.cxx:3150: 2021-07-14T14:07:03,885 /usr/include/c++/10/bits/vector.tcc: In static member function ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector; T = MOODS::match_with_variant]’: 2021-07-14T14:07:03,885 /usr/include/c++/10/bits/vector.tcc:354:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:03,885 354 | _M_insert_aux(begin() + __n, std::move(__v)); 2021-07-14T14:07:03,885 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:04,710 /usr/include/c++/10/bits/vector.tcc: In function ‘PyObject* _wrap_vector_match_variant_insert(PyObject*, PyObject*)’: 2021-07-14T14:07:04,710 /usr/include/c++/10/bits/vector.tcc:154:19: note: parameter passing for argument of type ‘const __gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:04,710 154 | _M_insert_aux(__pos, std::move(__x_copy._M_val())); 2021-07-14T14:07:04,711 | ~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:04,711 /usr/include/c++/10/bits/vector.tcc:161:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:04,711 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); 2021-07-14T14:07:04,711 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:04,711 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:07:04,712 from core/moods.h:5, 2021-07-14T14:07:04,712 from core/scan_wrap.cxx:3150: 2021-07-14T14:07:04,712 /usr/include/c++/10/bits/stl_vector.h:1338:16: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:04,712 1338 | _M_fill_insert(begin() + __offset, __n, __x); 2021-07-14T14:07:04,712 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:04,905 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_variant_resize(PyObject*, PyObject*)’: 2021-07-14T14:07:04,905 /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:04,905 960 | _M_fill_insert(end(), __new_size - size(), __x); 2021-07-14T14:07:04,905 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:05,096 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_match_variant_erase(PyObject*, PyObject*)’: 2021-07-14T14:07:05,096 /usr/include/c++/10/bits/stl_vector.h:1461:17: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:05,096 1461 | return _M_erase(__beg + (__first - __cbeg), __beg + (__last - __cbeg)); 2021-07-14T14:07:05,096 | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:24,653 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/scanner.cpp -o build/temp.linux-armv7l-3.9/core/scanner.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:07:28,272 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:07:28,272 from core/moods.h:5, 2021-07-14T14:07:28,272 from core/scanner.cpp:15: 2021-07-14T14:07:28,272 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {MOODS::scan::scanner_output&}; _Tp = MOODS::scan::scanner_output; _Alloc = std::allocator]’: 2021-07-14T14:07:28,273 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:28,273 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:07:28,273 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:28,352 /usr/include/c++/10/bits/vector.tcc: In member function ‘void MOODS::scan::Scanner::initialise_hit_table()’: 2021-07-14T14:07:28,352 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:28,352 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:28,352 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:29,575 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {MOODS::match}; _Tp = MOODS::match; _Alloc = std::allocator]’: 2021-07-14T14:07:29,576 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:29,576 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:07:29,576 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:29,821 /usr/include/c++/10/bits/vector.tcc: In member function ‘void MOODS::scan::Scanner::process_matches(const string&, T&) [with T = MOODS::scan::MaxHitsMH]’: 2021-07-14T14:07:29,821 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:29,821 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:29,821 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:29,822 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:29,823 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:29,823 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:29,824 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:29,824 