Mock Version: 3.1 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/morphio.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1660638105.751087/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.a576o_2t:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=FalseprintOutput=True) Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.a576o_2t:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '81a90773e4d44e66a6b89c1d0a7b9e35', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1660638105.751087/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.a576o_2t:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bs --target x86_64 --nodeps /builddir/build/SPECS/morphio.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1658361600 Wrote: /builddir/build/SRPMS/morphio-3.3.3-3.fc38.src.rpm Child return code was: 0 ENTER ['do_with_status'](['bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/morphio.spec'], chrootPath='/var/lib/mock/fedora-rawhide-x86_64-1660638105.751087/root'env={'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8'}shell=Falselogger=timeout=0uid=1000gid=135user='mockbuild'nspawn_args=['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.a576o_2t:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11']unshare_net=FalseprintOutput=True) Using nspawn with args ['--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.a576o_2t:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11'] Executing command: ['/usr/bin/systemd-nspawn', '-q', '-M', '4580dedc07b845eb9621c1dda503f5c0', '-D', '/var/lib/mock/fedora-rawhide-x86_64-1660638105.751087/root', '-a', '-u', 'mockbuild', '--capability=cap_ipc_lock', '--rlimit=RLIMIT_NOFILE=10240', '--capability=cap_ipc_lock', '--bind=/tmp/mock-resolv.a576o_2t:/etc/resolv.conf', '--bind=/dev/btrfs-control', '--bind=/dev/loop-control', '--bind=/dev/loop0', '--bind=/dev/loop1', '--bind=/dev/loop2', '--bind=/dev/loop3', '--bind=/dev/loop4', '--bind=/dev/loop5', '--bind=/dev/loop6', '--bind=/dev/loop7', '--bind=/dev/loop8', '--bind=/dev/loop9', '--bind=/dev/loop10', '--bind=/dev/loop11', '--console=pipe', '--setenv=TERM=vt100', '--setenv=SHELL=/bin/bash', '--setenv=HOME=/builddir', '--setenv=HOSTNAME=mock', '--setenv=PATH=/usr/bin:/bin:/usr/sbin:/sbin', '--setenv=PROMPT_COMMAND=printf "\\033]0;\\007"', '--setenv=PS1= \\s-\\v\\$ ', '--setenv=LANG=C.UTF-8', '--resolv-conf=off', 'bash', '--login', '-c', '/usr/bin/rpmbuild -bb --target x86_64 --nodeps /builddir/build/SPECS/morphio.spec'] with env {'TERM': 'vt100', 'SHELL': '/bin/bash', 'HOME': '/builddir', 'HOSTNAME': 'mock', 'PATH': '/usr/bin:/bin:/usr/sbin:/sbin', 'PROMPT_COMMAND': 'printf "\\033]0;\\007"', 'PS1': ' \\s-\\v\\$ ', 'LANG': 'C.UTF-8', 'SYSTEMD_NSPAWN_TMPFS_TMP': '0', 'SYSTEMD_SECCOMP': '0'} and shell False Building target platforms: x86_64 Building for target x86_64 setting SOURCE_DATE_EPOCH=1658361600 Executing(%prep): /bin/sh -e /var/tmp/rpm-tmp.ZDrZhk + umask 022 + cd /builddir/build/BUILD + cd /builddir/build/BUILD + rm -rf MorphIO-3.3.3 + /usr/lib/rpm/rpmuncompress -x /builddir/build/SOURCES/morphio-3.3.3.tar.gz + STATUS=0 + '[' 0 -ne 0 ']' + cd MorphIO-3.3.3 + /usr/bin/chmod -Rf a+rX,u+w,g-w,o-w . + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0001-Stop-them-using-a-random-env-var.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0002-Use-gnuinstall-dirs.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0003-Remove-upstreams-flags.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0004-Version-soname.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0005-Install-python-shared-object.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0006-Stop-setup.py-from-cmake-build.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0007-pytest-float32.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + /usr/lib/rpm/rpmuncompress /builddir/build/SOURCES/0008-use-lib_install_dir.patch + /usr/bin/patch -p1 -s --fuzz=0 --no-backup-if-mismatch -f + rm -rvf 3rdparty/GSL_LITE removed directory '3rdparty/GSL_LITE' + sed -r -i /GSL_LITE/d MANIFEST.in + sed -r -i '/director.*\(.*(gsl-lite|GSL_LITE).*\)/d' 3rdparty/CMakeLists.txt + sed -r -i -e /TARGET_PROPERTY:gsl-lite,INTERFACE_INCLUDE_DIRECTORIES/d -e 's/PUBLIC[[:blank:]]+gsl-lite[[:blank:]]+(PRIVATE)/\1/' src/CMakeLists.txt + grep -ErIl '#[[:blank:]]*include[[:blank:]]+["<]gsl/gsl[">]' . + xargs -r sed -r -i 's@(#[[:blank:]]*include[[:blank:]]+["<]gsl/gsl)([">])@\1-lite\.hpp\2@' + rm -rvf 3rdparty/lexertl + ln -s /usr/include/lexertl 3rdparty/ + find . -type f -name .gitignore -print -delete ./doc/source/doxygen/.gitignore ./.gitignore + RPM_EC=0 ++ jobs -p + exit 0 Executing(%build): /bin/sh -e /var/tmp/rpm-tmp.hBA4h0 + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' -f /usr/lib/rpm/generate-rpm-note.sh ']' + /usr/lib/rpm/generate-rpm-note.sh morphio 3.3.3-3.fc38 x86_64 + cd MorphIO-3.3.3 + export SETUPTOOLS_SCM_PRETEND_VERSION=3.3.3 + SETUPTOOLS_SCM_PRETEND_VERSION=3.3.3 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + /usr/bin/cmake -S . -B redhat-linux-build -DCMAKE_C_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_CXX_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_Fortran_FLAGS_RELEASE:STRING=-DNDEBUG -DCMAKE_VERBOSE_MAKEFILE:BOOL=ON -DCMAKE_INSTALL_DO_STRIP:BOOL=OFF -DCMAKE_INSTALL_PREFIX:PATH=/usr -DINCLUDE_INSTALL_DIR:PATH=/usr/include -DLIB_INSTALL_DIR:PATH=/usr/lib64 -DSYSCONF_INSTALL_DIR:PATH=/etc -DSHARE_INSTALL_PREFIX:PATH=/usr/share -DLIB_SUFFIX=64 -DBUILD_SHARED_LIBS:BOOL=ON -DEXTERNAL_PYBIND11:BOOL=TRUE -DEXTERNAL_HIGHFIVE:BOOL=TRUE -DMORPHIO_USE_DOUBLE:BOOL=TRUE -DBUILD_BINDINGS:BOOL=TRUE -DMorphIO_CXX_WARNINGS:BOOL=FALSE -DMORPHIO_TESTS:BOOL=TRUE -DEXTERNAL_CATCH2:BOOL=TRUE -DMORPHIO_ENABLE_COVERAGE:BOOL=TRUE -DMORPHIO_USE_DOUBLE:BOOL=TRUE -DMORPHIO_VERSION_STRING:STRING=3.3.3 -GNinja -- The C compiler identification is GNU 12.1.1 -- The CXX compiler identification is GNU 12.1.1 -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Check for working C compiler: /usr/bin/gcc - skipped -- Detecting C compile features -- Detecting C compile features - done -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done Floating Point Type: double -- HIGHFIVE 2.3.1: (Re)Detecting Highfive dependencies (HIGHFIVE_USE_INSTALL_DEPS=NO) -- Found HDF5: /usr/lib64/libhdf5.so (found version "1.12.1") -- Found Boost: /usr/include (found version "1.78.0") found components: system serialization -- Found PythonInterp: /usr/bin/python3 (found suitable version "3.11", minimum required is "3.6") -- Found PythonLibs: /usr/lib64/libpython3.11.so -- Performing Test HAS_FLTO -- Performing Test HAS_FLTO - Success -- Found pybind11: /usr/include (found version "2.10.0") -- Warning: this does not have an effect - use NO_SYSTEM_FROM_IMPORTED if using imported targets -- Found Python3: /usr/bin/python3.11 (found version "3.11.0") found components: Interpreter -- Configuring done -- Generating done CMake Warning: Manually-specified variables were not used by the project: CMAKE_CXX_FLAGS_RELEASE CMAKE_C_FLAGS_RELEASE CMAKE_Fortran_FLAGS_RELEASE CMAKE_INSTALL_DO_STRIP INCLUDE_INSTALL_DIR LIB_SUFFIX SHARE_INSTALL_PREFIX SYSCONF_INSTALL_DIR -- Build files have been written to: /builddir/build/BUILD/MorphIO-3.3.3/redhat-linux-build + /usr/bin/cmake --build redhat-linux-build -j2 --verbose [1/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/endoplasmic_reticulum.cpp.o -MF src/CMakeFiles/morphio_obj.dir/endoplasmic_reticulum.