* Package: sci-chemistry/votca-2022.1:0 * Repository: gentoo * Maintainer: sci-chemistry@gentoo.org * USE: abi_x86_64 amd64 elibc_musl gromacs kernel_linux python_single_target_python3_11 test * FEATURES: network-sandbox preserve-libs sandbox test userpriv usersandbox @@@@@ PLEASE PAY ATTENTION HERE!!! @@@@@ This information may help you to understand if this is a duplicate or if this bug exists after you pushed a fix; This ebuild was merged at the following commit: https://github.com/gentoo-mirror/gentoo/commit/fc29942b56930006d73f9b4d2fc4d9b25dd09164 (Wed Jun 7 13:02:12 UTC 2023) @@@@@ END @@@@@ ################## # emerge --info: # ################## Portage 3.0.48.1 (python 3.11.3-final-0, default/linux/amd64/17.0/musl/hardened, gcc-13, musl-1.2.4, 6.1.27-gentoo-dist x86_64) ================================================================= System uname: Linux-6.1.27-gentoo-dist-x86_64-AMD_EPYC_7513_32-Core_Processor-with-libc KiB Mem: 263516592 total, 62496588 free KiB Swap: 0 total, 0 free Timestamp of repository gentoo: Wed, 07 Jun 2023 13:02:11 +0000 sh bash 5.2_p15-r3 ld GNU ld (Gentoo 2.40 p5) 2.40.0 app-misc/pax-utils: 1.3.7::gentoo app-shells/bash: 5.2_p15-r3::gentoo dev-lang/perl: 5.36.1-r2::gentoo dev-lang/python: 3.10.12::gentoo, 3.11.3::gentoo, 3.12.0_beta2::gentoo dev-util/cmake: 3.26.4-r1::gentoo dev-util/meson: 1.1.1::gentoo sys-apps/baselayout: 2.13-r1::gentoo sys-apps/openrc: 0.47.1::gentoo sys-apps/sandbox: 2.30-r1::gentoo sys-devel/autoconf: 2.71-r6::gentoo sys-devel/automake: 1.16.5-r1::gentoo sys-devel/binutils: 2.40-r5::gentoo sys-devel/binutils-config: 5.5::gentoo sys-devel/gcc: 13.1.1_p20230527::gentoo sys-devel/gcc-config: 2.11::gentoo sys-devel/libtool: 2.4.7-r1::gentoo sys-devel/make: 4.4.1-r1::gentoo sys-kernel/linux-headers: 6.3::gentoo (virtual/os-headers) sys-libs/musl: 1.2.4::gentoo Repositories: gentoo location: /usr/portage sync-type: rsync sync-uri: rsync://rsync.gentoo.org/gentoo-portage priority: -1000 volatile: True sync-rsync-verify-jobs: 1 sync-rsync-extra-opts: sync-rsync-verify-metamanifest: yes sync-rsync-verify-max-age: 24 ACCEPT_KEYWORDS="amd64 ~amd64" ACCEPT_LICENSE="* Apache-2.0" CBUILD="x86_64-gentoo-linux-musl" CFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" CHOST="x86_64-gentoo-linux-musl" CONFIG_PROTECT="/etc /usr/share/gnupg/qualified.txt" CONFIG_PROTECT_MASK="/etc/ca-certificates.conf /etc/env.d /etc/fonts/fonts.conf /etc/gconf /etc/gentoo-release /etc/revdep-rebuild /etc/sandbox.d /etc/terminfo" CXXFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" DISTDIR="/var/tmp/portage/sci-chemistry/votca-2022.1/distdir" EMERGE_DEFAULT_OPTS="--with-bdeps=y -1 -k -b --backtrack=100" ENV_UNSET="CARGO_HOME DBUS_SESSION_BUS_ADDRESS DISPLAY GDK_PIXBUF_MODULE_FILE GOBIN GOPATH PERL5LIB PERL5OPT PERLPREFIX PERL_CORE PERL_MB_OPT PERL_MM_OPT XAUTHORITY XDG_CACHE_HOME XDG_CONFIG_HOME XDG_DATA_HOME XDG_RUNTIME_DIR XDG_STATE_HOME" FCFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" FEATURES="assume-digests binpkg-docompress binpkg-dostrip binpkg-logs binpkg-multi-instance buildpkg buildpkg-live config-protect-if-modified distlocks ebuild-locks fixlafiles ipc-sandbox merge-sync network-sandbox news parallel-fetch pid-sandbox preserve-libs protect-owned qa-unresolved-soname-deps sandbox sfperms sign split-log strict test unknown-features-warn unmerge-logs unmerge-orphans userfetch userpriv usersandbox usersync xattr" FFLAGS="-O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0" GENTOO_MIRRORS="http://mirror.leaseweb.com/gentoo/ http://ftp.snt.utwente.nl/pub/os/linux/gentoo/ http://ftp.belnet.be/pub/rsync.gentoo.org/gentoo/ http://distfiles.gentoo.org" INSTALL_MASK="charset.alias /usr/share/locale/locale.alias" LANG="C.UTF8" LDFLAGS="-Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0" LEX="flex" MAKEOPTS="-j16" PKGDIR="/root/tbci/binpkg" PORTAGE_CONFIGROOT="/" PORTAGE_RSYNC_OPTS="--recursive --links --safe-links --perms --times --omit-dir-times --compress --force --whole-file --delete --stats --human-readable --timeout=180 --exclude=/distfiles --exclude=/local --exclude=/packages --exclude=/.git" PORTAGE_TMPDIR="/var/tmp" SHELL="/bin/bash" USE="acl amd64 bzip2 cet cli crypt debug dri elogind fortran gromacs hardened iconv ipv6 jumbo-build libtirpc native-symlinks ncurses nls nptl openmp pam pcre pie readline seccomp split-usr ssl ssp test test-rust unicode xattr xtpax zlib" ABI_X86="64" ELIBC="musl" KERNEL="linux" PYTHON_SINGLE_TARGET="python3_11" Unset: ADDR2LINE, AR, ARFLAGS, AS, ASFLAGS, CC, CCLD, CONFIG_SHELL, CPP, CPPFLAGS, CTARGET, CXX, CXXFILT, ELFEDIT, EXTRA_ECONF, F77FLAGS, FC, GCOV, GPROF, LC_ALL, LD, LFLAGS, LIBTOOL, LINGUAS, MAKE, MAKEFLAGS, NM, OBJCOPY, OBJDUMP, PORTAGE_BINHOST, PORTAGE_BUNZIP2_COMMAND, PORTAGE_COMPRESS, PORTAGE_COMPRESS_FLAGS, PORTAGE_RSYNC_EXTRA_OPTS, RANLIB, READELF, RUSTFLAGS, SIZE, STRINGS, STRIP, YACC, YFLAGS ############################## # emerge history (qlop -mv): # ############################## 2023-06-07T11:11:48 >>> sys-apps/hwdata-0.371 2023-06-07T11:11:51 >>> dev-util/b2-4.9.6 2023-06-07T11:11:54 >>> virtual/fortran-0-r1 2023-06-07T11:12:00 >>> sci-libs/lmfit-9.0-r1 2023-06-07T11:11:57 >>> dev-cpp/eigen-3.4.0-r1 2023-06-07T11:12:03 >>> dev-cpp/muParser-2.3.4-r1 2023-06-07T11:12:06 >>> sci-libs/fftw-3.3.10 2023-06-07T11:12:09 >>> x11-libs/libpciaccess-0.17-r1 2023-06-07T11:12:12 >>> dev-libs/boost-1.82.0-r1 2023-06-07T11:12:15 >>> sys-apps/pciutils-3.10.0 2023-06-07T11:12:57 >>> sys-apps/hwloc-2.9.1 2023-06-07T11:13:07 >>> sci-chemistry/gromacs-2023.1 2023-06-07T11:12:21 >>> sci-libs/libxc-5.1.7 2023-06-07T11:12:18 >>> sci-libs/hdf5-1.14.1 2023-06-07T11:12:54 >>> sci-libs/libint-2.6.0-r5 2023-06-07T13:08:37 >>> sci-chemistry/votca-2022.1 ####################################### # installed packages (qlist -ICvUSS): # ####################################### acct-group/audio-0-r1:0 acct-group/cdrom-0-r1:0 acct-group/dialout-0-r1:0 acct-group/disk-0-r1:0 acct-group/floppy-0:0 acct-group/input-0-r1:0 acct-group/kmem-0-r1:0 acct-group/kvm-0-r1:0 acct-group/lp-0-r1:0 acct-group/man-0-r1:0 acct-group/messagebus-0-r1:0 acct-group/portage-0:0 acct-group/render-0-r1:0 acct-group/root-0:0 acct-group/sgx-0:0 acct-group/sshd-0-r1:0 acct-group/tape-0-r1:0 acct-group/tty-0-r1:0 acct-group/usb-0-r1:0 acct-group/video-0-r1:0 acct-user/man-1-r1:0 acct-user/messagebus-0-r1:0 acct-user/portage-0:0 acct-user/sshd-0-r1:0 app-admin/eselect-1.4.24:0 -doc -emacs -vim-syntax app-admin/perl-cleaner-2.30-r1:0 -pkgcore app-alternatives/awk-4:0 -busybox gawk -mawk -nawk split-usr app-alternatives/bc-0:0 -gh gnu app-alternatives/bzip2-1:0 -lbzip2 -pbzip2 reference split-usr app-alternatives/cpio-0:0 gnu -libarchive split-usr app-alternatives/gzip-0:0 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virtual/perl-CPAN-2.330.0:0 virtual/perl-Data-Dumper-2.184.0:0 virtual/perl-Encode-3.170.0:0 virtual/perl-Exporter-5.770.0-r1:0 virtual/perl-ExtUtils-MakeMaker-7.640.0:0 virtual/perl-File-Path-2.180.0-r2:0 virtual/perl-File-Spec-3.840.0:0 