Mock Version: 1.2.13 ENTER do(['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target armv7hl --nodeps /builddir/build/SPECS/clustal-omega.spec'], chrootPath='/var/lib/mock/epel-1-armhfp-80e1c0591c7ebc139eaf08fb63ad788d3b656b48/root'shell=FalseprintOutput=Falseenv={'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'}gid=135user='mockbuild'timeout=0logger=uid=996) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target armv7hl --nodeps /builddir/build/SPECS/clustal-omega.spec'] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'} and shell False Building target platforms: armv7hl Building for target armv7hl Wrote: /builddir/build/SRPMS/clustal-omega-1.2.1-4.el7.src.rpm Child return code was: 0 LEAVE do --> ENTER do(['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target armv7hl --nodeps /builddir/build/SPECS/clustal-omega.spec '], chrootPath='/var/lib/mock/epel-1-armhfp-80e1c0591c7ebc139eaf08fb63ad788d3b656b48/root'shell=Falseuid=996env={'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'}gid=135user='mockbuild'timeout=0private_network=Truelogger=printOutput=False) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target armv7hl --nodeps /builddir/build/SPECS/clustal-omega.spec '] with env {'LANG': 'en_US.UTF-8', 'TERM': 'vt100', 'SHELL': '/bin/bash', 'PROMPT_COMMAND': 'printf "\x1b]0;\x07"', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'HOME': '/builddir', 'HOSTNAME': 'mock'} and shell False Building target platforms: armv7hl Building for target armv7hl Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ILaFUe + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf clustal-omega-1.2.1 + /usr/bin/gzip -dc /builddir/build/SOURCES/clustal-omega-1.2.1.tar.gz + /usr/bin/tar -xf - + STATUS=0 + '[' 0 -ne 0 ']' + cd clustal-omega-1.2.1 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + sed -i 's/\r$//' README + sed -i s/mktemp/mkstemp/g src/clustal-omega.c + sed -i 's/\${AM_CFLAGS} -O3/${AM_CFLAGS}/g' configure + sed -i 's/\${AM_CXXFLAGS} -O3/${AM_CXXFLAGS}/g' configure + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.TxVRkg + umask 022 + cd /builddir/build/BUILD + cd clustal-omega-1.2.1 + export 'CFLAGS=-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' 'CXXFLAGS=-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' 'LDFLAGS=-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + CFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + CXXFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + LDFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + CFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + export CFLAGS + CXXFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + export CXXFLAGS + FFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -I/usr/lib/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -I/usr/lib/gfortran/modules' + export FCFLAGS + LDFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard' + export LDFLAGS + '[' 1 == 1 ']' + '[' arm == ppc64le ']' ++ find . -name config.guess -o -name config.sub + for i in '$(find . -name config.guess -o -name config.sub)' ++ basename ./config.sub + '[' -f /usr/lib/rpm/redhat/config.sub ']' + /usr/bin/rm -f ./config.sub ++ basename ./config.sub + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.sub ./config.sub '/usr/lib/rpm/redhat/config.sub' -> './config.sub' + for i in '$(find . -name config.guess -o -name config.sub)' ++ basename ./config.guess + '[' -f /usr/lib/rpm/redhat/config.guess ']' + /usr/bin/rm -f ./config.guess ++ basename ./config.guess + /usr/bin/cp -fv /usr/lib/rpm/redhat/config.guess ./config.guess '/usr/lib/rpm/redhat/config.guess' -> './config.guess' + ./configure --build=armv7hl-redhat-linux-gnu --host=armv7hl-redhat-linux-gnu --program-prefix= --disable-dependency-tracking --prefix=/usr --exec-prefix=/usr --bindir=/usr/bin --sbindir=/usr/sbin --sysconfdir=/etc --datadir=/usr/share --includedir=/usr/include --libdir=/usr/lib --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --disable-static configure: Welcome to Clustal Omega - version 1.2.1 (AndreaGiacomo) +NMMMMMMMMMS= MMMMM? :MMMMM8 IMMMMS MMMMM, ~MMMMN ,MMMMM =MMMMM MMMMM ?MMMMM +MMMMM MMMMMS MMMMM MMMMM MMMMM: MMMMM MMMMM+ MMMMM MMMMM~ MMMMM MMMMM MMMMMZ MMMMM MMMMM ,MMMMZ MMMM8 MMMM+ MMMMS MMMM, MMMMO MMMM ,N SMMM MMM8 +8 ,M7 M+ M+ :M8 ,MMMMMMMMMMMMI MMMMMMMMMMMM8 ,MMMMMMMMMMMM8 MMMMMMMMMMMM8 ,MMMMMMMMMMMMN MMMMMMMMMMMM8 checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a thread-safe mkdir -p... /usr/bin/mkdir -p checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for style of include used by make... GNU checking for armv7hl-redhat-linux-gnu-gcc... no checking for gcc... gcc checking for C compiler default output file name... a.out checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ISO C89... none needed checking dependency style of gcc... none checking how to run the C preprocessor... gcc -E checking for grep that handles long lines and -e... /usr/bin/grep checking for egrep... /usr/bin/grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking minix/config.h usability... no checking minix/config.h presence... no checking for minix/config.h... no checking whether it is safe to define __EXTENSIONS__... yes checking build system type... armv7hl-redhat-linux-gnu checking host system type... armv7hl-redhat-linux-gnu checking whether make sets $(MAKE)... (cached) yes checking for a sed that does not truncate output... /usr/bin/sed checking for fgrep... /usr/bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking whether ln -s works... yes checking the maximum length of command line arguments... 1572864 checking whether the shell understands some XSI constructs... yes checking whether the shell understands "+="... yes checking for /usr/bin/ld option to reload object files... -r checking for armv7hl-redhat-linux-gnu-objdump... no checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for armv7hl-redhat-linux-gnu-ar... no checking for ar... ar checking for armv7hl-redhat-linux-gnu-strip... no checking for strip... strip checking for armv7hl-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib checking command to parse /usr/bin/nm -B output from gcc object... ok checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... no checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for a BSD-compatible install... /usr/bin/install -c checking for armv7hl-redhat-linux-gnu-gcc... gcc checking whether we are using the GNU C compiler... (cached) yes checking whether gcc accepts -g... (cached) yes checking for gcc option to accept ISO C89... (cached) none needed checking dependency style of gcc... (cached) none