Mock Version: 1.2.12 ENTER do(['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/htslib.spec'], chrootPath='/var/lib/mock/epel-7-x86_64-mockbuilder-2542/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=1001) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/htslib.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 warning: Could not canonicalize hostname: copr-builder-272199824.novalocal Building target platforms: x86_64 Building for target x86_64 Wrote: /builddir/build/SRPMS/htslib-1.3-1.el7.centos.src.rpm Child return code was: 0 LEAVE do --> ENTER do(['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/htslib.spec '], chrootPath='/var/lib/mock/epel-7-x86_64-mockbuilder-2542/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=1001) Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/htslib.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: x86_64 Building for target x86_64 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.YUj0ht + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf htslib-1.3 + /usr/bin/bzip2 -dc /builddir/build/SOURCES/htslib-1.3.tar.bz2 + /usr/bin/tar -xf - + STATUS=0 + '[' 0 -ne 0 ']' + cd htslib-1.3 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.vqrl4j + umask 022 + cd /builddir/build/BUILD + cd htslib-1.3 + CFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + export CFLAGS + CXXFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic' + export CXXFLAGS + FFLAGS='-O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I/usr/lib64/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 -m64 -mtune=generic -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro ' + export LDFLAGS + '[' 1 == 1 ']' + '[' x86_64 == ppc64le ']' ++ find . -name config.guess -o -name config.sub + ./configure --build=x86_64-redhat-linux-gnu --host=x86_64-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/lib64 --libexecdir=/usr/libexec --localstatedir=/var --sharedstatedir=/var/lib --mandir=/usr/share/man --infodir=/usr/share/info --disable-static configure: WARNING: unrecognized options: --disable-dependency-tracking, --disable-static checking for x86_64-redhat-linux-gnu-gcc... no checking for gcc... gcc checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no 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 for x86_64-redhat-linux-gnu-ranlib... no checking for ranlib... ranlib 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 for stdlib.h... (cached) yes checking for unistd.h... (cached) yes checking for sys/param.h... yes checking for getpagesize... yes checking for working mmap... yes checking for gmtime_r... yes checking for zlib.h... yes checking for inflate in -lz... yes configure: creating ./config.status config.status: creating config.mk config.status: creating config.h configure: WARNING: unrecognized options: --disable-dependency-tracking, --disable-static + make -j2 gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o kfunc.o kfunc.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o knetfile.o knetfile.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o kstring.o kstring.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o bgzf.o bgzf.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o faidx.o faidx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o hfile.o hfile.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o hfile_net.o hfile_net.c echo '#define HTS_VERSION "1.3"' > version.h gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o md5.o md5.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o regidx.o regidx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o sam.o sam.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o synced_bcf_reader.o synced_bcf_reader.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o vcf_sweep.o vcf_sweep.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o tbx.o tbx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o vcf.o vcf.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o vcfutils.o vcfutils.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_codecs.o cram/cram_codecs.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_decode.o cram/cram_decode.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_encode.o cram/cram_encode.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_external.o cram/cram_external.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_index.o cram/cram_index.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_io.o cram/cram_io.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_samtools.o cram/cram_samtools.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/cram_stats.o cram/cram_stats.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/files.o cram/files.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/mFILE.o cram/mFILE.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/open_trace_file.o cram/open_trace_file.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/pooled_alloc.o cram/pooled_alloc.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/rANS_static.o cram/rANS_static.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/sam_header.o cram/sam_header.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/string_alloc.o cram/string_alloc.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/thread_pool.o cram/thread_pool.