Mock Version: 1.4.13
Mock Version: 1.4.13
ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target i686 --nodeps /builddir/build/SPECS/dssp.spec'], chrootPath='/var/lib/mock/f30-build-15075455-1075146/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f2e3166d3c8>timeout=172800uid=1000gid=425user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target i686 --nodeps /builddir/build/SPECS/dssp.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False
Building target platforms: i686
Building for target i686
Wrote: /builddir/build/SRPMS/dssp-3.0.0-5.fc30.src.rpm
Child return code was: 0
ENTER ['do'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target i686 --nodeps /builddir/build/SPECS/dssp.spec'], chrootPath='/var/lib/mock/f30-build-15075455-1075146/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=<mockbuild.trace_decorator.getLog object at 0x7f2e3166d3c8>timeout=172800uid=1000gid=425user='mockbuild'nspawn_args=[]unshare_net=TrueprintOutput=False)
Executing command: ['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target i686 --nodeps /builddir/build/SPECS/dssp.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;<mock-chroot>\\007"', 'PS1': '<mock-chroot> \\s-\\v\\$ ', 'LANG': 'C.UTF-8'} and shell False
Building target platforms: i686
Building for target i686
Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.DT000J
+ umask 022
+ cd /builddir/build/BUILD
+ cd /builddir/build/BUILD
+ rm -rf dssp-3.0.0
+ /usr/bin/gzip -dc /builddir/build/SOURCES/dssp-3.0.0.tgz
+ /usr/bin/tar -xof -
+ STATUS=0
+ '[' 0 -ne 0 ']'
+ cd dssp-3.0.0
+ /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w .
Patch #1 (dssp-make.patch):
+ echo 'Patch #1 (dssp-make.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .make --fuzz=0
patching file makefile
Patch #2 (dssp-tuple.patch):
+ echo 'Patch #2 (dssp-tuple.patch):'
+ /usr/bin/patch --no-backup-if-mismatch -p1 -b --suffix .tuple --fuzz=0
patching file src/primitives-3d.h
patching file src/structure.h
patching file src/primitives-3d.cpp
patching file src/dssp.cpp
patching file src/structure.cpp
+ chmod -x src/buffer.h
+ exit 0
Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.VZOUDy
+ umask 022
+ cd /builddir/build/BUILD
+ cd dssp-3.0.0
+ '[' -f /usr/lib/libboost_thread-mt.so ']'
+ echo 'BOOST_LIB_SUFFIX = '
+ echo 'CFLAGS=-O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include
BUILDSTDERR: LDOPTS=-Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -L/usr/lib'
+ make -j6
mkdir -p obj
g++ -MD -c -o obj/mkdssp.o src/mkdssp.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
g++ -MD -c -o obj/dssp.o src/dssp.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
g++ -MD -c -o obj/primitives-3d.o src/primitives-3d.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
g++ -MD -c -o obj/structure.o src/structure.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
g++ -MD -c -o obj/utils.o src/utils.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
g++ -MD -c -o obj/mas.o src/mas.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
g++ -MD -c -o obj/iocif.o src/iocif.cpp -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -fexceptions -fstack-protector-strong -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m32 -march=i686 -mtune=generic -msse2 -mfpmath=sse -mstackrealign -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/include  -iquote src -g -Wall -Wno-multichar -pthread -O3 -DUSE_COMPRESSION -DLINUX -DVERSION='"2.2.1"' -DNDEBUG