checking how to run the C preprocessor... gcc -E checking for armv7hl-redhat-linux-gnu-g++... no checking for armv7hl-redhat-linux-gnu-c++... no checking for armv7hl-redhat-linux-gnu-gpp... no checking for armv7hl-redhat-linux-gnu-aCC... no checking for armv7hl-redhat-linux-gnu-CC... no checking for armv7hl-redhat-linux-gnu-cxx... no checking for armv7hl-redhat-linux-gnu-cc++... no checking for armv7hl-redhat-linux-gnu-cl.exe... no checking for armv7hl-redhat-linux-gnu-FCC... no checking for armv7hl-redhat-linux-gnu-KCC... no checking for armv7hl-redhat-linux-gnu-RCC... no checking for armv7hl-redhat-linux-gnu-xlC_r... no checking for armv7hl-redhat-linux-gnu-xlC... no checking for g++... g++ checking whether we are using the GNU C++ compiler... yes checking whether g++ accepts -g... yes checking dependency style of g++... none checking whether we are using the GNU C++ compiler... (cached) yes checking whether g++ accepts -g... (cached) yes checking dependency style of g++... (cached) none checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... no checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld) supports shared libraries... yes checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking how to run the C++ preprocessor... g++ -E checking for ANSI C header files... (cached) yes checking assert.h usability... yes checking assert.h presence... yes checking for assert.h... yes checking ctype.h usability... yes checking ctype.h presence... yes checking for ctype.h... yes checking float.h usability... yes checking float.h presence... yes checking for float.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking math.h usability... yes checking math.h presence... yes checking for math.h... yes checking for memory.h... (cached) yes checking stdarg.h usability... yes checking stdarg.h presence... yes checking for stdarg.h... yes checking stdio.h usability... yes checking stdio.h presence... yes checking for stdio.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking time.h usability... yes checking time.h presence... yes checking for time.h... yes checking for unistd.h... (cached) yes checking for an ANSI C-conforming const... yes checking for size_t... yes checking for inline... inline checking for log in -lm... yes checking for log2 in -lm... yes checking argtable2.h usability... yes checking argtable2.h presence... yes checking for argtable2.h... yes checking for arg_parse in -largtable2... yes checking for OpenMP flag of C compiler... -fopenmp checking whether byte ordering is bigendian... no checking for ntohs... yes checking for ntohl... yes checking for ntons... no checking for ntonl... no checking size of unsigned short... 2 checking size of unsigned int... 4 checking size of unsigned long... 4 checking size of unsigned long long... 8 checking for stroul... no checking for strtoull... yes checking for ftello... yes checking for fseeko... yes checking for ftello64... yes checking for fseeko64... yes checking for ftell64... no checking for fseek64... no checking for off_t... yes checking size of fpos_t... 12 checking if malloc debugging is wanted... no checking whether to build with debug information... no configure: creating ./config.status config.status: creating Makefile config.status: creating src/Makefile config.status: creating clustalo.pc config.status: creating Doxyfile config.status: creating src/clustal/Makefile config.status: creating src/hhalign/Makefile config.status: creating src/kmpp/Makefile config.status: creating src/squid/Makefile config.status: creating src/config.h config.status: executing src/clustal-omega-config.h commands config.status: creating src/clustal-omega-config.h - prefix CLUSTAL_OMEGA for src/config.h defines config.status: executing depfiles commands config.status: executing libtool commands + make V=1 -j4 Making all in src make[1]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make all-recursive make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' Making all in hhalign make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/hhalign' /bin/sh ../../libtool --tag=CXX --mode=compile g++ -DHAVE_CONFIG_H -I. -I../../src -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c -o hhalign.lo hhalign.cpp libtool: compile: g++ -DHAVE_CONFIG_H -I. -I../../src -fno-strict-aliasing -DCLUSTALO -DCLUSTALO_NOFILE -DDEFAULT_FILTER=90 -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c hhalign.cpp -fPIC -DPIC -o .libs/hhalign.o In file included from hhalign.cpp:62:0: hhutil-C.h: In function 'void ReadDefaultsFile(int&, char**)': hhutil-C.h:516:53: warning: ISO C++ does not support variable-length array types [-Wvla] argv_conf[argc_conf]=new(char[strlen(c_first)+1]); ^ hhutil-C.h:521:56: warning: ISO C++ does not support variable-length array types [-Wvla] argv_conf[argc_conf]=new(char[strlen(c_first)+1]); ^ In file included from hhalign.cpp:70:0: hhhmm-C.h: In member function 'HMM& HMM::operator=(HMM&)': hhhmm-C.h:188:44: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k]=new(char[strlen(q.sname[k])+1]); ^ hhhmm-C.h:193:40: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[strlen(q.seq[k])+1]); ^ hhhmm-C.h: In member function 'int HMM::Read(FILE*, char*)': hhhmm-C.h:329:48: warning: ISO C++ does not support variable-length array types [-Wvla] char *cur_seq = new(char[par.maxColCnt]); //Sequence currently read in ^ hhhmm-C.h:360:43: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k-1]=new(char[strlen(cur_seq)+1]); ^ hhhmm-C.h:367:43: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k] = new (char[strlen(line+1)+1]); //+1 for terminating '\0' ^ hhhmm-C.h:463:40: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[strlen(cur_seq)+1]); ^ hhhmm-C.h: In member function 'int HMM::ReadHMMer(FILE*, char*)': hhhmm-C.h:735:59: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nsa_dssp] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:756:59: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nss_pred] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:777:59: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nss_conf] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:859:55: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nss_dssp] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:1035:46: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k+1]=new(char[strlen(longname)+1]); ^ hhhmm-C.h:1037:27: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[L+2]); ^ hhhmm-C.h:1040:29: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k+1]=new(char[L+2]); ^ hhhmm-C.h:1058:44: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k]=new(char[strlen(longname)+1]); ^ hhhmm-C.h:1062:27: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[L+2]); ^ hhhmm-C.h: In member function 'int HMM::ReadHMMer3(FILE*, char*)': hhhmm-C.h:1237:77: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nsa_dssp] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:1258:77: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nss_pred] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:1279:77: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nss_conf] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:1349:69: warning: ISO C++ does not support variable-length array types [-Wvla] seq[nss_dssp] = new(char[/*MAXRES*/par.maxResLen+2]); ^ hhhmm-C.h:1529:49: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k+1]=new(char[strlen(longname)+1]); ^ hhhmm-C.h:1531:30: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[L+2]); ^ hhhmm-C.h:1534:32: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k+1]=new(char[L+2]); ^ hhhmm-C.h:1552:47: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k]=new(char[strlen(longname)+1]); ^ hhhmm-C.h:1554:30: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[L+2]); ^ hhhmm-C.h:1140:12: warning: variable 'dAlphaInv' set but not used [-Wunused-but-set-variable] double dAlphaInv = 1.00 / (double)(iAlpha); /* weight of AA */ ^ hhhmm-C.h: In member function 'void HMM::InsertCalibration(char*)': hhhmm-C.h:2109:39: warning: ISO C++ does not support variable-length array types [-Wvla] char** lines = new(char*[3*L+100000]); ^ hhhmm-C.h:2138:44: warning: ISO C++ does not support variable-length array types [-Wvla] lines[nline]=new(char[strlen(line)+1]); ^ In file included from hhalign.cpp:71:0: hhalignment-C.h: In constructor 'Alignment::Alignment(int, int)': hhalignment-C.h:80:30: warning: ISO C++ does not support variable-length array types [-Wvla] sname = new(char*[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:81:28: warning: ISO C++ does not support variable-length array types [-Wvla] seq = new(char*[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:82:22: warning: ISO C++ does not support variable-length array types [-Wvla] l = new(int[maxres]); ^ hhalignment-C.h:83:26: warning: ISO C++ does not support variable-length array types [-Wvla] X = new(char*[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:84:40: warning: ISO C++ does not support variable-length array types [-Wvla] I = new(short unsigned int*[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:85:28: warning: ISO C++ does not support variable-length array types [-Wvla] keep = new(char[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:86:31: warning: ISO C++ does not support variable-length array types [-Wvla] display = new(char[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:87:27: warning: ISO C++ does not support variable-length array types [-Wvla] wg = new(float[maxseq+2]); /* MR1 */ ^ hhalignment-C.h:88:28: warning: ISO C++ does not support variable-length array types [-Wvla] nseqs = new(int[maxres+2]); /* MR1 */ ^ hhalignment-C.h: In member function 'void Alignment::Read(FILE*, char*, char*)': hhalignment-C.h:141:40: warning: ISO C++ does not support variable-length array types [-Wvla] char *cur_seq=new(char[par.maxColCnt]); ^ hhalignment-C.h:183:61: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[strlen(cur_seq)+2]); ^ hhalignment-C.h:185:59: warning: ISO C++ does not support variable-length array types [-Wvla] X[k]=new(char[strlen(cur_seq)+2]); ^ hhalignment-C.h:187:73: warning: ISO C++ does not support variable-length array types [-Wvla] I[k]=new(short unsigned int[strlen(cur_seq)+2]); ^ In file included from hhalign.cpp:71:0: hhalignment-C.h:236:58: warning: ISO C++ does not support variable-length array types [-Wvla] sname[k] = new(char[strlen(cur_name)+1]); ^ hhalignment-C.h:245:32: warning: variable 'ptr2' set but not used [-Wunused-but-set-variable] char *ptr1, *ptr2; ^ hhalignment-C.h:351:45: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k]=new(char[strlen(cur_seq)+2]); ^ hhalignment-C.h:353:43: warning: ISO C++ does not support variable-length array types [-Wvla] X[k]=new(char[strlen(cur_seq)+2]); ^ hhalignment-C.h:355:57: warning: ISO C++ does not support variable-length array types [-Wvla] I[k]=new(short unsigned int[strlen(cur_seq)+2]); ^ hhalignment-C.h: In member function 'void Alignment::Compress(const char*)': hhalignment-C.h:423:43: warning: ISO C++ does not support variable-length array types [-Wvla] h = new(/*short*/ unsigned int[N_in+2]); /* short -> overflow, FS, r235 -> r236 */ ^ hhalignment-C.h:555:52: warning: ISO C++ does not support variable-length array types [-Wvla] percent_gaps = new(float[par.maxColCnt]); ^ hhalignment-C.h:561:47: warning: ISO C++ does not support variable-length array types [-Wvla] if (nres==NULL) nres=new(int[N_in]); ^ hhalignment-C.h:783:50: warning: ISO C++ does not support variable-length array types [-Wvla] match_state = new(char[par.maxColCnt]); ^ hhalignment-C.h: In member function 'int Alignment::FilterForDisplay(int, int, int, float, int)': hhalignment-C.h:945:35: warning: ISO C++ does not support variable-length array types [-Wvla] char *dummy = new(char[N_in+1]); ^ hhalignment-C.h: In member function 'int Alignment::Filter2(char*, int, int, float, int, int, int)': hhalignment-C.h:1008:30: warning: ISO C++ does not support variable-length array types [-Wvla] char* in=new(char[N_in+1]); // in[k]=1: seq k has been accepted; in[k]=0: seq k has not yet been accepted at current seqid ^ hhalignment-C.h:1009:32: warning: ISO C++ does not support variable-length array types [-Wvla] char* inkk=new(char[N_in+1]); // inkk[k]=1 iff in[ksort[k]]=1 else 0; ^ hhalignment-C.h:1010:27: warning: ISO C++ does not support variable-length array types [-Wvla] int* Nmax=new(int[L+2]); // position-dependent maximum-sequence-identity threshold for filtering /* MR1, used to be called idmax*/ ^ hhalignment-C.h:1011:31: warning: ISO C++ does not support variable-length array types [-Wvla] int* idmaxwin=new(int[L+2]); // minimum value of idmax[i-WFIL,i+WFIL] ^ hhalignment-C.h:1012:36: warning: ISO C++ does not support variable-length array types [-Wvla] int* seqid_prev=new(int[N_in+1]); // maximum-sequence-identity threshold used in previous round of filtering (with lower seqid) ^ hhalignment-C.h:1013:24: warning: ISO C++ does not support variable-length array types [-Wvla] int* N=new(int[L+2]); // N[i] number of already accepted sequences at position i ^ hhalignment-C.h:1042:32: warning: ISO C++ does not support variable-length array types [-Wvla] first=new(int[N_in]);// first non-gap position