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/endoplasmic_reticulum.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/endoplasmic_reticulum.cpp [2/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/enums.cpp.o -MF src/CMakeFiles/morphio_obj.dir/enums.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/enums.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/enums.cpp [3/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/dendritic_spine.cpp.o -MF src/CMakeFiles/morphio_obj.dir/dendritic_spine.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/dendritic_spine.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/dendritic_spine.cpp [4/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/glial_cell.cpp.o -MF src/CMakeFiles/morphio_obj.dir/glial_cell.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/glial_cell.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/glial_cell.cpp [5/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mito_section.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mito_section.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mito_section.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mito_section.cpp [6/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/errorMessages.cpp.o -MF src/CMakeFiles/morphio_obj.dir/errorMessages.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/errorMessages.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/errorMessages.cpp [7/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mitochondria.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mitochondria.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mitochondria.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mitochondria.cpp [8/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/dendritic_spine.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/dendritic_spine.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/dendritic_spine.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/dendritic_spine.cpp [9/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/endoplasmic_reticulum.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/endoplasmic_reticulum.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/endoplasmic_reticulum.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/endoplasmic_reticulum.cpp [10/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/morphology.cpp.o -MF src/CMakeFiles/morphio_obj.dir/morphology.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/morphology.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/morphology.cpp [11/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/glial_cell.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/glial_cell.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/glial_cell.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/glial_cell.cpp [12/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/mito_section.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/mito_section.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/mito_section.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/mito_section.cpp [13/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/mitochondria.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/mitochondria.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/mitochondria.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/mitochondria.cpp [14/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/modifiers.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/modifiers.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/modifiers.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/modifiers.cpp [15/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/section.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/section.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/section.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/section.cpp [16/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/soma.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/soma.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/soma.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/soma.cpp [17/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/morphology.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/morphology.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/morphology.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/morphology.cpp [18/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/properties.cpp.o -MF src/CMakeFiles/morphio_obj.dir/properties.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/properties.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/properties.cpp [19/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/mut/writers.cpp.o -MF src/CMakeFiles/morphio_obj.dir/mut/writers.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/mut/writers.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/mut/writers.cpp [20/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/readers/morphologyHDF5.cpp.o -MF src/CMakeFiles/morphio_obj.dir/readers/morphologyHDF5.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/readers/morphologyHDF5.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/readers/morphologyHDF5.cpp [21/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/readers/morphologySWC.cpp.o -MF src/CMakeFiles/morphio_obj.dir/readers/morphologySWC.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/readers/morphologySWC.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/readers/morphologySWC.cpp [22/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/readers/morphologyASC.cpp.o -MF src/CMakeFiles/morphio_obj.dir/readers/morphologyASC.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/readers/morphologyASC.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/readers/morphologyASC.cpp [23/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/section.cpp.o -MF src/CMakeFiles/morphio_obj.dir/section.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/section.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/section.cpp [24/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/readers/vasculatureHDF5.cpp.o -MF src/CMakeFiles/morphio_obj.dir/readers/vasculatureHDF5.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/readers/vasculatureHDF5.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/readers/vasculatureHDF5.cpp [25/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/soma.cpp.o -MF src/CMakeFiles/morphio_obj.dir/soma.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/soma.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/soma.cpp [26/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/vasc/section.cpp.o -MF src/CMakeFiles/morphio_obj.dir/vasc/section.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/vasc/section.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/vasc/section.cpp [27/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/vasc/properties.cpp.o -MF src/CMakeFiles/morphio_obj.dir/vasc/properties.