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:29,824 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:29,825 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:29,825 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:29,825 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:30,474 /usr/include/c++/10/bits/vector.tcc: In member function ‘void MOODS::scan::Scanner::process_matches(const string&, T&) [with T = MOODS::scan::AllHitsMH]’: 2021-07-14T14:07:30,475 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:30,475 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:30,475 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:30,475 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:30,475 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:30,475 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:30,476 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:30,476 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:30,476 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:30,476 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:30,477 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:30,477 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:30,836 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {MOODS::match_with_variant}; _Tp = MOODS::match_with_variant; _Alloc = std::allocator]’: 2021-07-14T14:07:30,836 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:30,836 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:07:30,836 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:31,041 /usr/include/c++/10/bits/vector.tcc: In member function ‘void MOODS::scan::Scanner::variant_matches_recursive(std::vector >&, const MOODS::scan::state&, const string&, const std::vector&, int)’: 2021-07-14T14:07:31,041 /usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:31,041 121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...); 2021-07-14T14:07:31,041 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:34,881 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/core/match_types.o build/temp.linux-armv7l-3.9/core/moods_misc.o build/temp.linux-armv7l-3.9/core/moods_scan.o build/temp.linux-armv7l-3.9/core/moods_tools.o build/temp.linux-armv7l-3.9/core/motif_0.o build/temp.linux-armv7l-3.9/core/motif_h.o build/temp.linux-armv7l-3.9/core/scan_wrap.o build/temp.linux-armv7l-3.9/core/scanner.o -o build/lib.linux-armv7l-3.9/MOODS/_scan.cpython-39-arm-linux-gnueabihf.so 2021-07-14T14:07:36,010 building 'MOODS._parsers' extension 2021-07-14T14:07:36,011 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/match_types.cpp -o build/temp.linux-armv7l-3.9/core/match_types.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:07:36,893 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_misc.cpp -o build/temp.linux-armv7l-3.9/core/moods_misc.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:07:38,123 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_parsers.cpp -o build/temp.linux-armv7l-3.9/core/moods_parsers.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:07:40,104 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:07:40,104 from core/moods.h:5, 2021-07-14T14:07:40,104 from core/moods_parsers.cpp:10: 2021-07-14T14:07:40,104 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:07:40,104 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:40,104 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:07:40,105 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:40,211 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:07:40,211 from core/moods.h:5, 2021-07-14T14:07:40,211 from core/moods_parsers.cpp:10: 2021-07-14T14:07:40,211 /usr/include/c++/10/bits/stl_vector.h: In function ‘std::vector > MOODS::parsers::read_table(const string&)’: 2021-07-14T14:07:40,211 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:40,211 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:07:40,212 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:07:41,201 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/moods_tools.cpp -o build/temp.linux-armv7l-3.9/core/moods_tools.