Mock Version: 3.3 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/elph.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1667514268.069102/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.fs156hyh:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=TrueprintOutput=True) Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.fs156hyh:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', 'd693ef3f69ab474c8b5b10848a65fead', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1667514268.069102/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.fs156hyh:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/elph.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1658361600 Wrote: /builddir/build/SRPMS/elph-1.0.1-29.fc38.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/elph.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1667514268.069102/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.fs156hyh:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=TrueprintOutput=True) Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.fs156hyh:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '7a87c6cfa0764ccc9a0c29a8e5e6aeaf', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1667514268.069102/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.fs156hyh:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/elph.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1658361600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.tHG4Ir + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf ELPH + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/ELPH-1.0.1.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd ELPH + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + echo 'Patch #0 (elph-chris.patch):' Patch #0 (elph-chris.patch): + /usr/bin/patch --no-backup-if-mismatch -f -p1 -b --suffix .chris --fuzz=0 patching file sources/elph.cc patching file sources/GBase.h + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.Zz9qXY + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd ELPH + make -C sources -j2 'CFLAGS=-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-exceptions -fno-rtti -D_REENTRANT' make: Entering directory '/builddir/build/BUILD/ELPH/sources' g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-exceptions -fno-rtti -D_REENTRANT -c elph.cc -o elph.o g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-exceptions -fno-rtti -D_REENTRANT -c motif.cc -o motif.o In file included from elph.cc:5: GString.h:128:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 128 | GString& trim(char* c=" \t\n\r"); | ^~~~~~~~~ GString.h:129:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 129 | GString& trimR(char* c=" \t\n\r"); //trim only right end | ^~~~~~~~~ GString.h:131:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 131 | GString& trimL(char* c=" \t\n\r"); //trim only left end | ^~~~~~~~~ GString.h:136:51: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 136 | size_t read(FILE* stream, char* delimiter="\n", size_t bufsize=4096); | ^~~~ elph.cc: In function 'int main(int, char**)': elph.cc:81:26: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 81 | GArgs args(argc, argv, "ho:abreglvdzxt:p:s:m:n:LEN=ITERNO=MAXLOOP=SGFNO="); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ elph.cc: In function 'seqType Process_Options(GArgs*)': elph.cc:178:12: warning: ignoring return value of 'int scanf(const char*, ...)' declared with attribute 'warn_unused_result' [-Wunused-result] 178 | scanf("%d",&motiflen); | ~~~~~^~~~~~~~~~~~~~~~ motif.cc: In member function 'double Motif::findMotif(int, int, int, int, int)': motif.cc:2876:14: warning: variable 'prevProb' set but not used [-Wunused-but-set-variable] 2876 | double prevProb=0; | ^~~~~~~~ motif.cc:2878:14: warning: variable 'locMaxInfo' set but not used [-Wunused-but-set-variable] 2878 | double locMaxInfo=0; | ^~~~~~~~~~ motif.cc: In constructor 'Motif::Motif(const char*, FILE*, seqType, const char*, const char*, int, int, int, int, int)': motif.cc:908:16: warning: ignoring return value of 'char* fgets(char*, int, FILE*)' declared with attribute 'warn_unused_result' [-Wunused-result] 908 | fgets(line,5000,M); | ~~~~~^~~~~~~~~~~~~ elph.cc: In function 'main': elph.cc:134:30: warning: 'info' may be used uninitialized [-Wmaybe-uninitialized] 134 | globAlignProb=M->optimize(globAlignProb,info,closest); | ~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~ elph.cc:127:12: note: 'info' was declared here 127 | double info; | ^~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-exceptions -fno-rtti -D_REENTRANT -c GBase.cpp -o GBase.o GBase.cpp: In function 'int