in sequence k ^ hhalignment-C.h:1043:32: warning: ISO C++ does not support variable-length array types [-Wvla] last =new(int[N_in]);// last non-gap position in sequence k ^ hhalignment-C.h:1056:31: warning: ISO C++ does not support variable-length array types [-Wvla] nres=new(int[N_in]); ^ hhalignment-C.h:1070:32: warning: ISO C++ does not support variable-length array types [-Wvla] ksort=new(int[N_in]); // never reuse alignment object for new alignment with more sequences ^ hhalignment-C.h: In member function 'int Alignment::HomologyFilter(int, float, float)': hhalignment-C.h:1313:33: warning: ISO C++ does not support variable-length array types [-Wvla] char* coreseq=new(char[N_in]); // coreseq[k]=1 if sequence belongs to core of alignment (i.e. it is very similar to query) ^ hhalignment-C.h: In member function 'int Alignment::FilterWithCoreHMM(char*, float, HMM&)': hhalignment-C.h:1364:36: warning: ISO C++ does not support variable-length array types [-Wvla] float** logodds=new(float*[L+1]); // log-odds ratios for HMM qcore ^ hhalignment-C.h:1373:32: warning: ISO C++ does not support variable-length array types [-Wvla] first=new(int[N_in]);// first non-gap position in sequence k ^ hhalignment-C.h:1374:32: warning: ISO C++ does not support variable-length array types [-Wvla] last =new(int[N_in]);// last non-gap position in sequence k ^ hhalignment-C.h:1387:31: warning: ISO C++ does not support variable-length array types [-Wvla] nres=new(int[N_in]); ^ hhalignment-C.h:1428:19: warning: variable 'score_M' set but not used [-Wunused-but-set-variable] float score_M=0.0; ^ hhalignment-C.h:1429:19: warning: variable 'score_prev' set but not used [-Wunused-but-set-variable] float score_prev=0.0; ^ hhalignment-C.h: In member function 'void Alignment::FrequenciesAndTransitions(HMM&, char*)': hhalignment-C.h:1669:49: warning: ISO C++ does not support variable-length array types [-Wvla] q.seq[q.ncons]=new(char[L+2]); ^ hhalignment-C.h:1676:64: warning: ISO C++ does not support variable-length array types [-Wvla] q.sname[q.nfirst]=new(char[strlen(name)+11]); ^ hhalignment-C.h:1680:50: warning: ISO C++ does not support variable-length array types [-Wvla] q.seq[q.nfirst]=new(char[L+2]); ^ hhalignment-C.h:1738:61: warning: ISO C++ does not support variable-length array types [-Wvla] q.sname[nn]=new(char[strlen(sname[k])+1]); ^ hhalignment-C.h:1741:57: warning: ISO C++ does not support variable-length array types [-Wvla] q.seq[nn]=new(char[strlen(seq[k])+1]); ^ hhalignment-C.h: In member function 'void Alignment::Amino_acid_frequencies_and_transitions_from_M_state(HMM&, char*)': hhalignment-C.h:1828:41: warning: ISO C++ does not support variable-length array types [-Wvla] float *Neff = new(float[par.maxResLen]); // diversity of subalignment i ^ hhalignment-C.h:1835:25: warning: ISO C++ does not support variable-length array types [-Wvla] wi = new(float[N_in+2]); ^ hhalignment-C.h:1844:20: warning: ISO C++ does not support variable-length array types [-Wvla] n = new(int*[L+2]); ^ hhalignment-C.h: In member function 'void Alignment::Transitions_from_I_state(HMM&, char*)': hhalignment-C.h:2054:43: warning: ISO C++ does not support variable-length array types [-Wvla] float *Neff = new(float[par.maxResLen]); // diversity of subalignment i ^ hhalignment-C.h:2062:27: warning: ISO C++ does not support variable-length array types [-Wvla] wi = new(float[N_in+2]); ^ hhalignment-C.h:2073:22: warning: ISO C++ does not support variable-length array types [-Wvla] n = new(int*[L+2]); ^ hhalignment-C.h: In member function 'void Alignment::Transitions_from_D_state(HMM&, char*)': hhalignment-C.h:2256:43: warning: ISO C++ does not support variable-length array types [-Wvla] float *Neff = new(float[par.maxResLen]); // diversity of subalignment i ^ hhalignment-C.h:2265:27: warning: ISO C++ does not support variable-length array types [-Wvla] wi = new(float[N_in+2]); /* FIXME: FS */ ^ hhalignment-C.h:2275:22: warning: ISO C++ does not support variable-length array types [-Wvla] n = new(int*[L+2]); ^ hhalignment-C.h: In member function 'void Alignment::MergeMasterSlave(Hit&, char*)': hhalignment-C.h:2546:31: warning: ISO C++ does not support variable-length array types [-Wvla] int* imatch=new(int[hit.j2+1]); ^ hhalignment-C.h:2678:34: warning: ISO C++ does not support variable-length array types [-Wvla] char* new_seq=new(char[2*maxcol]); ^ hhalignment-C.h:2691:23: warning: ISO C++ does not support variable-length array types [-Wvla] seq[N_in]=new(char[h]); ^ hhalignment-C.h:2694:21: warning: ISO C++ does not support variable-length array types [-Wvla] X[N_in]=new(char[h]); ^ hhalignment-C.h:2696:35: warning: ISO C++ does not support variable-length array types [-Wvla] I[N_in]=new(short unsigned int[h]); ^ hhalignment-C.h:2698:47: warning: ISO C++ does not support variable-length array types [-Wvla] sname[N_in]=new(char[strlen(Tali.sname[k])+1]); ^ hhalignment-C.h: In member function 'void Alignment::AddSequence(char*, int*)': hhalignment-C.h:2729:23: warning: ISO C++ does not support variable-length array types [-Wvla] X[N_in]=new(char[L+2]); ^ hhalignment-C.h: In member function 'void Alignment::GetPositionSpecificWeights(float**)': hhalignment-C.h:2779:19: warning: ISO C++ does not support variable-length array types [-Wvla] n = new(int*[L+2]); ^ hhalignment-C.h: In member function 'void Alignment::Transfer(char**, int)': hhalignment-C.h:2896:59: warning: ISO C++ does not support variable-length array types [-Wvla] I[k] = new(short unsigned int[iLen+2+GOOD_MEASURE]); ^ hhalignment-C.h:2897:45: warning: ISO C++ does not support variable-length array types [-Wvla] X[k] = new(char[iLen+2+GOOD_MEASURE]); ^ hhalignment-C.h:2898:47: warning: ISO C++ does not support variable-length array types [-Wvla] seq[k] = new(char[iLen+2+GOOD_MEASURE]); ^ In file included from hhalign.cpp:72:0: hhhit-C.h: In member function 'void Hit::AllocateBacktraceMatrix(int, int)': hhhit-C.h:179:20: warning: ISO C++ does not support variable-length array types [-Wvla] bMM=new(char*[Nq]); ^ hhhit-C.h:180:20: warning: ISO C++ does not support variable-length array types [-Wvla] bMI=new(char*[Nq]); ^ hhhit-C.h:181:20: warning: ISO C++ does not support variable-length array types [-Wvla] bIM=new(char*[Nq]); ^ hhhit-C.h:182:20: warning: ISO C++ does not support variable-length array types [-Wvla] bDG=new(char*[Nq]); ^ hhhit-C.h:183:20: warning: ISO C++ does not support variable-length array types [-Wvla] bGD=new(char*[Nq]); ^ hhhit-C.h:184:25: warning: ISO C++ does not support variable-length array types [-Wvla] cell_off=new(char*[Nq]); ^ hhhit-C.h:187:26: warning: ISO C++ does not support variable-length array types [-Wvla] bMM[i]=new(char[Nt]); ^ hhhit-C.h:188:26: warning: ISO C++ does not support variable-length array types [-Wvla] bMI[i]=new(char[Nt]); ^ hhhit-C.h:189:26: warning: ISO C++ does not support variable-length array types [-Wvla] bIM[i]=new(char[Nt]); ^ hhhit-C.h:190:26: warning: ISO C++ does not support variable-length array types [-Wvla] bGD[i]=new(char[Nt]); ^ hhhit-C.h:191:26: warning: ISO C++ does not support variable-length array types [-Wvla] bDG[i]=new(char[Nt]); ^ hhhit-C.h:192:31: warning: ISO C++ does not support variable-length array types [-Wvla] cell_off[i]=new(char[Nt]); ^ hhhit-C.h: In member function 'void Hit::AllocateForwardMatrix(int, int)': hhhit-C.h:239:23: warning: ISO C++ does not support variable-length array types [-Wvla] F_MM=new(double*[Nq]); ^ hhhit-C.h:240:23: warning: ISO C++ does not support variable-length array types [-Wvla] F_MI=new(double*[Nq]); ^ hhhit-C.h:241:23: warning: ISO C++ does not support variable-length array types [-Wvla] F_DG=new(double*[Nq]); ^ hhhit-C.h:242:23: warning: ISO C++ does not support variable-length array types [-Wvla] F_IM=new(double*[Nq]); ^ hhhit-C.h:243:23: warning: ISO C++ does not support variable-length array types [-Wvla] F_GD=new(double*[Nq]); ^ hhhit-C.h:244:25: warning: ISO C++ does not support variable-length array types [-Wvla] scale=new(double[Nq+1]); // need Nq+3? ^ hhhit-C.h:247:31: warning: ISO C++ does not support variable-length array types [-Wvla] F_MM[i] = new(double[Nt]); ^ hhhit-C.h:248:31: warning: ISO C++ does not support variable-length array types [-Wvla] F_MI[i] = new(double[Nt]); ^ hhhit-C.h:249:31: warning: ISO C++ does not support variable-length array types [-Wvla] F_DG[i] = new(double[Nt]); ^ hhhit-C.h:250:31: warning: ISO C++ does not support variable-length array types [-Wvla] F_IM[i] = new(double[Nt]); ^ hhhit-C.h:251:31: warning: ISO C++ does not support variable-length array types [-Wvla] F_GD[i] = new(double[Nt]); ^ hhhit-C.h: In member function 'void Hit::AllocateBackwardMatrix(int, int)': hhhit-C.h:296:23: warning: ISO C++ does not support variable-length array types [-Wvla] B_MM=new(double*[Nq]); ^ hhhit-C.h:303:31: warning: ISO C++ does not support variable-length array types [-Wvla] B_MM[i] = new(double[Nt]); ^ hhhit-C.h: In member function 'void Hit::Viterbi(HMM&, HMM&, float**)': hhhit-C.h:376:42: warning: ISO C++ does not support variable-length array types [-Wvla] float *sMM = new(float[par.maxResLen]); // sMM[i][j] = score of best alignment up to indices (i,j) ending in (Match,Match) ^ hhhit-C.h:377:42: warning: ISO C++ does not support variable-length array types [-Wvla] float *sGD = new(float[par.maxResLen]); // sGD[i][j] = score of best alignment up to indices (i,j) ending in (Gap,Delete) ^ hhhit-C.h:378:42: warning: ISO C++ does not support variable-length array types [-Wvla] float *sDG = new(float[par.maxResLen]); // sDG[i][j] = score of best alignment up to indices (i,j) ending in (Delete,Gap) ^ hhhit-C.h:379:42: warning: ISO C++ does not support variable-length array types [-Wvla] float *sIM = new(float[par.maxResLen]); // sIM[i][j] = score of best alignment up to indices (i,j) ending in (Ins,Match) ^ hhhit-C.h:380:42: warning: ISO C++ does not support variable-length array types [-Wvla] float *sMI = new(float[par.maxResLen]); // sMI[i][j] = score of best alignment up to indices (i,j) ending in (Match,Ins) ^ hhhit-C.h: In member function 'void Hit::Backtrace(HMM&, HMM&)': hhhit-C.h:1126:40: warning: ISO C++ does not support variable-length array types [-Wvla] if (t.Xcons) Xcons = new( char[q.L+2]); // for template consensus sequence aligned to query ^ hhhit-C.h:1127:30: warning: ISO C++ does not support variable-length array types [-Wvla] S = new( float[nsteps+1]); ^ hhhit-C.h:1128:30: warning: ISO C++ does not support variable-length array types [-Wvla] S_ss = new( float[nsteps+1]); ^ hhhit-C.h: In member function 'void Hit::StochasticBacktrace(HMM&, HMM&, char)': hhhit-C.h:1228:40: warning: ISO C++ does not support variable-length array types [-Wvla] double* scale_cum = new(double[q.L+2]); ^ hhhit-C.h:1247:39: warning: ISO C++ does not support variable-length array types [-Wvla] double* sumF=new(double[q.L+t.L]); ^ hhhit-C.h:1371:40: warning: ISO C++ does not support variable-length array types [-Wvla] if (t.Xcons) Xcons = new( char[q.L+2]); // for template consensus sequence aligned to query ^ hhhit-C.h:1372:30: warning: ISO C++ does not support variable-length array types [-Wvla] S = new( float[nsteps+1]); ^ hhhit-C.h:1373:30: warning: ISO C++ does not support variable-length array types [-Wvla] S_ss = new( float[nsteps+1]); ^ hhhit-C.h: In member function 'void Hit::BacktraceMAC(HMM&, HMM&)': hhhit-C.h:1475:40: warning: ISO C++ does not support variable-length array types [-Wvla] if (t.Xcons) Xcons = new( char[q.L+2]); // for template consensus sequence aligned to query ^ hhhit-C.h:1476:30: warning: ISO C++ does not support variable-length array types [-Wvla] S = new( float[nsteps+1]); ^ hhhit-C.h:1477:30: warning: ISO C++ does not support variable-length array types [-Wvla] S_ss = new( float[nsteps+1]); ^ hhhit-C.h:1478:37: warning: ISO C++ does not support variable-length array types [-Wvla] P_posterior = new( float[nsteps+1]); ^ hhhit-C.h: In member function 'void Hit::InitializeBacktrace(HMM&, HMM&)': hhhit-C.h:1683:54: warning: ISO C++ does not support variable-length array types [-Wvla] longname=new(char[strlen(t.longname)+1])(); ^ hhhit-C.h:1684:50: warning: ISO C++ does not support variable-length array types [-Wvla] name =new(char[strlen(t.name)+1])(); ^ hhhit-C.h:1685:50: warning: ISO C++ does not support variable-length array types [-Wvla] file =new(char[strlen(t.file)+1])(); ^ hhhit-C.h:1696:43: warning: ISO C++ does not support variable-length array types [-Wvla] sname=new(char*[t.n_display])(); // Call Compare only once with irep=1 ^ hhhit-C.h:1697:43: warning: ISO C++ does not support variable-length array types [-Wvla] seq =new(char*[t.n_display])(); // Call Compare only once with irep=1 ^ hhhit-C.h:1730:34: warning: ISO C++ does not support variable-length array types [-Wvla] this->i = new( int[i2+j2+2])(); ^ hhhit-C.h:1731:34: warning: ISO C++ does not support variable-length array types [-Wvla] this->j = new( int[i2+j2+2])(); ^ hhhit-C.h:1732:35: warning: ISO C++ does not support variable-length array types [-Wvla] states = new( char[i2+j2+2])(); ^ In file included from hhalign.cpp:73:0: hhhalfalignment-C.h: In constructor 'HalfAlignment::HalfAlignment(int)': hhhalfalignment-C.h:66:25: warning: ISO C++ does not support