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:07:42,034 core/moods_tools.cpp: In function ‘double MOODS::tools::threshold_from_p_with_precision(const score_matrix&, const std::vector&, const double&, double)’: 2021-07-14T14:07:42,034 core/moods_tools.cpp:153:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,034 153 | for (size_t i = 0; i < n; ++i) 2021-07-14T14:07:42,034 | ~~^~~ 2021-07-14T14:07:42,034 core/moods_tools.cpp:155:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,035 155 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:07:42,035 | ~~^~~ 2021-07-14T14:07:42,035 core/moods_tools.cpp:166:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,035 166 | for (size_t i = 0; i < n; ++i) 2021-07-14T14:07:42,035 | ~~^~~ 2021-07-14T14:07:42,036 core/moods_tools.cpp:170:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,036 170 | for (size_t j = 1; j < a; ++j) 2021-07-14T14:07:42,036 | ~~^~~ 2021-07-14T14:07:42,036 core/moods_tools.cpp:188:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,036 188 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:07:42,036 | ~~^~~ 2021-07-14T14:07:42,037 core/moods_tools.cpp:191:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,037 191 | for (size_t i = 1; i < n; ++i) 2021-07-14T14:07:42,037 | ~~^~~ 2021-07-14T14:07:42,037 core/moods_tools.cpp:193:30: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,037 193 | for (size_t j = 0; j < a; ++j) 2021-07-14T14:07:42,037 | ~~^~~ 2021-07-14T14:07:42,043 core/moods_tools.cpp: In function ‘score_matrix MOODS::tools::log_odds(const std::vector >&, const std::vector >&, const std::vector&, double, std::size_t)’: 2021-07-14T14:07:42,044 core/moods_tools.cpp:323:38: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:07:42,044 323 | for (size_t PCODE = 0; PCODE < 1 << (SHIFT * r); ++PCODE ){ 2021-07-14T14:07:42,044 | ~~~~~~^~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:42,044 core/moods_tools.cpp:331:46: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:07:42,045 331 | for (size_t SCODE = 0; SCODE < 1 << (SHIFT * (q - r - 1)); ++SCODE){ 2021-07-14T14:07:42,045 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:42,053 core/moods_tools.cpp: In function ‘double MOODS::tools::threshold_from_p_with_precision(const score_matrix&, const std::vector&, const double&, double, std::size_t)’: 2021-07-14T14:07:42,053 core/moods_tools.cpp:457:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,053 457 | for (size_t i = 0; i < cols; ++i) 2021-07-14T14:07:42,053 | ~~^~~~~~ 2021-07-14T14:07:42,054 core/moods_tools.cpp:459:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,054 459 | for (size_t CODE = 0; CODE < rows; ++CODE) 2021-07-14T14:07:42,054 | ~~~~~^~~~~~ 2021-07-14T14:07:42,054 core/moods_tools.cpp:471:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,054 471 | for (size_t i = 0; i < cols; ++i) 2021-07-14T14:07:42,054 | ~~^~~~~~ 2021-07-14T14:07:42,055 core/moods_tools.cpp:475:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,055 475 | for (size_t CODE = 1; CODE < rows; ++CODE) 2021-07-14T14:07:42,055 | ~~~~~^~~~~~ 2021-07-14T14:07:42,055 core/moods_tools.cpp:492:32: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:07:42,055 492 | for (size_t CODE = 0; CODE < (1 << (SHIFT * q)); ++CODE){ 2021-07-14T14:07:42,055 | ~~~~~^~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:42,056 core/moods_tools.cpp:503:26: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘long int’ [-Wsign-compare] 2021-07-14T14:07:42,056 503 | for (size_t i = 1; i < cols; ++i) 2021-07-14T14:07:42,056 | ~~^~~~~~ 2021-07-14T14:07:42,056 core/moods_tools.cpp:506:36: warning: comparison of integer expressions of different signedness: ‘std::size_t’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare] 2021-07-14T14:07:42,057 506 | for (size_t CODE = 0; CODE < (1 << (SHIFT * q)); ++CODE) 2021-07-14T14:07:42,057 | ~~~~~^~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:46,380 arm-linux-gnueabihf-gcc -pthread -Wno-unused-result -Wsign-compare -DNDEBUG -g -fwrapv -O2 -Wall -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -Icore/ -I/usr/include/python3.9 -c core/parsers_wrap.cxx -o build/temp.linux-armv7l-3.9/core/parsers_wrap.o -march=native -O3 -fPIC --std=c++11 2021-07-14T14:07:48,809 core/parsers_wrap.cxx: In instantiation of ‘static Type