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/vlen.o cram/vlen.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o cram/zfio.o cram/zfio.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o kfunc.pico kfunc.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o knetfile.pico knetfile.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o kstring.pico kstring.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o bgzf.pico bgzf.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o faidx.pico faidx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o hfile.pico hfile.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o hfile_net.pico hfile_net.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o hts.pico hts.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o md5.pico md5.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o regidx.pico regidx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o sam.pico sam.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o synced_bcf_reader.pico synced_bcf_reader.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o vcf_sweep.pico vcf_sweep.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o tbx.pico tbx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o vcf.pico vcf.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o vcfutils.pico vcfutils.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_codecs.pico cram/cram_codecs.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_decode.pico cram/cram_decode.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_encode.pico cram/cram_encode.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_external.pico cram/cram_external.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_index.pico cram/cram_index.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_io.pico cram/cram_io.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_samtools.pico cram/cram_samtools.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/cram_stats.pico cram/cram_stats.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/files.pico cram/files.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/mFILE.pico cram/mFILE.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/open_trace_file.pico cram/open_trace_file.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/pooled_alloc.pico cram/pooled_alloc.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/rANS_static.pico cram/rANS_static.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/sam_header.pico cram/sam_header.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/string_alloc.pico cram/string_alloc.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/thread_pool.pico cram/thread_pool.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/vlen.pico cram/vlen.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -fpic -c -o cram/zfio.pico cram/zfio.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o bgzip.o bgzip.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o htsfile.o htsfile.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o tabix.o tabix.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/fieldarith.o test/fieldarith.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/hfile.o test/hfile.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/sam.o test/sam.c test/sam.c: In function 'faidx1': test/sam.c:186:5: warning: 'faidx_fetch_nseq' is deprecated (declared at ./htslib/faidx.h:94): Please use faidx_nseq instead [-Wdeprecated-declarations] n = faidx_fetch_nseq(fai); ^ gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/test-regidx.o test/test-regidx.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/test_view.o test/test_view.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/test-vcf-api.o test/test-vcf-api.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o test/test-vcf-sweep.o test/test-vcf-sweep.c gcc -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -m64 -mtune=generic -I. -c -o hts.o hts.c gcc -shared -Wl,-soname,libhts.so.1 -pthread -Wl,-z,relro -o libhts.so kfunc.pico knetfile.pico kstring.pico bgzf.pico faidx.pico hfile.pico hfile_net.pico hts.pico md5.pico regidx.pico sam.pico synced_bcf_reader.pico vcf_sweep.pico tbx.pico vcf.pico vcfutils.pico cram/cram_codecs.pico cram/cram_decode.pico cram/cram_encode.pico cram/cram_external.pico cram/cram_index.pico cram/cram_io.pico cram/cram_samtools.pico cram/cram_stats.pico cram/files.pico cram/mFILE.pico cram/open_trace_file.pico cram/pooled_alloc.pico cram/rANS_static.pico cram/sam_header.pico cram/string_alloc.pico cram/thread_pool.pico cram/vlen.pico cram/zfio.pico -lz -lm ln -sf libhts.so libhts.so.1 ar -rc libhts.a kfunc.o knetfile.o kstring.o bgzf.o faidx.o hfile.o hfile_net.o hts.o md5.o regidx.o sam.o synced_bcf_reader.o vcf_sweep.o tbx.o vcf.o vcfutils.o cram/cram_codecs.o cram/cram_decode.o cram/cram_encode.o cram/cram_external.o cram/cram_index.o cram/cram_io.o cram/cram_samtools.o cram/cram_stats.o cram/files.o cram/mFILE.o cram/open_trace_file.o cram/pooled_alloc.o cram/rANS_static.o cram/sam_header.o cram/string_alloc.o cram/thread_pool.o cram/vlen.o cram/zfio.o ranlib libhts.a gcc -pthread -Wl,-z,relro -o bgzip bgzip.o libhts.a -lz gcc -pthread -Wl,-z,relro -o htsfile htsfile.o libhts.a -lz gcc -pthread -Wl,-z,relro -o tabix tabix.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/fieldarith test/fieldarith.