variable-length array types [-Wvla] h = new(int[maxseqdis]); //h[k] = next position of sequence k to be written ^ hhhalfalignment-C.h:67:27: warning: ISO C++ does not support variable-length array types [-Wvla] s = new(char*[maxseqdis]); //s[k][h] = character in column h, sequence k of output alignment ^ hhhalfalignment-C.h:68:26: warning: ISO C++ does not support variable-length array types [-Wvla] l = new(int*[maxseqdis]); //counts non-gap residues: l[k][i] = index of last residue AT OR BEFORE match state i in seq k ^ hhhalfalignment-C.h:69:26: warning: ISO C++ does not support variable-length array types [-Wvla] m = new(int*[maxseqdis]); //counts positions: m[k][i] = position of match state i in string seq[k] ^ In file included from hhalign.cpp:74:0: hhfullalignment-C.h: In member function 'void FullAlignment::PrintHHR(FILE*, Hit&)': hhfullalignment-C.h:359:39: warning: ISO C++ does not support variable-length array types [-Wvla] lq = new(short unsigned int[qa->n+2]); ^ hhfullalignment-C.h:360:39: warning: ISO C++ does not support variable-length array types [-Wvla] lt = new(short unsigned int[ta->n+2]); ^ In file included from hhalign.cpp:75:0: hhhitlist-C.h: In member function 'void HitList::TransitiveScoring()': hhhitlist-C.h:1285:20: warning: ISO C++ does not support variable-length array types [-Wvla] Z = new(float*[N]); ^ hhhitlist-C.h:1288:26: warning: ISO C++ does not support variable-length array types [-Wvla] Z[k] = new(float[N]); ^ hhhitlist-C.h:1293:20: warning: ISO C++ does not support variable-length array types [-Wvla] C = new(float*[N]); ^ hhhitlist-C.h:1296:26: warning: ISO C++ does not support variable-length array types [-Wvla] C[k] = new(float[N]); ^ hhhitlist-C.h:1303:20: warning: ISO C++ does not support variable-length array types [-Wvla] Zq = new(float[N]); ^ hhhitlist-C.h:1304:21: warning: ISO C++ does not support variable-length array types [-Wvla] Ztq = new(float[N]); ^ hhhitlist-C.h:1305:21: warning: ISO C++ does not support variable-length array types [-Wvla] Zrq = new(float[N]); ^ hhhitlist-C.h:1306:22: warning: ISO C++ does not support variable-length array types [-Wvla] fold = new(char*[N]); ^ hhhitlist-C.h:1307:21: warning: ISO C++ does not support variable-length array types [-Wvla] fam = new(char*[N]); ^ hhhitlist-C.h:1308:22: warning: ISO C++ does not support variable-length array types [-Wvla] Prob = new(float[N]); ^ hhhitlist-C.h:1309:18: warning: ISO C++ does not support variable-length array types [-Wvla] ll = new(int[N]); ^ hhhitlist-C.h:1310:19: warning: ISO C++ does not support variable-length array types [-Wvla] w = new(float[N]); ^ hhhitlist-C.h:1373:37: warning: ISO C++ does not support variable-length array types [-Wvla] double** Csub = new(double*[M]); ^ hhhitlist-C.h:1374:37: warning: ISO C++ does not support variable-length array types [-Wvla] double** Cinv = new(double*[M]); ^ hhhitlist-C.h:1377:27: warning: ISO C++ does not support variable-length array types [-Wvla] Csub[m] = new(double[M]); ^ hhhitlist-C.h:1378:27: warning: ISO C++ does not support variable-length array types [-Wvla] Cinv[m] = new(double[M]); ^ hhhitlist-C.h:1453:34: warning: ISO C++ does not support variable-length array types [-Wvla] double** Csub = new(double*[M]); ^ hhhitlist-C.h:1456:31: warning: ISO C++ does not support variable-length array types [-Wvla] Csub[m] = new(double[M]); ^ hhhitlist-C.h:1470:38: warning: ISO C++ does not support variable-length array types [-Wvla] double** Cinv = new(double*[M]); ^ hhhitlist-C.h:1471:51: warning: ISO C++ does not support variable-length array types [-Wvla] for (m=0; mfilename' may be undefined [-Wsequence-point] (*mseq)->filename = CKFREE((*mseq)->filename); ^ /bin/sh ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c -o util.lo util.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c util.c -fPIC -DPIC -o .libs/util.o /bin/sh ../../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -I../../src -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c -o weights.lo weights.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -I../../src -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c weights.c -fPIC -DPIC -o .libs/weights.o /bin/sh ../../libtool --tag=CC --mode=link gcc -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -o libclustal.la hhalign_wrapper.lo ktuple_pair.lo list.lo log.lo muscle_upgma.lo muscle_tree.lo mbed.lo pair_dist.lo progress.lo seq.lo symmatrix.lo tree.lo util.lo weights.lo -largtable2 -lm libtool: link: ar cru .libs/libclustal.a .libs/hhalign_wrapper.o .libs/ktuple_pair.o .libs/list.o .libs/log.o .libs/muscle_upgma.o .libs/muscle_tree.o .libs/mbed.o .libs/pair_dist.o .libs/progress.o .libs/seq.o .libs/symmatrix.o .libs/tree.o .libs/util.o .libs/weights.o libtool: link: ranlib .libs/libclustal.a libtool: link: ( cd ".libs" && rm -f "libclustal.la" && ln -s "../libclustal.la" "libclustal.la" ) make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/clustal' make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' /bin/sh ../libtool --tag=CC --mode=compile gcc -DHAVE_CONFIG_H -I. -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c -o clustal-omega.lo clustal-omega.c g++ -DHAVE_CONFIG_H -I. -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c -o main.o main.cpp gcc -DHAVE_CONFIG_H -I. -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c mymain.c libtool: compile: gcc -DHAVE_CONFIG_H -I. -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -c clustal-omega.c -fPIC -DPIC -o .libs/clustal-omega.o clustal-omega.c: In function 'AlnToHHMFile': clustal-omega.c:392:14: warning: comparison between pointer and integer [enabled by default] if (NULL == mkstemp(tmp_aln)) { ^ clustal-omega.c: In function 'AlnToHMMFile': clustal-omega.c:478:14: warning: comparison between pointer and integer [enabled by default] if (NULL == mkstemp(tmp_aln)) { ^ clustal-omega.c:501:18: warning: comparison between pointer and integer [enabled by default] if (NULL == mkstemp(tmp_hmm)) { ^ clustal-omega.c: In function 'AlnToHMM': clustal-omega.c:572:14: warning: comparison between pointer and integer [enabled by default] if (NULL == mkstemp(pcHMM)) { ^ /bin/sh ../libtool --tag=CC --mode=link gcc -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -static -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -o libclustalo.la -rpath /usr/lib clustal-omega.lo clustal/libclustal.la hhalign/libhhalign.la squid/libsquid.la kmpp/libkmpp.la -largtable2 -lm libtool: link: (cd .libs/libclustalo.lax/libclustal.a && ar x "/builddir/build/BUILD/clustal-omega-1.2.1/src/clustal/.libs/libclustal.a") libtool: link: (cd .libs/libclustalo.lax/libhhalign.a && ar x "/builddir/build/BUILD/clustal-omega-1.2.1/src/hhalign/.libs/libhhalign.a") libtool: link: (cd .libs/libclustalo.lax/libsquid.a && ar x "/builddir/build/BUILD/clustal-omega-1.2.1/src/squid/.libs/libsquid.a") libtool: link: (cd .libs/libclustalo.lax/libkmpp.a && ar x "/builddir/build/BUILD/clustal-omega-1.2.1/src/kmpp/.libs/libkmpp.a") libtool: link: ar cru .libs/libclustalo.a .libs/clustal-omega.o .libs/libclustalo.lax/libclustal.a/weights.o .libs/libclustalo.lax/libclustal.a/log.o .libs/libclustalo.lax/libclustal.a/muscle_upgma.o .libs/libclustalo.lax/libclustal.a/seq.o .libs/libclustalo.lax/libclustal.a/ktuple_pair.o .libs/libclustalo.lax/libclustal.a/pair_dist.o .libs/libclustalo.lax/libclustal.a/symmatrix.o .libs/libclustalo.lax/libclustal.a/progress.o .libs/libclustalo.lax/libclustal.a/mbed.o .libs/libclustalo.lax/libclustal.a/muscle_tree.o .libs/libclustalo.lax/libclustal.a/hhalign_wrapper.o .libs/libclustalo.lax/libclustal.a/list.o .libs/libclustalo.lax/libclustal.a/tree.o .libs/libclustalo.lax/libclustal.a/util.o .libs/libclustalo.lax/libhhalign.a/hhalign.o .libs/libclustalo.lax/libsquid.a/dayhoff.o .libs/libclustalo.lax/libsquid.a/sre_random.o .libs/libclustalo.lax/libsquid.a/rk.o .libs/libclustalo.lax/libsquid.a/alignio.o .libs/libclustalo.lax/libsquid.a/translate.o .libs/libclustalo.lax/libsquid.a/file.o .libs/libclustalo.lax/libsquid.a/types.o .libs/libclustalo.lax/libsquid.a/phylip.o .libs/libclustalo.lax/libsquid.a/sre_ctype.o .libs/libclustalo.lax/libsquid.a/msf.o .libs/libclustalo.lax/libsquid.a/gsi64.o .libs/libclustalo.lax/libsquid.a/seqencode.o .libs/libclustalo.lax/libsquid.a/gsi.o .libs/libclustalo.lax/libsquid.a/iupac.o .libs/libclustalo.lax/libsquid.a/eps.o .libs/libclustalo.lax/libsquid.a/hsregex.o .libs/libclustalo.lax/libsquid.a/selex.o .libs/libclustalo.lax/libsquid.a/sqerror.o .libs/libclustalo.lax/libsquid.a/sqio.o .libs/libclustalo.lax/libsquid.a/sre_math.o .libs/libclustalo.lax/libsquid.a/aligneval.o .libs/libclustalo.lax/libsquid.a/clustal.o .libs/libclustalo.lax/libsquid.a/ssi.o .libs/libclustalo.lax/libsquid.a/msa.o .libs/libclustalo.lax/libsquid.a/vectorops.o .libs/libclustalo.lax/libsquid.a/stack.o .libs/libclustalo.lax/libsquid.a/revcomp.o .libs/libclustalo.lax/libsquid.a/weight.o .libs/libclustalo.lax/libsquid.a/stopwatch.o .libs/libclustalo.lax/libsquid.a/shuffle.o .libs/libclustalo.lax/libsquid.a/squidcore.o .libs/libclustalo.lax/libsquid.a/cluster.o .libs/libclustalo.lax/libsquid.a/stockholm.o .libs/libclustalo.lax/libsquid.a/gki.o .libs/libclustalo.lax/libsquid.a/sre_string.o .libs/libclustalo.lax/libsquid.a/getopt.o .libs/libclustalo.lax/libsquid.a/a2m.o .libs/libclustalo.lax/libkmpp.a/KmTree.o .libs/libclustalo.lax/libkmpp.a/KMeans.o .libs/libclustalo.lax/libkmpp.a/KmUtils.o libtool: link: ranlib .libs/libclustalo.a libtool: link: rm -fr .libs/libclustalo.lax libtool: link: ( cd ".libs" && rm -f "libclustalo.la" && ln -s "../libclustalo.la" "libclustalo.la" ) /bin/sh ../libtool --tag=CXX --mode=link g++ -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -o clustalo main.o mymain.o libclustalo.la -largtable2 -lm libtool: link: g++ -fopenmp -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -march=armv7-a -mfpu=vfpv3-d16 -mfloat-abi=hard -o clustalo main.o mymain.o ./.libs/libclustalo.a -largtable2 -lm make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[1]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[1]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1' make[1]: Nothing to be done for `all-am'. make[1]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1' + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.nVNi4Q + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm '!=' / ']' + rm -rf /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm ++ dirname /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm + cd clustal-omega-1.2.1 + /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm Making install in src make[1]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' Making install in hhalign make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/hhalign' make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/hhalign' make[3]: Nothing to be done for `install-exec-am'. test -z "/usr/include/clustalo/hhalign" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/hhalign" /usr/bin/install -c -m 644 'general.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/hhalign/general.h' /usr/bin/install -c -m 644 'hhfunc.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/hhalign/hhfunc.h' make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/hhalign' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/hhalign' Making install in squid make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/squid' make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/squid' make[3]: Nothing to be done for `install-exec-am'. test -z "/usr/include/clustalo/squid" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid" /usr/bin/install -c -m 644 'gki.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/gki.h' /usr/bin/install -c -m 644 'gsi64.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/gsi64.h' /usr/bin/install -c -m 644 'msa.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/msa.h' /usr/bin/install -c -m 644 'rk.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/rk.h' /usr/bin/install -c -m 644 'squid.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/squid.h' /usr/bin/install -c -m 644 'stopwatch.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/stopwatch.h' /usr/bin/install -c -m 644 'sqfuncs.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/sqfuncs.h' /usr/bin/install -c -m 644 'sre_random.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/sre_random.h' /usr/bin/install -c -m 644 'ssi.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/ssi.h' /usr/bin/install -c -m 644 'stockholm.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/stockholm.h' /usr/bin/install -c -m 644 'vectorops.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/vectorops.h' /usr/bin/install -c -m 644 'version.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/squid/version.h' make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/squid' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/squid' Making install in kmpp make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/kmpp' make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/kmpp' make[3]: Nothing to be done for `install-exec-am'. make[3]: Nothing to be done for `install-data-am'. make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/kmpp' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/kmpp' Making install in clustal make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/clustal' make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/clustal' make[3]: Nothing to be done for `install-exec-am'. test -z "/usr/include/clustalo/clustal" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal" /usr/bin/install -c -m 644 'hhalign_wrapper.