swig::traits_as::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’: 2021-07-14T14:07:48,809 core/parsers_wrap.cxx:3889:64: required from ‘Type swig::as(PyObject*, bool) [with Type = std::vector; PyObject = _object]’ 2021-07-14T14:07:48,809 core/parsers_wrap.cxx:4456:20: required from ‘swig::SwigPySequence_Ref::operator T() const [with T = std::vector]’ 2021-07-14T14:07:48,810 core/parsers_wrap.cxx:4707:30: required from ‘void swig::assign(const SwigPySeq&, Seq*) [with SwigPySeq = swig::SwigPySequence_Cont >; Seq = std::vector >]’ 2021-07-14T14:07:48,810 core/parsers_wrap.cxx:4729:12: required from ‘static int swig::traits_asptr_stdseq::asptr(PyObject*, swig::traits_asptr_stdseq::sequence**) [with Seq = std::vector >; T = std::vector; PyObject = _object; swig::traits_asptr_stdseq::sequence = std::vector >]’ 2021-07-14T14:07:48,810 core/parsers_wrap.cxx:4790:52: required from ‘static int swig::traits_asptr >::asptr(PyObject*, std::vector**) [with T = std::vector; PyObject = _object]’ 2021-07-14T14:07:48,810 core/parsers_wrap.cxx:3781:37: required from ‘int swig::asptr(PyObject*, Type**) [with Type = std::vector >; PyObject = _object]’ 2021-07-14T14:07:48,810 core/parsers_wrap.cxx:10251:34: required from here 2021-07-14T14:07:48,810 core/parsers_wrap.cxx:3864:8: warning: ‘void* memset(void*, int, size_t)’ clearing an object of type ‘class std::vector’ with no trivial copy-assignment; use assignment or value-initialization instead [-Wclass-memaccess] 2021-07-14T14:07:48,811 3864 | memset(v_def,0,sizeof(Type)); 2021-07-14T14:07:48,811 | ~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:48,811 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:07:48,811 from core/moods.h:5, 2021-07-14T14:07:48,811 from core/parsers_wrap.cxx:3130: 2021-07-14T14:07:48,811 /usr/include/c++/10/bits/stl_vector.h:389:11: note: ‘class std::vector’ declared here 2021-07-14T14:07:48,812 389 | class vector : protected _Vector_base<_Tp, _Alloc> 2021-07-14T14:07:48,812 | ^~~~~~ 2021-07-14T14:07:56,933 In file included from /usr/include/string.h:495, 2021-07-14T14:07:56,933 from /usr/include/python3.9/Python.h:30, 2021-07-14T14:07:56,933 from core/parsers_wrap.cxx:173: 2021-07-14T14:07:56,934 In function ‘char* strncpy(char*, const char*, size_t)’, 2021-07-14T14:07:56,934 inlined from ‘void SWIG_Python_FixMethods(PyMethodDef*, swig_const_info*, swig_type_info**, swig_type_info**)’ at core/parsers_wrap.cxx:13433:22, 2021-07-14T14:07:56,934 inlined from ‘PyObject* PyInit__parsers()’ at core/parsers_wrap.cxx:13528:25: 2021-07-14T14:07:56,934 /usr/include/arm-linux-gnueabihf/bits/string_fortified.h:106:34: warning: ‘char* __builtin_strncpy(char*, const char*, unsigned int)’ output truncated before terminating nul copying 10 bytes from a string of the same length [-Wstringop-truncation] 2021-07-14T14:07:56,934 106 | return __builtin___strncpy_chk (__dest, __src, __len, __bos (__dest)); 2021-07-14T14:07:56,934 | ~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:59,436 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:07:59,436 from core/moods.h:5, 2021-07-14T14:07:59,437 from core/parsers_wrap.cxx:3130: 2021-07-14T14:07:59,437 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:07:59,437 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:59,437 426 | vector<_Tp, _Alloc>:: 2021-07-14T14:07:59,437 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:07:59,437 /usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:59,473 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:07:59,473 from core/moods.h:5, 2021-07-14T14:07:59,473 from core/parsers_wrap.cxx:3130: 2021-07-14T14:07:59,474 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_append(PyObject*, PyObject*)’: 2021-07-14T14:07:59,474 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:59,474 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:07:59,474 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:07:59,539 /usr/include/c++/10/bits/stl_vector.h: In function ‘Sequence* swig::getslice(const Sequence*, Difference, Difference, Py_ssize_t) [with Sequence = std::vector; Difference = int]’: 2021-07-14T14:07:59,539 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:59,539 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:07:59,539 