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/vasc/properties.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/vasc/properties.cpp [28/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/vector_utils.cpp.o -MF src/CMakeFiles/morphio_obj.dir/vector_utils.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/vector_utils.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/vector_utils.cpp [29/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/version.cpp.o -MF src/CMakeFiles/morphio_obj.dir/version.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/version.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/version.cpp [30/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -I/builddir/build/BUILD/MorphIO-3.3.3 -I/builddir/build/BUILD/MorphIO-3.3.3/src/../include -isystem /builddir/build/BUILD/MorphIO-3.3.3/3rdparty/lexertl14/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -std=c++14 -MD -MT src/CMakeFiles/morphio_obj.dir/vasc/vasculature.cpp.o -MF src/CMakeFiles/morphio_obj.dir/vasc/vasculature.cpp.o.d -o src/CMakeFiles/morphio_obj.dir/vasc/vasculature.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/src/vasc/vasculature.cpp [31/46] : && /usr/bin/cmake -E rm -f src/libmorphio_static.a && /usr/bin/ar qc src/libmorphio_static.a src/CMakeFiles/morphio_obj.dir/dendritic_spine.cpp.o src/CMakeFiles/morphio_obj.dir/endoplasmic_reticulum.cpp.o src/CMakeFiles/morphio_obj.dir/enums.cpp.o src/CMakeFiles/morphio_obj.dir/errorMessages.cpp.o src/CMakeFiles/morphio_obj.dir/glial_cell.cpp.o src/CMakeFiles/morphio_obj.dir/mito_section.cpp.o src/CMakeFiles/morphio_obj.dir/mitochondria.cpp.o src/CMakeFiles/morphio_obj.dir/morphology.cpp.o src/CMakeFiles/morphio_obj.dir/mut/dendritic_spine.cpp.o src/CMakeFiles/morphio_obj.dir/mut/endoplasmic_reticulum.cpp.o src/CMakeFiles/morphio_obj.dir/mut/glial_cell.cpp.o src/CMakeFiles/morphio_obj.dir/mut/mito_section.cpp.o src/CMakeFiles/morphio_obj.dir/mut/mitochondria.cpp.o src/CMakeFiles/morphio_obj.dir/mut/modifiers.cpp.o src/CMakeFiles/morphio_obj.dir/mut/morphology.cpp.o src/CMakeFiles/morphio_obj.dir/mut/section.cpp.o src/CMakeFiles/morphio_obj.dir/mut/soma.cpp.o src/CMakeFiles/morphio_obj.dir/mut/writers.cpp.o src/CMakeFiles/morphio_obj.dir/properties.cpp.o src/CMakeFiles/morphio_obj.dir/readers/morphologyASC.cpp.o src/CMakeFiles/morphio_obj.dir/readers/morphologyHDF5.cpp.o src/CMakeFiles/morphio_obj.dir/readers/morphologySWC.cpp.o src/CMakeFiles/morphio_obj.dir/readers/vasculatureHDF5.cpp.o src/CMakeFiles/morphio_obj.dir/section.cpp.o src/CMakeFiles/morphio_obj.dir/soma.cpp.o src/CMakeFiles/morphio_obj.dir/vasc/properties.cpp.o src/CMakeFiles/morphio_obj.dir/vasc/section.cpp.o src/CMakeFiles/morphio_obj.dir/vasc/vasculature.cpp.o src/CMakeFiles/morphio_obj.dir/vector_utils.cpp.o src/CMakeFiles/morphio_obj.dir/version.cpp.o && /usr/bin/ranlib src/libmorphio_static.a && : [32/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -D_morphio_EXPORTS -isystem /usr/include/python3.11 -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -std=gnu++14 -MD -MT binds/python/CMakeFiles/_morphio.dir/morphio.cpp.o -MF binds/python/CMakeFiles/_morphio.dir/morphio.cpp.o.d -o binds/python/CMakeFiles/_morphio.dir/morphio.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/binds/python/morphio.cpp [33/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -D_morphio_EXPORTS -isystem /usr/include/python3.11 -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -std=gnu++14 -MD -MT binds/python/CMakeFiles/_morphio.dir/bind_immutable.cpp.o -MF binds/python/CMakeFiles/_morphio.dir/bind_immutable.cpp.o.d -o binds/python/CMakeFiles/_morphio.dir/bind_immutable.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/binds/python/bind_immutable.cpp [34/46] : && /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld -shared -Wl,-soname,libmorphio.so.0.0.0 -o src/libmorphio.so.0.0.0 src/CMakeFiles/morphio_obj.dir/dendritic_spine.cpp.o src/CMakeFiles/morphio_obj.dir/endoplasmic_reticulum.cpp.o src/CMakeFiles/morphio_obj.dir/enums.cpp.o src/CMakeFiles/morphio_obj.dir/errorMessages.cpp.o src/CMakeFiles/morphio_obj.dir/glial_cell.cpp.o src/CMakeFiles/morphio_obj.dir/mito_section.cpp.o src/CMakeFiles/morphio_obj.dir/mitochondria.cpp.o src/CMakeFiles/morphio_obj.dir/morphology.cpp.o src/CMakeFiles/morphio_obj.dir/mut/dendritic_spine.cpp.o src/CMakeFiles/morphio_obj.dir/mut/endoplasmic_reticulum.cpp.o src/CMakeFiles/morphio_obj.dir/mut/glial_cell.cpp.o src/CMakeFiles/morphio_obj.dir/mut/mito_section.cpp.o src/CMakeFiles/morphio_obj.dir/mut/mitochondria.cpp.o src/CMakeFiles/morphio_obj.dir/mut/modifiers.cpp.o src/CMakeFiles/morphio_obj.dir/mut/morphology.cpp.o src/CMakeFiles/morphio_obj.dir/mut/section.cpp.o src/CMakeFiles/morphio_obj.dir/mut/soma.cpp.o src/CMakeFiles/morphio_obj.dir/mut/writers.cpp.o src/CMakeFiles/morphio_obj.dir/properties.cpp.o src/CMakeFiles/morphio_obj.dir/readers/morphologyASC.cpp.o src/CMakeFiles/morphio_obj.dir/readers/morphologyHDF5.cpp.o src/CMakeFiles/morphio_obj.dir/readers/morphologySWC.cpp.o src/CMakeFiles/morphio_obj.dir/readers/vasculatureHDF5.cpp.o src/CMakeFiles/morphio_obj.dir/section.cpp.o src/CMakeFiles/morphio_obj.dir/soma.cpp.o src/CMakeFiles/morphio_obj.dir/vasc/properties.cpp.o src/CMakeFiles/morphio_obj.dir/vasc/section.cpp.o src/CMakeFiles/morphio_obj.dir/vasc/vasculature.cpp.o src/CMakeFiles/morphio_obj.dir/vector_utils.cpp.o src/CMakeFiles/morphio_obj.dir/version.cpp.o -lhdf5 && : [35/46] /usr/bin/cmake -E cmake_symlink_library src/libmorphio.so.0.0.0 src/libmorphio.so.0.0.0 src/libmorphio.so && : [36/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -D_morphio_EXPORTS -isystem /usr/include/python3.11 -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -std=gnu++14 -MD -MT binds/python/CMakeFiles/_morphio.dir/bindings_utils.cpp.o -MF binds/python/CMakeFiles/_morphio.dir/bindings_utils.cpp.o.d -o binds/python/CMakeFiles/_morphio.dir/bindings_utils.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/binds/python/bindings_utils.cpp [37/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -D_morphio_EXPORTS -isystem /usr/include/python3.11 -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -std=gnu++14 -MD -MT binds/python/CMakeFiles/_morphio.dir/bind_misc.cpp.o -MF binds/python/CMakeFiles/_morphio.dir/bind_misc.cpp.o.d -o binds/python/CMakeFiles/_morphio.dir/bind_misc.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/binds/python/bind_misc.cpp [38/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -D_morphio_EXPORTS -isystem /usr/include/python3.11 -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -std=gnu++14 -MD -MT binds/python/CMakeFiles/_morphio.dir/bind_mutable.cpp.o -MF binds/python/CMakeFiles/_morphio.dir/bind_mutable.cpp.o.d -o binds/python/CMakeFiles/_morphio.dir/bind_mutable.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/binds/python/bind_mutable.cpp [39/46] /usr/bin/g++ -DMORPHIO_USE_DOUBLE -D_morphio_EXPORTS -isystem /usr/include/python3.11 -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -fPIC -fvisibility=hidden -flto -fno-fat-lto-objects -std=gnu++14 -MD -MT binds/python/CMakeFiles/_morphio.dir/bind_vasculature.cpp.o -MF binds/python/CMakeFiles/_morphio.dir/bind_vasculature.cpp.o.d -o binds/python/CMakeFiles/_morphio.dir/bind_vasculature.