BUILDSTDERR: In file included from src/structure.cpp:9:
BUILDSTDERR: src/structure.h: In constructor 'MResidue::MResidue(int32, char, MResidue*)':
BUILDSTDERR: src/structure.h:283:17: warning: 'MResidue::mRadius' will be initialized after [-Wreorder]
BUILDSTDERR:   283 |   double        mRadius;
BUILDSTDERR:       |                 ^~~~~~~
BUILDSTDERR: src/structure.h:274:33: warning:   'MAtom MResidue::mH' [-Wreorder]
BUILDSTDERR:   274 |   MAtom        mC, mN, mCA, mO, mH;
BUILDSTDERR:       |                                 ^~
BUILDSTDERR: src/structure.cpp:440:1: warning:   when initialized here [-Wreorder]
BUILDSTDERR:   440 | MResidue::MResidue(int32 inNumber, char inTypeCode, MResidue* inPrevious)
BUILDSTDERR:       | ^~~~~~~~
BUILDSTDERR: In file included from src/structure.cpp:9:
BUILDSTDERR: src/structure.h: In constructor 'MProtein::MProtein(const string&, MChain*)':
BUILDSTDERR: src/structure.h:430:40: warning: 'MProtein::mNrOfHBondsInAntiparallelBridges' will be initialized after [-Wreorder]
BUILDSTDERR:   430 |   uint32 mNrOfHBondsInParallelBridges, mNrOfHBondsInAntiparallelBridges;
BUILDSTDERR:       |                                        ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
BUILDSTDERR: src/structure.h:424:17: warning:   'uint32 MProtein::mResidueCount' [-Wreorder]
BUILDSTDERR:   424 |   uint32        mResidueCount, mChainBreaks;
BUILDSTDERR:       |                 ^~~~~~~~~~~~~
BUILDSTDERR: src/structure.cpp:1031:1: warning:   when initialized here [-Wreorder]
BUILDSTDERR:  1031 | MProtein::MProtein(const std::string& inID, MChain* inChain)
BUILDSTDERR:       | ^~~~~~~~
g++ -o mkdssp obj/mkdssp.o obj/dssp.o obj/primitives-3d.o obj/structure.o obj/utils.o obj/mas.o obj/iocif.o -Wl,-z,relro -Wl,--as-needed  -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -L/usr/lib  -lboost_thread -lboost_filesystem -lboost_program_options -lboost_iostreams -lboost_system -lz -lbz2 -g -pthread
+ exit 0
Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.Gd32fq
+ umask 022
+ cd /builddir/build/BUILD
+ '[' /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386 '!=' / ']'
+ rm -rf /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386
BUILDSTDERR: ++ dirname /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386
+ mkdir -p /builddir/build/BUILDROOT
+ mkdir /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386
+ cd dssp-3.0.0
+ make install DEST_DIR=/usr DESTDIR=/builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386
install -d /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/bin /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/man/man1
install -m 755 mkdssp /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/bin/mkdssp
install doc/mkdssp.1 /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/man/man1/mkdssp.1
+ chmod -x /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/man/man1/mkdssp.1
+ /usr/lib/rpm/find-debuginfo.sh -j6 --strict-build-id -m -i --build-id-seed 3.0.0-5.fc30 --unique-debug-suffix -3.0.0-5.fc30.i386 --unique-debug-src-base dssp-3.0.0-5.fc30.i386 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 50000000 -S debugsourcefiles.list /builddir/build/BUILD/dssp-3.0.0
explicitly decompress any DWARF compressed ELF sections in /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/bin/mkdssp
extracting debug info from /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/bin/mkdssp
/usr/lib/rpm/sepdebugcrcfix: Updated 1 CRC32s, 0 CRC32s did match.