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:07:59,540 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:59,540 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:07:59,540 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:07:59,540 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:59,618 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_push_back(PyObject*, PyObject*)’: 2021-07-14T14:07:59,619 /usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:07:59,619 1198 | _M_realloc_insert(end(), __x); 2021-07-14T14:07:59,619 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~ 2021-07-14T14:07:59,681 In file included from /usr/include/c++/10/vector:72, 2021-07-14T14:07:59,681 from core/moods.h:5, 2021-07-14T14:07:59,681 from core/parsers_wrap.cxx:3130: 2021-07-14T14:07:59,681 /usr/include/c++/10/bits/vector.tcc: In member function ‘void std::vector<_Tp, _Alloc>::_M_fill_insert(std::vector<_Tp, _Alloc>::iterator, std::vector<_Tp, _Alloc>::size_type, const value_type&) [with _Tp = double; _Alloc = std::allocator]’: 2021-07-14T14:07:59,682 /usr/include/c++/10/bits/vector.tcc:509:5: note: parameter passing for argument of type ‘std::vector::iterator’ changed in GCC 7.1 2021-07-14T14:07:59,682 509 | vector<_Tp, _Alloc>:: 2021-07-14T14:07:59,682 | ^~~~~~~~~~~~~~~~~~~ 2021-07-14T14:08:03,844 /usr/include/c++/10/bits/vector.tcc: In function ‘PyObject* _wrap_vector_double_insert(PyObject*, PyObject*)’: 2021-07-14T14:08:03,844 /usr/include/c++/10/bits/vector.tcc:161:19: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:08:03,844 161 | _M_realloc_insert(begin() + (__position - cbegin()), __x); 2021-07-14T14:08:03,844 | ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:08:03,847 In file included from /usr/include/c++/10/vector:67, 2021-07-14T14:08:03,847 from core/moods.h:5, 2021-07-14T14:08:03,847 from core/parsers_wrap.cxx:3130: 2021-07-14T14:08:03,847 /usr/include/c++/10/bits/stl_vector.h:1338:16: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:08:03,847 1338 | _M_fill_insert(begin() + __offset, __n, __x); 2021-07-14T14:08:03,847 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:08:04,120 /usr/include/c++/10/bits/stl_vector.h: In function ‘PyObject* _wrap_vector_double_resize(PyObject*, PyObject*)’: 2021-07-14T14:08:04,120 /usr/include/c++/10/bits/stl_vector.h:960:18: note: parameter passing for argument of type ‘__gnu_cxx::__normal_iterator >’ changed in GCC 7.1 2021-07-14T14:08:04,120 960 | _M_fill_insert(end(), __new_size - size(), __x); 2021-07-14T14:08:04,121 | ~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 2021-07-14T14:08:14,213 arm-linux-gnueabihf-g++ -pthread -shared -Wl,-O1 -Wl,-Bsymbolic-functions -Wl,-z,relro -g -fwrapv -O2 -Wl,-z,relro -g -fwrapv -O2 -g -ffile-prefix-map=/python3.9-3.9.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 build/temp.linux-armv7l-3.9/core/match_types.o build/temp.linux-armv7l-3.9/core/moods_misc.o build/temp.linux-armv7l-3.9/core/moods_parsers.o build/temp.linux-armv7l-3.9/core/moods_tools.o build/temp.linux-armv7l-3.9/core/parsers_wrap.o -o build/lib.linux-armv7l-3.9/MOODS/_parsers.cpython-39-arm-linux-gnueabihf.so 2021-07-14T14:08:14,720 running build_scripts 2021-07-14T14:08:14,721 creating build/scripts-3.9 2021-07-14T14:08:14,722 copying and adjusting scripts/moods-dna.py -> build/scripts-3.9 2021-07-14T14:08:14,725 changing mode of build/scripts-3.9/moods-dna.py from 644 to 755 2021-07-14T14:08:14,737 installing to build/bdist.linux-armv7l/wheel 2021-07-14T14:08:14,738 running install 2021-07-14T14:08:14,739 running install_lib 2021-07-14T14:08:14,745 creating build/bdist.linux-armv7l 2021-07-14T14:08:14,746 creating build/bdist.linux-armv7l/wheel 2021-07-14T14:08:14,747 creating build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:14,749 copying build/lib.linux-armv7l-3.9/MOODS/tools.py -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:14,752 copying build/lib.linux-armv7l-3.9/MOODS/_scan.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:14,955 copying build/lib.linux-armv7l-3.9/MOODS/_parsers.