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/binds/python/bind_vasculature.cpp [40/46] : && /usr/bin/g++ -fPIC -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld -flto -shared -o binds/python/_morphio.cpython-311-x86_64-linux-gnu.so binds/python/CMakeFiles/_morphio.dir/morphio.cpp.o binds/python/CMakeFiles/_morphio.dir/bind_immutable.cpp.o binds/python/CMakeFiles/_morphio.dir/bindings_utils.cpp.o binds/python/CMakeFiles/_morphio.dir/bind_misc.cpp.o binds/python/CMakeFiles/_morphio.dir/bind_mutable.cpp.o binds/python/CMakeFiles/_morphio.dir/bind_vasculature.cpp.o src/libmorphio_static.a -lhdf5 && : [41/46] /usr/bin/g++ -DBOOST_ALL_NO_LIB -DH5_USE_BOOST -DMORPHIO_USE_DOUBLE -DMPI_NO_CPPBIND -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++17 -MD -MT tests/CMakeFiles/unittests.dir/test_morphology_readers.cpp.o -MF tests/CMakeFiles/unittests.dir/test_morphology_readers.cpp.o.d -o tests/CMakeFiles/unittests.dir/test_morphology_readers.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/tests/test_morphology_readers.cpp [42/46] /usr/bin/g++ -DBOOST_ALL_NO_LIB -DH5_USE_BOOST -DMORPHIO_USE_DOUBLE -DMPI_NO_CPPBIND -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++17 -MD -MT tests/CMakeFiles/unittests.dir/main.cpp.o -MF tests/CMakeFiles/unittests.dir/main.cpp.o.d -o tests/CMakeFiles/unittests.dir/main.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/tests/main.cpp [43/46] /usr/bin/g++ -DBOOST_ALL_NO_LIB -DH5_USE_BOOST -DMORPHIO_USE_DOUBLE -DMPI_NO_CPPBIND -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++17 -MD -MT tests/CMakeFiles/unittests.dir/test_mutable_morphology.cpp.o -MF tests/CMakeFiles/unittests.dir/test_mutable_morphology.cpp.o.d -o tests/CMakeFiles/unittests.dir/test_mutable_morphology.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/tests/test_mutable_morphology.cpp [44/46] /usr/bin/g++ -DBOOST_ALL_NO_LIB -DH5_USE_BOOST -DMORPHIO_USE_DOUBLE -DMPI_NO_CPPBIND -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++17 -MD -MT tests/CMakeFiles/unittests.dir/test_immutable_morphology.cpp.o -MF tests/CMakeFiles/unittests.dir/test_immutable_morphology.cpp.o.d -o tests/CMakeFiles/unittests.dir/test_immutable_morphology.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp In file included from /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:5: /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp: In function 'void C_A_T_C_H_T_E_S_T_22()': /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:358:48: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 358 | REQUIRE(almost_equal(section.diameters().at(0), 2.03101, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~^~~ In file included from /builddir/build/BUILD/MorphIO-3.3.3/include/morphio/vector_types.h:9, from /builddir/build/BUILD/MorphIO-3.3.3/include/morphio/types.h:7, from /builddir/build/BUILD/MorphIO-3.3.3/include/morphio/endoplasmic_reticulum.h:3, from /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:7: /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:358:48: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 358 | REQUIRE(almost_equal(section.diameters().at(0), 2.03101, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:358:48: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 358 | REQUIRE(almost_equal(section.diameters().at(0), 2.03101, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:359:48: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 359 | REQUIRE(almost_equal(section.diameters().at(1), 1.86179, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:359:48: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 359 | REQUIRE(almost_equal(section.diameters().at(1), 1.86179, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:359:48: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 359 | REQUIRE(almost_equal(section.diameters().at(1), 1.86179, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:361:49: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 361 | REQUIRE(almost_equal(section.perimeters().at(0), 5.79899, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:361:49: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 361 | REQUIRE(almost_equal(section.perimeters().at(0), 5.79899, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:361:49: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 361 | REQUIRE(almost_equal(section.perimeters().at(0), 5.79899, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:362:49: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 362 | REQUIRE(almost_equal(section.perimeters().at(1), 7.98946, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:362:49: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 362 | REQUIRE(almost_equal(section.perimeters().at(1), 7.98946, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ /builddir/build/BUILD/MorphIO-3.3.3/tests/test_immutable_morphology.cpp:362:49: warning: 'constexpr T& gsl::span::at(index_type) const [with T = const double; reference = const double&; index_type = long unsigned int]' is deprecated: use subscript indexing instead [-Wdeprecated-declarations] 362 | REQUIRE(almost_equal(section.perimeters().at(1), 7.98946, 0.001)); | ~~~~~~~~~~~~~~~~~~~~~~~^~~ /usr/include/gsl/gsl-lite.hpp:3977:5: note: declared here 3977 | at( index_type pos ) const | ^~ [45/46] /usr/bin/g++ -DBOOST_ALL_NO_LIB -DH5_USE_BOOST -DMORPHIO_USE_DOUBLE -DMPI_NO_CPPBIND -isystem /builddir/build/BUILD/MorphIO-3.3.3/include -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -std=c++17 -MD -MT tests/CMakeFiles/unittests.dir/test_vasculature_morphology.cpp.o -MF tests/CMakeFiles/unittests.dir/test_vasculature_morphology.cpp.o.d -o tests/CMakeFiles/unittests.dir/test_vasculature_morphology.cpp.o -c /builddir/build/BUILD/MorphIO-3.3.3/tests/test_vasculature_morphology.cpp [46/46] : && /usr/bin/g++ -O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld -rdynamic tests/CMakeFiles/unittests.dir/main.cpp.o tests/CMakeFiles/unittests.dir/test_morphology_readers.cpp.o tests/CMakeFiles/unittests.dir/test_immutable_morphology.cpp.o tests/CMakeFiles/unittests.dir/test_mutable_morphology.cpp.o tests/CMakeFiles/unittests.dir/test_vasculature_morphology.cpp.o -o /builddir/build/BUILD/MorphIO-3.3.3/bin/unittests src/libmorphio_static.a -lstdc++fs -lhdf5 && : + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + /usr/bin/python3 setup.py build '--executable=/usr/bin/python3 -sP' running build running build_py creating build creating build/lib creating build/lib/morphio copying morphio/__init__.py -> build/lib/morphio creating build/lib/morphio/mut copying morphio/mut/__init__.py -> build/lib/morphio/mut creating build/lib/morphio/vasculature copying morphio/vasculature/__init__.py -> build/lib/morphio/vasculature + RPM_EC=0 ++ jobs -p + exit 0 Executing(%install): /bin/sh -e /var/tmp/rpm-tmp.1oHvjp + umask 022 + cd /builddir/build/BUILD + '[' /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 '!