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/hfile test/hfile.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/sam test/sam.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/test-regidx test/test-regidx.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/test_view test/test_view.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/test-vcf-api test/test-vcf-api.o libhts.a -lz gcc -pthread -Wl,-z,relro -o test/test-vcf-sweep test/test-vcf-sweep.o libhts.a -lz + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.OcV8So + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 ++ dirname /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 + cd htslib-1.3 + rm -rf /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 + /usr/bin/make install DESTDIR=/builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 mkdir -p -m 755 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/bin /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/include /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/include/htslib /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/man/man1 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/man/man5 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/pkgconfig if test -n ""; then mkdir -p -m 755 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64; fi install -p -m 644 libhts.so /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/libhts.so.1.3 ln -sf libhts.so.1.3 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/libhts.so ln -sf libhts.so.1.3 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/libhts.so.1 sed -e 's#@includedir@#/usr/include#g;s#@libdir@#/usr/lib64#g;s#@PACKAGE_VERSION@#1.3#g' htslib.pc.in > /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/pkgconfig/htslib.pc chmod 644 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/pkgconfig/htslib.pc install -p bgzip htsfile tabix /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/bin if test -n ""; then install -p /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64; fi install -p -m 644 htslib/*.h /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/include/htslib install -p -m 644 libhts.a /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/lib64/libhts.a install -p -m 644 htsfile.1 tabix.1 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/man/man1 install -p -m 644 faidx.5 sam.5 vcf.5 /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/man/man5 + find /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 -name '*.la' -exec rm -f '{}' ';' + /usr/lib/rpm/find-debuginfo.sh --strict-build-id -m --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 /builddir/build/BUILD/htslib-1.3 extracting debug info from /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/bin/tabix extracting debug info from /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/bin/htsfile extracting debug info from /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/bin/bgzip /usr/lib/rpm/sepdebugcrcfix: Updated 3 CRC32s, 0 CRC32s did match. 2349 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: htslib-1.3-1.el7.centos.x86_64 Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.5p1Qgw + umask 022 + cd /builddir/build/BUILD + cd htslib-1.3 + DOCDIR=/builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/doc/htslib-1.3 + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/doc/htslib-1.3 + cp -pr README /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/doc/htslib-1.3 + cp -pr INSTALL /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/doc/htslib-1.3 + cp -pr NEWS /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/doc/htslib-1.3 + cp -pr LICENSE /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64/usr/share/doc/htslib-1.3 + exit 0 Provides: htslib = 1.3-1.el7.centos htslib(x86-64) = 1.3-1.el7.centos Requires(interp): /sbin/ldconfig /sbin/ldconfig Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires(post): /sbin/ldconfig Requires(postun): /sbin/ldconfig Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.15)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libpthread.so.0()(64bit) libpthread.so.0(GLIBC_2.2.5)(64bit) libpthread.so.0(GLIBC_2.3.2)(64bit) libz.so.1()(64bit) libz.so.1(ZLIB_1.2.0)(64bit) libz.so.1(ZLIB_1.2.0.2)(64bit) rtld(GNU_HASH) Processing files: htslib-devel-1.3-1.el7.centos.x86_64 Provides: htslib-devel = 1.3-1.el7.centos htslib-devel(x86-64) = 1.3-1.el7.centos pkgconfig(htslib) = 1.3 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: /usr/bin/pkg-config libhts.so.1()(64bit) pkgconfig(zlib) Processing files: htslib-debuginfo-1.3-1.el7.centos.x86_64 Provides: htslib-debuginfo = 1.3-1.el7.centos htslib-debuginfo(x86-64) = 1.3-1.el7.centos 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/htslib-1.3-1.el7.centos.x86_64 warning: Could not canonicalize hostname: copr-builder-272199824.novalocal Wrote: /builddir/build/RPMS/htslib-1.3-1.el7.centos.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-devel-1.3-1.el7.centos.x86_64.rpm Wrote: /builddir/build/RPMS/htslib-debuginfo-1.3-1.el7.centos.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.rrhGlf + umask 022 + cd /builddir/build/BUILD + cd htslib-1.3 + /usr/bin/rm -rf /builddir/build/BUILDROOT/htslib-1.3-1.el7.centos.x86_64 + exit 0 Child return code was: 0 LEAVE do -->