strhash(const char*)': GBase.cpp:211:16: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 211 | register int h=0; | ^ GBase.cpp:212:16: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 212 | register int g; | ^ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-exceptions -fno-rtti -D_REENTRANT -c GString.cpp -o GString.o In file included from GString.cpp:2: GString.h:128:31: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 128 | GString& trim(char* c=" \t\n\r"); | ^~~~~~~~~ GString.h:129:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 129 | GString& trimR(char* c=" \t\n\r"); //trim only right end | ^~~~~~~~~ GString.h:131:32: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 131 | GString& trimL(char* c=" \t\n\r"); //trim only left end | ^~~~~~~~~ GString.h:136:51: warning: ISO C++ forbids converting a string constant to 'char*' [-Wwrite-strings] 136 | size_t read(FILE* stream, char* delimiter="\n", size_t bufsize=4096); | ^~~~ GString.cpp: In member function 'GString& GString::trim(char)': GString.cpp:367:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 367 | register int istart; | ^~~~~~ GString.cpp:368:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 368 | register int iend; | ^~~~ GString.cpp: In member function 'GString& GString::trim(char*)': GString.cpp:387:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 387 | register int istart; | ^~~~~~ GString.cpp:388:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 388 | register int iend; | ^~~~ GString.cpp: In member function 'GString& GString::trimR(char)': GString.cpp:408:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 408 | register int iend; | ^~~~ GString.cpp: In member function 'GString& GString::trimR(char*)': GString.cpp:426:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 426 | register int iend; | ^~~~ GString.cpp: In member function 'GString& GString::trimL(char)': GString.cpp:443:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 443 | register int istart; | ^~~~~~ GString.cpp: In member function 'GString& GString::trimL(char*)': GString.cpp:460:15: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 460 | register int istart; | ^~~~~~ GString.cpp: In member function 'bool GString::is_space() const': GString.cpp:601:31: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 601 | for (register const char *p = chars(); *p; p++) | ^ GString.cpp: In member function 'GString& GString::upper()': GString.cpp:892:23: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 892 | for (register char *p = chrs(); *p; p++) | ^ GString.cpp: In member function 'GString& GString::lower()': GString.cpp:903:25: warning: ISO C++17 does not allow 'register' storage class specifier [-Wregister] 903 | for (register char *p = chrs(); *p; p++) | ^ In file included from /usr/include/string.h:535, from GString.h:5: In function 'memcpy', inlined from 'GString::trimR(char)' at GString.cpp:420:10: /usr/include/bits/string_fortified.h:29:33: warning: 'memcpy' specified bound between 18446744071562067969 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'memcpy', inlined from 'GString::trimR(char*)' at GString.cpp:437:10: /usr/include/bits/string_fortified.h:29:33: warning: 'memcpy' specified bound between 18446744071562067969 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'memcpy', inlined from 'GString::trimL(char)' at GString.cpp:454:10: /usr/include/bits/string_fortified.h:29:33: warning: 'memcpy' specified bound between 18446744071562067971 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ In function 'memcpy', inlined from 'GString::trimL(char*)' at GString.cpp:472:10: /usr/include/bits/string_fortified.h:29:33: warning: 'memcpy' specified bound between 18446744071562067971 and 18446744073709551615 exceeds maximum object size 9223372036854775807 [-Wstringop-overflow=] 29 | return __builtin___memcpy_chk (__dest, __src, __len, | ~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ 30 | __glibc_objsize0 (__dest)); | ~~~~~~~~~~~~~~~~~~~~~~~~~~ motif.cc: In member function 'Motif::findMDet(int)': motif.cc:1222:9: warning: 'maxinfo' may be used uninitialized [-Wmaybe-uninitialized] 1222 | diff=maxinfo-optinfo; | ~~~~^~~~~~~~~~~~~~~~ motif.cc:1187:12: note: 'maxinfo' was declared here 1187 | double maxinfo; | ^~~~~~~ g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fno-exceptions -fno-rtti -D_REENTRANT -c GArgs.cpp -o GArgs.o motif.cc: In member function 'Motif::Motif(char const*, _IO_FILE*, seqType, char const*, char const*, int, int, int, int, int)': motif.cc:1045:29: warning: 'info' may be used uninitialized [-Wmaybe-uninitialized] 1045 | globAlignProb=optimize(globAlignProb,info,0); | ~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~ motif.cc:1042:14: note: 'info' was declared here 1042 | double info; | ^~~~ g++ -o elph elph.o motif.o GBase.o GString.o GArgs.o In member function '__ct ', inlined from 'main' at elph.cc:109:42: motif.cc:1139:26: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1139 | MCount = new int*[len+1]; // MCount=new int[len+1][size]; | ^ motif.cc:1139:26: note: in a call to built-in allocation function 'operator new []' motif.cc:1140:28: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1140 | MFreq = new double*[len+1]; // MFreq=new double[len+1][size]; | ^ motif.cc:1140:28: note: in a call to built-in allocation function 'operator new []' motif.cc:1141:23: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 1141 | q = new double *[len]; | ^ motif.cc:1141:23: note: in a call to built-in allocation function 'operator new []' In member function '__ct ', inlined from 'main' at elph.cc:119:43: motif.cc:250:26: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 250 | MCount = new int*[len+1]; // MCount=new int[len+1][size]; | ^ motif.cc:250:26: note: in a call to built-in allocation function 'operator new []' motif.cc:261:23: warning: argument 1 value '18446744073709551615' exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=] 261 | q = new double *[len]; | ^ motif.cc:261:23: note: in a call to built-in allocation function 'operator new []' make: Leaving directory '/builddir/build/BUILD/ELPH/sources' + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.qug2wp + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 ++ dirname /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd ELPH + rm -rf /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 + mkdir -p /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/bin + install -m 755 sources/elph /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64//usr/bin + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 1.0.1-29.fc38 --unique-debug-suffix -1.0.1-29.fc38.x86_64 --unique-debug-src-base elph-1.0.1-29.fc38.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/ELPH extracting debug info from /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/bin/elph original debug info size: 256kB, size after compression: 212kB /usr/bin/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. 299 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.fmQgp3 + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -specs=/usr/lib/rpm/redhat/redhat-package-notes' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd ELPH + RPM_EC=0 ++ jobs -p + exit 0 Processing files: elph-1.0.1-29.fc38.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.BpziGZ + umask 022 + cd /builddir/build/BUILD + cd ELPH + DOCDIR=/builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + cp -pr COPYRIGHT /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + cp -pr LICENSE /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + cp -pr README /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + cp -pr Readme.ELPH /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + cp -pr VERSION /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64/usr/share/doc/elph + RPM_EC=0 ++ jobs -p + exit 0 Provides: elph = 1.0.1-29.fc38 elph(x86-64) = 1.0.1-29.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.34)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libgcc_s.so.1()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libm.so.6(GLIBC_2.29)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) rtld(GNU_HASH) Processing files: elph-debugsource-1.0.1-29.fc38.x86_64 Provides: elph-debugsource = 1.0.1-29.fc38 elph-debugsource(x86-64) = 1.0.1-29.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: elph-debuginfo-1.0.1-29.fc38.x86_64 Provides: debuginfo(build-id) = bb13284a3570b7a4b64aa00cdf529e14a803a38a elph-debuginfo = 1.0.1-29.fc38 elph-debuginfo(x86-64) = 1.0.1-29.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: elph-debugsource(x86-64) = 1.0.1-29.fc38 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 Wrote: /builddir/build/RPMS/elph-debuginfo-1.0.1-29.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/elph-debugsource-1.0.1-29.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/elph-1.0.1-29.fc38.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.Kzjm87 + umask 022 + cd /builddir/build/BUILD + cd ELPH + /usr/bin/rm -rf /builddir/build/BUILDROOT/elph-1.0.1-29.fc38.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.PJh8Zt + umask 022 + cd /builddir/build/BUILD + rm -rf ELPH ELPH.gemspec + RPM_EC=0 ++ jobs -p + exit 0 Child return code was: 0