=' / ']' + rm -rf /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 ++ dirname /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 + mkdir -p /builddir/build/BUILDROOT + mkdir /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + cd MorphIO-3.3.3 + export SETUPTOOLS_SCM_PRETEND_VERSION=3.3.3 + SETUPTOOLS_SCM_PRETEND_VERSION=3.3.3 + DESTDIR=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 + /usr/bin/cmake --install redhat-linux-build -- Install configuration: "" -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/vector_types.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/version.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/vasc -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/vasc/vasculature.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/vasc/section.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/vasc/properties.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/vasc/iterators.hpp -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/types.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/tools.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/soma.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/section_iterators.hpp -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/section_base.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/section.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/properties.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/writers.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/soma.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/section.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/morphology.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/modifiers.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/mitochondria.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/mito_section.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/glial_cell.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/endoplasmic_reticulum.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mut/dendritic_spine.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/morphology.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mitochondria.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/mito_section.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/glial_cell.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/exceptions.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/errorMessages.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/enums.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/endoplasmic_reticulum.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/include/morphio/dendritic_spine.h -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/cmake/MorphIO/MorphIOTargets.cmake -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/cmake/MorphIO/MorphIOTargets-noconfig.cmake -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/cmake/MorphIO/MorphIOConfig.cmake -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/libmorphio.so.0.0.0 -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/libmorphio.so -- Installing: /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/python3.11/site-packages/morphio/_morphio.cpython-311-x86_64-linux-gnu.so + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + /usr/bin/python3 setup.py install -O1 --skip-build --root /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 --prefix /usr running install /usr/lib/python3.11/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools. warnings.warn( running install_lib creating /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib creating /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11 creating /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages creating /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio creating /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/vasculature copying build/lib/morphio/vasculature/__init__.py -> /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/vasculature creating /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/mut copying build/lib/morphio/mut/__init__.py -> /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/mut copying build/lib/morphio/__init__.py -> /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio byte-compiling /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/vasculature/__init__.py to __init__.cpython-311.pyc byte-compiling /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/mut/__init__.py to __init__.cpython-311.pyc byte-compiling /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/morphio/__init__.py to __init__.cpython-311.pyc writing byte-compilation script '/tmp/tmpm8bzvwrw.py' /usr/bin/python3 /tmp/tmpm8bzvwrw.py removing /tmp/tmpm8bzvwrw.py running install_egg_info running egg_info creating MorphIO.egg-info writing MorphIO.egg-info/PKG-INFO writing dependency_links to MorphIO.egg-info/dependency_links.txt writing requirements to MorphIO.egg-info/requires.txt writing top-level names to MorphIO.egg-info/top_level.txt writing manifest file 'MorphIO.egg-info/SOURCES.txt' reading manifest file 'MorphIO.egg-info/SOURCES.txt' reading manifest template 'MANIFEST.in' warning: no files found matching '3rdparty/HighFive/CMakeLists.txt' warning: no files found matching '*' under directory '3rdparty/HighFive/include' warning: no files found matching '*' under directory '3rdparty/HighFive/CMake' warning: no files found matching '*' under directory '3rdparty/HighFive/doc' warning: no files found matching '3rdparty/lexertl14/CMakeLists.txt' warning: no files found matching '*' under directory '3rdparty/lexertl14/include/lexertl' warning: no files found matching '*' under directory 'binds/python/pybind11/include' warning: no files found matching '*.cmake' under directory 'binds/python/pybind11/tools' warning: no files found matching 'binds/python/pybind11/CMakeLists.txt' warning: no files found matching 'binds/python/pybind11/LICENSE' no previously-included directories found matching 'ci' no previously-included directories found matching 'doc' no previously-included directories found matching 'tests' no previously-included directories found matching 'scripts' no previously-included directories found matching 'examples' adding license file 'COPYING' adding license file 'COPYING.LESSER' adding license file 'AUTHORS.txt' writing manifest file 'MorphIO.egg-info/SOURCES.txt' Copying MorphIO.egg-info to /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages/MorphIO-3.3.3-py3.11.egg-info running install_scripts + rm -rfv /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/bin/__pycache__ + '[' /usr/lib/python3.11/site-packages '!