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/hhalign_wrapper.h' /usr/bin/install -c -m 644 'ktuple_pair.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/ktuple_pair.h' /usr/bin/install -c -m 644 'log.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/log.h' /usr/bin/install -c -m 644 'mbed.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/mbed.h' /usr/bin/install -c -m 644 'muscle_tree.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/muscle_tree.h' /usr/bin/install -c -m 644 'pair_dist.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/pair_dist.h' /usr/bin/install -c -m 644 'progress.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/progress.h' /usr/bin/install -c -m 644 'seq.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/seq.h' /usr/bin/install -c -m 644 'symmatrix.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/symmatrix.h' /usr/bin/install -c -m 644 'tree.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/tree.h' /usr/bin/install -c -m 644 'util.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/util.h' /usr/bin/install -c -m 644 'weights.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/clustal/weights.h' make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/clustal' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src/clustal' make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[3]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' test -z "/usr/lib" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib" /bin/sh ../libtool --mode=install /usr/bin/install -c 'libclustalo.la' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.la' libtool: install: /usr/bin/install -c .libs/libclustalo.lai /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.la libtool: install: /usr/bin/install -c .libs/libclustalo.a /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.a libtool: install: chmod 644 /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.a libtool: install: ranlib /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.a libtool: install: warning: remember to run `libtool --finish /usr/lib' test -z "/usr/bin" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/bin" /bin/sh ../libtool --mode=install /usr/bin/install -c 'clustalo' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/bin/clustalo' libtool: install: /usr/bin/install -c clustalo /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/bin/clustalo test -z "/usr/include/clustalo/" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo/" /usr/bin/install -c -m 644 'clustal-omega-config.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo//clustal-omega-config.h' /usr/bin/install -c -m 644 'clustal-omega.h' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/include/clustalo//clustal-omega.h' make[3]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[1]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1/src' make[1]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1' make[2]: Entering directory `/builddir/build/BUILD/clustal-omega-1.2.1' make[2]: Nothing to be done for `install-exec-am'. test -z "/usr/share/doc/clustal-omega" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/share/doc/clustal-omega" /usr/bin/install -c -m 644 'README' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/share/doc/clustal-omega/README' test -z "/usr/lib/pkgconfig" || /usr/bin/mkdir -p "/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/pkgconfig" /usr/bin/install -c -m 644 'clustalo.pc' '/builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/pkgconfig/clustalo.pc' make[2]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1' make[1]: Leaving directory `/builddir/build/BUILD/clustal-omega-1.2.1' + rm -f /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.la /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/lib/libclustalo.a + install -pm 644 COPYING /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/share/doc/clustal-omega + /usr/lib/rpm/find-debuginfo.sh --strict-build-id -m --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 /builddir/build/BUILD/clustal-omega-1.2.1 extracting debug info from /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm/usr/bin/clustalo dwz: Too few files for multifile optimization /usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match. 3380 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-compress + /usr/lib/rpm/redhat/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 + /usr/lib/rpm/redhat/brp-python-hardlink + /usr/lib/rpm/redhat/brp-java-repack-jars Processing files: clustal-omega-1.2.1-4.el7.armv7hl Provides: bundled(squid) = 1.9 clustal-omega = 1.2.1-4.el7 clustal-omega(armv7hl-32) = 1.2.1-4.el7 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-armhf.so.3 ld-linux-armhf.so.3(GLIBC_2.4) libargtable2.so.0 libc.so.6 libc.so.6(GLIBC_2.4) libgcc_s.so.1 libgcc_s.so.1(GCC_3.3.1) libgcc_s.so.1(GCC_3.5) libgomp.so.1 libgomp.so.1(GOMP_1.0) libgomp.so.1(OMP_1.0) libm.so.6 libm.so.6(GLIBC_2.4) libpthread.so.0 libpthread.so.0(GLIBC_2.4) libstdc++.so.6 libstdc++.so.6(CXXABI_1.3) libstdc++.so.6(CXXABI_ARM_1.3.3) libstdc++.so.6(GLIBCXX_3.4) libstdc++.so.6(GLIBCXX_3.4.11) libstdc++.so.6(GLIBCXX_3.4.9) rtld(GNU_HASH) Processing files: clustal-omega-devel-1.2.1-4.el7.armv7hl Provides: clustal-omega-devel = 1.2.1-4.el7 clustal-omega-devel(armv7hl-32) = 1.2.1-4.el7 pkgconfig(clustalo) = 1.2.1 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/pkg-config Processing files: clustal-omega-debuginfo-1.2.1-4.el7.armv7hl Provides: clustal-omega-debuginfo = 1.2.1-4.el7 clustal-omega-debuginfo(armv7hl-32) = 1.2.1-4.el7 Requires(rpmlib): rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 rpmlib(CompressedFileNames) <= 3.0.4-1 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm Wrote: /builddir/build/RPMS/clustal-omega-1.2.1-4.el7.armv7hl.rpm Wrote: /builddir/build/RPMS/clustal-omega-devel-1.2.1-4.el7.armv7hl.rpm Wrote: /builddir/build/RPMS/clustal-omega-debuginfo-1.2.1-4.el7.armv7hl.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.vH2hxv + umask 022 + cd /builddir/build/BUILD + cd clustal-omega-1.2.1 + /usr/bin/rm -rf /builddir/build/BUILDROOT/clustal-omega-1.2.1-4.el7.arm + exit 0 Child return code was: 0 LEAVE do -->