BUILDSTDERR: 356 blocks
+ /usr/lib/rpm/check-buildroot
+ /usr/lib/rpm/redhat/brp-ldconfig
+ /usr/lib/rpm/brp-compress
+ /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip
+ /usr/lib/rpm/brp-python-bytecompile /usr/bin/python 1 0
+ /usr/lib/rpm/brp-python-hardlink
+ /usr/lib/rpm/redhat/brp-mangle-shebangs
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/utils.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/structure.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/mas.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/primitives-3d.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/mkdssp.cpp is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/dssp.cpp is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/matrix.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/mas.cpp is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/align-2d.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/primitives-3d.cpp is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/dssp.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/utils.cpp is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/iocif.h is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/structure.cpp is executable but has empty or no shebang, removing executable bit
BUILDSTDERR: *** WARNING: ./usr/src/debug/dssp-3.0.0-5.fc30.i386/src/iocif.cpp is executable but has empty or no shebang, removing executable bit
Processing files: dssp-3.0.0-5.fc30.i686
Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.uyRWQn
+ umask 022
+ cd /builddir/build/BUILD
+ cd dssp-3.0.0
+ DOCDIR=/builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/doc/dssp
+ export LC_ALL=C
+ LC_ALL=C
+ export DOCDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/doc/dssp
+ cp -pr changelog /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/doc/dssp
+ cp -pr README.txt /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/doc/dssp
+ exit 0
Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.3Otetl
+ umask 022
+ cd /builddir/build/BUILD
+ cd dssp-3.0.0
+ LICENSEDIR=/builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/licenses/dssp
+ export LC_ALL=C
+ LC_ALL=C
+ export LICENSEDIR
+ /usr/bin/mkdir -p /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/licenses/dssp
+ cp -pr LICENSE_1_0.txt /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386/usr/share/licenses/dssp
+ exit 0
Provides: dssp = 3.0.0-5.fc30 dssp(x86-32) = 3.0.0-5.fc30
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Requires: libboost_program_options.so.1.69.0 libboost_thread.so.1.69.0 libc.so.6 libc.so.6(GLIBC_2.0) libc.so.6(GLIBC_2.1.3) libc.so.6(GLIBC_2.4) libgcc_s.so.1 libgcc_s.so.1(GCC_3.0) libgcc_s.so.1(GCC_4.0.0) libm.so.6 libm.so.6(GLIBC_2.0) libm.so.6(GLIBC_2.1) libm.so.6(GLIBC_2.29) libpthread.so.0 libpthread.so.0(GLIBC_2.0) libpthread.so.0(GLIBC_2.3.2) libpthread.so.0(GLIBC_2.3.3) libstdc++.so.6 libstdc++.so.6(CXXABI_1.3) libstdc++.so.6(CXXABI_1.3.9) libstdc++.so.6(GLIBCXX_3.4) libstdc++.so.6(GLIBCXX_3.4.11) libstdc++.so.6(GLIBCXX_3.4.15) libstdc++.so.6(GLIBCXX_3.4.20) libstdc++.so.6(GLIBCXX_3.4.21) libstdc++.so.6(GLIBCXX_3.4.26) libstdc++.so.6(GLIBCXX_3.4.9) rtld(GNU_HASH)
Processing files: dssp-debugsource-3.0.0-5.fc30.i686
Provides: dssp-debugsource = 3.0.0-5.fc30 dssp-debugsource(x86-32) = 3.0.0-5.fc30
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Processing files: dssp-debuginfo-3.0.0-5.fc30.i686
Provides: debuginfo(build-id) = 0a0f0517fb344533a6817dbf1aea61094fa12555 dssp-debuginfo = 3.0.0-5.fc30 dssp-debuginfo(x86-32) = 3.0.0-5.fc30
Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1
Recommends: dssp-debugsource(x86-32) = 3.0.0-5.fc30
Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386
Wrote: /builddir/build/RPMS/dssp-3.0.0-5.fc30.i686.rpm
Wrote: /builddir/build/RPMS/dssp-debugsource-3.0.0-5.fc30.i686.rpm
Wrote: /builddir/build/RPMS/dssp-debuginfo-3.0.0-5.fc30.i686.rpm
Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.uunQPn
+ umask 022
+ cd /builddir/build/BUILD
+ cd dssp-3.0.0
+ /usr/bin/rm -rf /builddir/build/BUILDROOT/dssp-3.0.0-5.fc30.i386
+ exit 0
Child return code was: 0