=' /usr/lib64/python3.11/site-packages ']' + mv -v /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/__init__.py /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/__pycache__ /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/mut /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/vasculature /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/morphio renamed '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/__init__.py' -> '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/morphio/__init__.py' renamed '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/__pycache__' -> '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/morphio/__pycache__' renamed '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/mut' -> '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/morphio/mut' renamed '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/morphio/vasculature' -> '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/morphio/vasculature' + mv -v /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/MorphIO-3.3.3-py3.11.egg-info /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/ renamed '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib/python3.11/site-packages/MorphIO-3.3.3-py3.11.egg-info' -> '/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64//usr/lib64/python3.11/site-packages/MorphIO-3.3.3-py3.11.egg-info' + /usr/bin/find-debuginfo -j2 --strict-build-id -m -i --build-id-seed 3.3.3-3.fc38 --unique-debug-suffix -3.3.3-3.fc38.x86_64 --unique-debug-src-base morphio-3.3.3-3.fc38.x86_64 --run-dwz --dwz-low-mem-die-limit 10000000 --dwz-max-die-limit 110000000 -S debugsourcefiles.list /builddir/build/BUILD/MorphIO-3.3.3 extracting debug info from /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/libmorphio.so.0.0.0 extracting debug info from /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/python3.11/site-packages/morphio/_morphio.cpython-311-x86_64-linux-gnu.so original debug info size: 51140kB, size after compression: 38660kB /usr/bin/sepdebugcrcfix: Updated 2 CRC32s, 0 CRC32s did match. 712 blocks + /usr/lib/rpm/check-buildroot + /usr/lib/rpm/redhat/brp-ldconfig + /usr/lib/rpm/brp-compress + /usr/lib/rpm/redhat/brp-strip-lto /usr/bin/strip + /usr/lib/rpm/brp-strip-static-archive /usr/bin/strip + /usr/lib/rpm/check-rpaths + /usr/lib/rpm/redhat/brp-mangle-shebangs + /usr/lib/rpm/brp-remove-la-files + /usr/lib/rpm/redhat/brp-python-bytecompile '' 1 0 Bytecompiling .py files below /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/debug/usr/lib64/python3.11 using python3.11 Bytecompiling .py files below /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11 using python3.11 Bytecompiling .py files below /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/python3.11 using python3.11 + /usr/lib/rpm/redhat/brp-python-hardlink Executing(%check): /bin/sh -e /var/tmp/rpm-tmp.ZWWc0X + umask 022 + cd /builddir/build/BUILD + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CFLAGS + CXXFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + export CXXFLAGS + FFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FFLAGS + FCFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection -I/usr/lib64/gfortran/modules' + export FCFLAGS + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + export LDFLAGS + LT_SYS_LIBRARY_PATH=/usr/lib64: + export LT_SYS_LIBRARY_PATH + CC=gcc + export CC + CXX=g++ + export CXX + '[' -f /usr/lib/rpm/generate-rpm-note.sh ']' + /usr/lib/rpm/generate-rpm-note.sh morphio 3.3.3-3.fc38 x86_64 + cd MorphIO-3.3.3 + export SETUPTOOLS_SCM_PRETEND_VERSION=3.3.3 + SETUPTOOLS_SCM_PRETEND_VERSION=3.3.3 + cd redhat-linux-build + /usr/bin/ctest --output-on-failure --force-new-ctest-process -j2 Test project /builddir/build/BUILD/MorphIO-3.3.3/redhat-linux-build Start 1: unittests 1/1 Test #1: unittests ........................ Passed 0.08 sec 100% tests passed, 0 tests failed out of 1 Total Test time (real) = 0.08 sec + cd - /builddir/build/BUILD/MorphIO-3.3.3 ++ basename /builddir/build/BUILD/MorphIO-3.3.3 + xdir=MorphIO-3.3.3 + cd .. + k='not test_v2' + k='not test_v2 and not test_neurolucida_markers' + k='not test_v2 and not test_neurolucida_markers and not test_marker_with_string' + k='not test_v2 and not test_neurolucida_markers and not test_marker_with_string and not test_dendritic_spine_round_trip_empty_postsynaptic_density' + CFLAGS='-O2 -flto=auto -ffat-lto-objects -fexceptions -g -grecord-gcc-switches -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSERTIONS -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -fstack-protector-strong -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -m64 -mtune=generic -fasynchronous-unwind-tables -fstack-clash-protection -fcf-protection' + LDFLAGS='-Wl,-z,relro -Wl,--as-needed -Wl,-z,now -specs=/usr/lib/rpm/redhat/redhat-hardened-ld -specs=/usr/lib/rpm/redhat/redhat-annobin-cc1 -Wl,--build-id=sha1 -Wl,-dT,/builddir/build/BUILD/MorphIO-3.3.3/.package_note-morphio-3.3.3-3.fc38.x86_64.ld' + PATH=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/bin:/builddir/.local/bin:/builddir/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/sbin + PYTHONPATH=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib64/python3.11/site-packages:/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/lib/python3.11/site-packages + PYTHONDONTWRITEBYTECODE=1 + /usr/bin/pytest MorphIO-3.3.3/tests -k 'not test_v2 and not test_neurolucida_markers and not test_marker_with_string and not test_dendritic_spine_round_trip_empty_postsynaptic_density' -v ============================= test session starts ============================== platform linux -- Python 3.11.0rc1, pytest-7.1.2, pluggy-1.0.0 -- /usr/bin/python3 cachedir: .pytest_cache rootdir: /builddir/build/BUILD/MorphIO-3.3.3 collecting ... collected 132 items / 4 deselected / 128 selected MorphIO-3.3.3/tests/test_0_API.py::test_doc_exists PASSED [ 0%] MorphIO-3.3.3/tests/test_0_API.py::test_mut_immut_have_same_methods PASSED [ 1%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_empty_vasculature PASSED [ 2%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_components_vasculature PASSED [ 3%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_section_types PASSED [ 3%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_section_offsets PASSED [ 4%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_section_connectivity PASSED [ 5%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_iterators_vasculature PASSED [ 6%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_from_pathlib PASSED [ 7%] MorphIO-3.3.3/tests/test_10_vasculature.py::test_section___str__ PASSED [ 7%] MorphIO-3.3.3/tests/test_1_swc.py::test_read_single_neurite PASSED [ 8%] MorphIO-3.3.3/tests/test_1_swc.py::test_skip_comments PASSED [ 9%] MorphIO-3.3.3/tests/test_1_swc.py::test_read_simple PASSED [ 10%] MorphIO-3.3.3/tests/test_1_swc.py::test_set_raise_warnings PASSED [ 10%] MorphIO-3.3.3/tests/test_1_swc.py::test_repeated_id PASSED [ 11%] MorphIO-3.3.3/tests/test_1_swc.py::test_neurite_followed_by_soma PASSED [ 12%] MorphIO-3.3.3/tests/test_1_swc.py::test_read_split_soma PASSED [ 13%] MorphIO-3.3.3/tests/test_1_swc.py::test_weird_indent PASSED [ 14%] MorphIO-3.3.3/tests/test_1_swc.py::test_cyclic PASSED [ 14%] MorphIO-3.3.3/tests/test_1_swc.py::test_simple_reversed PASSED [ 15%] MorphIO-3.3.3/tests/test_1_swc.py::test_soma_type PASSED [ 16%] MorphIO-3.3.3/tests/test_1_swc.py::test_read_weird_ids PASSED [ 17%] MorphIO-3.3.3/tests/test_1_swc.py::test_multiple_soma PASSED [ 17%] MorphIO-3.3.3/tests/test_1_swc.py::test_disconnected_neurite PASSED [ 18%] MorphIO-3.3.3/tests/test_1_swc.py::test_neurite_wrong_root_point PASSED [ 19%] MorphIO-3.3.3/tests/test_1_swc.py::test_read_duplicate PASSED [ 20%] MorphIO-3.3.3/tests/test_1_swc.py::test_unsupported_section_type PASSED [ 21%] MorphIO-3.3.3/tests/test_1_swc.py::test_root_node_split PASSED [ 