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:15,024 copying build/lib.linux-armv7l-3.9/MOODS/__init__.py -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:15,025 copying build/lib.linux-armv7l-3.9/MOODS/_tools.cpython-39-arm-linux-gnueabihf.so -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:15,120 copying build/lib.linux-armv7l-3.9/MOODS/scan.py -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:15,123 copying build/lib.linux-armv7l-3.9/MOODS/parsers.py -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:15,126 copying build/lib.linux-armv7l-3.9/MOODS/misc.py -> build/bdist.linux-armv7l/wheel/MOODS 2021-07-14T14:08:15,127 running install_egg_info 2021-07-14T14:08:15,154 running egg_info 2021-07-14T14:08:15,155 writing MOODS_python.egg-info/PKG-INFO 2021-07-14T14:08:15,157 writing dependency_links to MOODS_python.egg-info/dependency_links.txt 2021-07-14T14:08:15,159 writing top-level names to MOODS_python.egg-info/top_level.txt 2021-07-14T14:08:15,192 reading manifest file 'MOODS_python.egg-info/SOURCES.txt' 2021-07-14T14:08:15,197 reading manifest template 'MANIFEST.in' 2021-07-14T14:08:15,200 warning: no files found matching 'scripts/example-data/readme.MD' 2021-07-14T14:08:15,200 warning: no files found matching 'scripts/example-data/seq/chr1-5k-55k.fa' 2021-07-14T14:08:15,200 warning: no files found matching 'scripts/example-data/matrices/*' 2021-07-14T14:08:15,202 adding license file 'COPYING.BIOPYTHON' 2021-07-14T14:08:15,202 adding license file 'COPYING.GPLv3' 2021-07-14T14:08:15,207 writing manifest file 'MOODS_python.egg-info/SOURCES.txt' 2021-07-14T14:08:15,208 Copying MOODS_python.egg-info to build/bdist.linux-armv7l/wheel/MOODS_python-1.9.4.1-py3.9.egg-info 2021-07-14T14:08:15,218 running install_scripts 2021-07-14T14:08:15,281 creating build/bdist.linux-armv7l/wheel/MOODS_python-1.9.4.1.data 2021-07-14T14:08:15,282 creating build/bdist.linux-armv7l/wheel/MOODS_python-1.9.4.1.data/scripts 2021-07-14T14:08:15,283 copying build/scripts-3.9/moods-dna.py -> build/bdist.linux-armv7l/wheel/MOODS_python-1.9.4.1.data/scripts 2021-07-14T14:08:15,285 changing mode of build/bdist.linux-armv7l/wheel/MOODS_python-1.9.4.1.data/scripts/moods-dna.py to 755 2021-07-14T14:08:15,300 adding license file "COPYING.GPLv3" (matched pattern "COPYING*") 2021-07-14T14:08:15,300 adding license file "COPYING.BIOPYTHON" (matched pattern "COPYING*") 2021-07-14T14:08:15,306 creating build/bdist.linux-armv7l/wheel/MOODS_python-1.9.4.1.dist-info/WHEEL 2021-07-14T14:08:15,309 creating '/tmp/pip-wheel-g8ha1qne/MOODS_python-1.9.4.1-cp39-cp39-linux_armv7l.whl' and adding 'build/bdist.linux-armv7l/wheel' to it 2021-07-14T14:08:15,311 adding 'MOODS/__init__.py' 2021-07-14T14:08:15,902 adding 'MOODS/_parsers.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T14:08:17,756 adding 'MOODS/_scan.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T14:08:18,543 adding 'MOODS/_tools.cpython-39-arm-linux-gnueabihf.so' 2021-07-14T14:08:18,577 adding 'MOODS/misc.py' 2021-07-14T14:08:18,579 adding 'MOODS/parsers.py' 2021-07-14T14:08:18,583 adding 'MOODS/scan.py' 2021-07-14T14:08:18,585 adding 'MOODS/tools.py' 2021-07-14T14:08:18,589 adding 'MOODS_python-1.9.4.1.data/scripts/moods-dna.py' 2021-07-14T14:08:18,591 adding 'MOODS_python-1.9.4.1.dist-info/COPYING.BIOPYTHON' 2021-07-14T14:08:18,597 adding 'MOODS_python-1.9.4.1.dist-info/COPYING.GPLv3' 2021-07-14T14:08:18,598 adding 'MOODS_python-1.9.4.1.dist-info/METADATA' 2021-07-14T14:08:18,599 adding 'MOODS_python-1.9.4.1.dist-info/WHEEL' 2021-07-14T14:08:18,600 adding 'MOODS_python-1.9.4.1.dist-info/top_level.txt' 2021-07-14T14:08:18,601 adding 'MOODS_python-1.9.4.1.dist-info/RECORD' 2021-07-14T14:08:18,692 removing build/bdist.linux-armv7l/wheel 2021-07-14T14:08:18,800 Building wheel for moods-python (setup.py): finished with status 'done' 2021-07-14T14:08:18,880 Created wheel for moods-python: filename=MOODS_python-1.9.4.1-cp39-cp39-linux_armv7l.whl size=6037783 sha256=555d6b3c6c459205c37571617d74bcd887cea84db54c8c6daf9a9def93fc987c 2021-07-14T14:08:18,880 Stored in directory: /tmp/pip-ephem-wheel-cache-kr2eh3fv/wheels/81/23/38/c4d899b27c54735a62daadd9dc43e27286499d53978efe3393 2021-07-14T14:08:18,894 Successfully built moods-python 2021-07-14T14:08:19,104 Removed build tracker: '/tmp/pip-req-tracker-6wfoad7p'