21%] MorphIO-3.3.3/tests/test_1_swc.py::test_three_point_soma PASSED [ 22%] MorphIO-3.3.3/tests/test_1_swc.py::test_zero_diameter PASSED [ 23%] MorphIO-3.3.3/tests/test_1_swc.py::test_version PASSED [ 24%] MorphIO-3.3.3/tests/test_1_swc.py::test_no_soma PASSED [ 25%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_soma PASSED [ 25%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_parse_number_with_plus_symbol PASSED [ 26%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_unknown_token PASSED [ 27%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_unfinished_point PASSED [ 28%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_multiple_soma PASSED [ 28%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_single_neurite_no_soma PASSED [ 29%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_skip_header PASSED [ 30%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_read_with_duplicates PASSED [ 31%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_read_without_duplicates PASSED [ 32%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_explicit_duplicates_with_arbitrary_diameter PASSED [ 32%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_unfinished_file PASSED [ 33%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_section_single_point PASSED [ 34%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_single_children PASSED [ 35%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_spine PASSED [ 35%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_single_point_section_duplicate_parent PASSED [ 36%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_single_point_section_duplicate_parent_complex PASSED [ 37%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_markers PASSED [ 38%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_string_markers PASSED [ 39%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_invalid_incomplete PASSED [ 39%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_skip_font PASSED [ 40%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_skip_imagecoord PASSED [ 41%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_Sections_block PASSED [ 42%] MorphIO-3.3.3/tests/test_2_neurolucida.py::test_version PASSED [ 42%] MorphIO-3.3.3/tests/test_3_h5.py::test_v1 PASSED [ 43%] MorphIO-3.3.3/tests/test_3_h5.py::test_wrong_section_type PASSED [ 44%] MorphIO-3.3.3/tests/test_3_h5.py::test_soma_no_neurite PASSED [ 45%] MorphIO-3.3.3/tests/test_3_h5.py::test_single_children PASSED [ 46%] MorphIO-3.3.3/tests/test_4_immut.py::test_heterogeneous_sections PASSED [ 46%] MorphIO-3.3.3/tests/test_4_immut.py::test_components PASSED [ 47%] MorphIO-3.3.3/tests/test_4_immut.py::test_is_root PASSED [ 48%] MorphIO-3.3.3/tests/test_4_immut.py::test_distance PASSED [ 49%] MorphIO-3.3.3/tests/test_4_immut.py::test_iter PASSED [ 50%] MorphIO-3.3.3/tests/test_4_immut.py::test_section_offsets PASSED [ 50%] MorphIO-3.3.3/tests/test_4_immut.py::test_connectivity PASSED [ 51%] MorphIO-3.3.3/tests/test_4_immut.py::test_mitochondria PASSED [ 52%] MorphIO-3.3.3/tests/test_4_immut.py::test_endoplasmic_reticulum PASSED [ 53%] MorphIO-3.3.3/tests/test_4_immut.py::test_section___str__ PASSED [ 53%] MorphIO-3.3.3/tests/test_4_immut.py::test_section_has_same_shape PASSED [ 54%] MorphIO-3.3.3/tests/test_4_immut.py::test_from_pathlib PASSED [ 55%] MorphIO-3.3.3/tests/test_4_immut.py::test_more_iter PASSED [ 56%] MorphIO-3.3.3/tests/test_4_immut.py::test_glia PASSED [ 57%] MorphIO-3.3.3/tests/test_4_immut.py::test_dendritic_spine PASSED [ 57%] MorphIO-3.3.3/tests/test_4_immut.py::test_dendritic_spine_add_root_section PASSED [ 58%] MorphIO-3.3.3/tests/test_5_mut.py::test_heterogeneous_sections PASSED [ 59%] MorphIO-3.3.3/tests/test_5_mut.py::test_point_level PASSED [ 60%] MorphIO-3.3.3/tests/test_5_mut.py::test_connectivity PASSED [ 60%] MorphIO-3.3.3/tests/test_5_mut.py::test_empty_neurite PASSED [ 61%] MorphIO-3.3.3/tests/test_5_mut.py::test_single_neurite PASSED [ 62%] MorphIO-3.3.3/tests/test_5_mut.py::test_child_section PASSED [ 63%] MorphIO-3.3.3/tests/test_5_mut.py::test_append_no_duplicate PASSED [ 64%] MorphIO-3.3.3/tests/test_5_mut.py::test_mut_copy_ctor PASSED [ 64%] MorphIO-3.3.3/tests/test_5_mut.py::test_build_read_only PASSED [ 65%] MorphIO-3.3.3/tests/test_5_mut.py::test_mutable_immutable_equivalence PASSED [ 66%] MorphIO-3.3.3/tests/test_5_mut.py::test_mitochondria_read PASSED [ 67%] MorphIO-3.3.3/tests/test_5_mut.py::test_sections_are_not_dereferenced PASSED [ 67%] MorphIO-3.3.3/tests/test_5_mut.py::test_append_mutable_section PASSED [ 68%] MorphIO-3.3.3/tests/test_5_mut.py::test_mitochondria PASSED [ 69%] MorphIO-3.3.3/tests/test_5_mut.py::test_iterators PASSED [ 70%] MorphIO-3.3.3/tests/test_5_mut.py::test_non_C_nparray PASSED [ 71%] MorphIO-3.3.3/tests/test_5_mut.py::test_annotation PASSED [ 71%] MorphIO-3.3.3/tests/test_5_mut.py::test_empty_sibling PASSED [ 72%] MorphIO-3.3.3/tests/test_5_mut.py::test_nested_single_child PASSED [ 73%] MorphIO-3.3.3/tests/test_5_mut.py::test_section___str__ PASSED [ 74%] MorphIO-3.3.3/tests/test_5_mut.py::test_from_pathlib PASSED [ 75%] MorphIO-3.3.3/tests/test_5_mut.py::test_endoplasmic_reticulum PASSED [ 75%] MorphIO-3.3.3/tests/test_5_mut.py::test_remove_unifurcations PASSED [ 76%] MorphIO-3.3.3/tests/test_5_mut.py::test_remove_rootsection PASSED [ 77%] MorphIO-3.3.3/tests/test_5_mut.py::test_remove_rootsection_in_loop PASSED [ 78%] MorphIO-3.3.3/tests/test_5_mut.py::test_glia PASSED [ 78%] MorphIO-3.3.3/tests/test_5_mut.py::test_glia_round_trip PASSED [ 79%] MorphIO-3.3.3/tests/test_5_mut.py::test_dendritic_spine PASSED [ 80%] MorphIO-3.3.3/tests/test_5_mut.py::test_dendritic_spine_round_trip PASSED [ 81%] MorphIO-3.3.3/tests/test_5_mut.py::test_lifetime_destroyed_morphology PASSED [ 82%] MorphIO-3.3.3/tests/test_5_mut.py::test_lifetime_access_properties_no_morphology PASSED [ 82%] MorphIO-3.3.3/tests/test_5_mut.py::test_lifetime_copy_single_section PASSED [ 83%] MorphIO-3.3.3/tests/test_5_mut.py::test_lifetime_iteration_fails_with_orphan_section PASSED [ 84%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_empty_file PASSED [ 85%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_soma_basic PASSED [ 85%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_basic PASSED [ 86%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_merge_only_child_asc_h5 PASSED [ 87%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_merge_only_child_swc PASSED [ 88%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_perimeter PASSED [ 89%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_no_soma PASSED [ 89%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_soma__points_no_diameters PASSED [ 90%] MorphIO-3.3.3/tests/test_6_writers.py::test_mitochondria PASSED [ 91%] MorphIO-3.3.3/tests/test_6_writers.py::test_duplicate_different_diameter PASSED [ 92%] MorphIO-3.3.3/tests/test_6_writers.py::test_single_point_root_section PASSED [ 92%] MorphIO-3.3.3/tests/test_6_writers.py::test_write_custom_property__throws PASSED [ 93%] MorphIO-3.3.3/tests/test_7_modifiers.py::test_no_modifier PASSED [ 94%] MorphIO-3.3.3/tests/test_7_modifiers.py::test_nrn_order PASSED [ 95%] MorphIO-3.3.3/tests/test_7_modifiers.py::test_nrn_order_stability PASSED [ 96%] MorphIO-3.3.3/tests/test_7_modifiers.py::test_two_point_section PASSED [ 96%] MorphIO-3.3.3/tests/test_7_modifiers.py::test_soma_sphere PASSED [ 97%] MorphIO-3.3.3/tests/test_7_modifiers.py::test_no_duplicate PASSED [ 98%] MorphIO-3.3.3/tests/test_8_all_morphologies.py::test_all SKIPPED (ba...) [ 99%] MorphIO-3.3.3/tests/test_9_surfaces.py::test_contour_surface PASSED [100%] =============================== warnings summary =============================== MorphIO-3.3.3/tests/test_0_API.py:48 /builddir/build/BUILD/MorphIO-3.3.3/tests/test_0_API.py:48: PytestAssertRewriteWarning: assertion is always true, perhaps remove parentheses? assert (methods(morphio.Mitochondria), -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html =========== 127 passed, 1 skipped, 4 deselected, 1 warning in 0.87s ============ + RPM_EC=0 ++ jobs -p + exit 0 Processing files: morphio-3.3.3-3.fc38.x86_64 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.4Gc80B + umask 022 + cd /builddir/build/BUILD + cd MorphIO-3.3.3 + LICENSEDIR=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio + cp -pr COPYING /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio + cp -pr COPYING.LESSER /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio + RPM_EC=0 ++ jobs -p + exit 0 Provides: libmorphio.so.0.0.0()(64bit) morphio = 3.3.3-3.fc38 morphio(x86-64) = 3.3.3-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libhdf5.so.200()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) rtld(GNU_HASH) Processing files: morphio-devel-3.3.3-3.fc38.x86_64 Provides: cmake(MorphIO) cmake(morphio) morphio-devel = 3.3.3-3.fc38 morphio-devel(x86-64) = 3.3.3-3.fc38 morphio-static = 3.3.3-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: cmake-filesystem(x86-64) libmorphio.so.0.0.0()(64bit) Processing files: python3-morphio-3.3.3-3.fc38.x86_64 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.B7ArFV + umask 022 + cd /builddir/build/BUILD + cd MorphIO-3.3.3 + LICENSEDIR=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/python3-morphio + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/python3-morphio + cp -pr COPYING /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/python3-morphio + cp -pr COPYING.LESSER /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/python3-morphio + RPM_EC=0 ++ jobs -p + exit 0 Provides: python-morphio = 3.3.3-3.fc38 python3-morphio = 3.3.3-3.fc38 python3-morphio(x86-64) = 3.3.3-3.fc38 python3.11-morphio = 3.3.3-3.fc38 python3.11dist(morphio) = 3.3.3 python3dist(morphio) = 3.3.3 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PartialHardlinkSets) <= 4.0.4-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Requires: ld-linux-x86-64.so.2()(64bit) ld-linux-x86-64.so.2(GLIBC_2.3)(64bit) libc.so.6()(64bit) libc.so.6(GLIBC_2.14)(64bit) libc.so.6(GLIBC_2.2.5)(64bit) libc.so.6(GLIBC_2.3.4)(64bit) libc.so.6(GLIBC_2.32)(64bit) libc.so.6(GLIBC_2.4)(64bit) libc.so.6(GLIBC_2.7)(64bit) libgcc_s.so.1()(64bit) libgcc_s.so.1(GCC_3.0)(64bit) libgcc_s.so.1(GCC_3.3.1)(64bit) libhdf5.so.200()(64bit) libm.so.6()(64bit) libm.so.6(GLIBC_2.2.5)(64bit) libstdc++.so.6()(64bit) libstdc++.so.6(CXXABI_1.3)(64bit) libstdc++.so.6(CXXABI_1.3.13)(64bit) libstdc++.so.6(CXXABI_1.3.2)(64bit) libstdc++.so.6(CXXABI_1.3.3)(64bit) libstdc++.so.6(CXXABI_1.3.5)(64bit) libstdc++.so.6(CXXABI_1.3.9)(64bit) libstdc++.so.6(GLIBCXX_3.4)(64bit) libstdc++.so.6(GLIBCXX_3.4.11)(64bit) libstdc++.so.6(GLIBCXX_3.4.15)(64bit) libstdc++.so.6(GLIBCXX_3.4.18)(64bit) libstdc++.so.6(GLIBCXX_3.4.20)(64bit) libstdc++.so.6(GLIBCXX_3.4.21)(64bit) libstdc++.so.6(GLIBCXX_3.4.26)(64bit) libstdc++.so.6(GLIBCXX_3.4.29)(64bit) libstdc++.so.6(GLIBCXX_3.4.30)(64bit) libstdc++.so.6(GLIBCXX_3.4.9)(64bit) python(abi) = 3.11 python3.11dist(numpy) >= 1.14.1 rtld(GNU_HASH) Processing files: morphio-doc-3.3.3-3.fc38.noarch Executing(%doc): /bin/sh -e /var/tmp/rpm-tmp.l870zS + umask 022 + cd /builddir/build/BUILD + cd MorphIO-3.3.3 + DOCDIR=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/doc/morphio-doc + export LC_ALL=C + LC_ALL=C + export DOCDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/doc/morphio-doc + cp -pr CHANGELOG.md /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/doc/morphio-doc + cp -pr CONTRIBUTING.md /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/doc/morphio-doc + cp -pr README.rst /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/doc/morphio-doc + cp -pr examples /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/doc/morphio-doc + RPM_EC=0 ++ jobs -p + exit 0 Executing(%license): /bin/sh -e /var/tmp/rpm-tmp.7zDvl1 + umask 022 + cd /builddir/build/BUILD + cd MorphIO-3.3.3 + LICENSEDIR=/builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio-doc + export LC_ALL=C + LC_ALL=C + export LICENSEDIR + /usr/bin/mkdir -p /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio-doc + cp -pr COPYING /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio-doc + cp -pr COPYING.LESSER /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64/usr/share/licenses/morphio-doc + RPM_EC=0 ++ jobs -p + exit 0 Provides: morphio-doc = 3.3.3-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: morphio-debugsource-3.3.3-3.fc38.x86_64 Provides: morphio-debugsource = 3.3.3-3.fc38 morphio-debugsource(x86-64) = 3.3.3-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Processing files: morphio-debuginfo-3.3.3-3.fc38.x86_64 Provides: debuginfo(build-id) = b6966fbe708a4e4d486bb676016ccb85f97b9a58 libmorphio.so.0.0.0-3.3.3-3.fc38.x86_64.debug()(64bit) morphio-debuginfo = 3.3.3-3.fc38 morphio-debuginfo(x86-64) = 3.3.3-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: morphio-debugsource(x86-64) = 3.3.3-3.fc38 Processing files: python3-morphio-debuginfo-3.3.3-3.fc38.x86_64 Provides: debuginfo(build-id) = 2555f19a2e3b7de3c03b3d71ac88dd1a545a2f20 python-morphio-debuginfo = 3.3.3-3.fc38 python3-morphio-debuginfo = 3.3.3-3.fc38 python3-morphio-debuginfo(x86-64) = 3.3.3-3.fc38 python3.11-morphio-debuginfo = 3.3.3-3.fc38 Requires(rpmlib): rpmlib(CompressedFileNames) <= 3.0.4-1 rpmlib(FileDigests) <= 4.6.0-1 rpmlib(PayloadFilesHavePrefix) <= 4.0-1 Recommends: morphio-debugsource(x86-64) = 3.3.3-3.fc38 Checking for unpackaged file(s): /usr/lib/rpm/check-files /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 Wrote: /builddir/build/RPMS/morphio-debuginfo-3.3.3-3.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/python3-morphio-3.3.3-3.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/morphio-3.3.3-3.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/morphio-debugsource-3.3.3-3.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/morphio-devel-3.3.3-3.fc38.x86_64.rpm Wrote: /builddir/build/RPMS/morphio-doc-3.3.3-3.fc38.noarch.rpm Wrote: /builddir/build/RPMS/python3-morphio-debuginfo-3.3.3-3.fc38.x86_64.rpm Executing(%clean): /bin/sh -e /var/tmp/rpm-tmp.qSBKS0 + umask 022 + cd /builddir/build/BUILD + cd MorphIO-3.3.3 + /usr/bin/rm -rf /builddir/build/BUILDROOT/morphio-3.3.3-3.fc38.x86_64 + RPM_EC=0 ++ jobs -p + exit 0 Executing(rmbuild): /bin/sh -e /var/tmp/rpm-tmp.uWwcQp + umask 022 + cd /builddir/build/BUILD + rm -rf MorphIO-3.3.3 MorphIO-3.3.3.gemspec + RPM_EC=0 ++ jobs -p + exit 0 Child return code was: 0