virtual/perl-File-Temp-0.231.100:0 virtual/perl-Getopt-Long-2.520.0-r1:0 virtual/perl-libnet-3.140.0:0 ssl virtual/perl-MIME-Base64-3.160.0-r1:0 virtual/perl-parent-0.238.0-r2:0 virtual/perl-Scalar-List-Utils-1.620.0:0 virtual/perl-Test-Harness-3.440.0-r1:0 virtual/pkgconfig-2-r1:0 virtual/service-manager-1-r1:0 virtual/ssh-0-r2:0 -minimal virtual/tmpfiles-0-r3:0 virtual/ttf-fonts-1-r2:0 virtual/udev-217-r5:0 virtual/w3m-1:0 www-client/pybugz-0.13-r2:0 python_targets_python3_10 python_targets_python3_11 www-client/w3m-0.5.3_p20230121:0 -X -fbcon -gdk-pixbuf -gpm -imlib l10n_ja -lynxkeymap nls -nntp ssl unicode -xface x11-apps/xprop-1.2.6:0 x11-apps/xset-1.2.5:0 x11-base/xcb-proto-1.15.2:0 python_targets_python3_10 python_targets_python3_11 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-abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -doc -selinux -test xkb x11-libs/libXdmcp-1.1.4-r2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc x11-libs/libXext-1.3.5:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc x11-libs/libXmu-1.1.4:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc x11-libs/libXt-1.3.0:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -doc -test x11-libs/pixman-0.42.2:0 -abi_mips_n32 -abi_mips_n64 -abi_mips_o32 -abi_s390_32 -abi_s390_64 -abi_x86_32 abi_x86_64 -abi_x86_x32 -cpu_flags_arm_iwmmxt -cpu_flags_arm_iwmmxt2 -cpu_flags_arm_neon -cpu_flags_ppc_altivec cpu_flags_x86_mmxext cpu_flags_x86_sse2 cpu_flags_x86_ssse3 -loongson2f -static-libs -test x11-libs/xtrans-1.5.0:0 -doc x11-misc/compose-tables-1.8.5:0 x11-misc/shared-mime-info-2.2:0 -test x11-misc/xdg-utils-1.1.3_p20210805-r1:0 -dbus -doc -gnome ####################### # build.log # ####################### * Using python3.11 to build >>> Unpacking source... >>> Unpacking votca-2022.1.tar.gz to /var/tmp/portage/sci-chemistry/votca-2022.1/work >>> Source unpacked in /var/tmp/portage/sci-chemistry/votca-2022.1/work >>> Preparing source in /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1 ... * Fixing shebang in ./xtp/share/benchmark/xtp_benchmark.in. * Fixing shebang in ./xtp/scripts/xtp_update_mapfile.in. * Fixing shebang in ./xtp/scripts/xtp_qmmm2qm.in. * Fixing shebang in ./xtp/scripts/xtp_modify_jobfile.in. * Fixing shebang in ./xtp/scripts/xtp_basisset.in. * Fixing shebang in ./xtp/scripts/xtp_autogen_mapping.in. * Fixing shebang in ./xtp-tutorials/GROMACS/KMC_Methane/change_energy.py. * Fixing shebang in ./tools/scripts/votca_help2doc.in. * Fixing shebang in ./tools/scripts/votca_compare.in. * Fixing shebang in ./share/doc/extract_xml_metadata.py. * Fixing shebang in ./csg/share/scripts/inverse/table_smooth_at_cut_off.py. * Fixing shebang in ./csg/share/scripts/inverse/iie.py. * Fixing shebang in ./csg/share/scripts/inverse/cma_processor.py. * Fixing shebang in ./csg-tutorials/spce/ibi_hoomd-blue/spce.py. * Fixing shebang in ./csg-tutorials/spce/ibi_espresso/spce.py. * Fixing shebang in ./csg-tutorials/LJ1-LJ2/imc/svd.py. * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build" * Hardcoded definition(s) removed in CMakeLists.txt: * set(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build, option * Hardcoded definition(s) removed in xtp/CMakeLists.txt: * set(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build, option * Hardcoded definition(s) removed in tools/CMakeLists.txt: * set(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build, option * Hardcoded definition(s) removed in csg/CMakeLists.txt: * set(CMAKE_BUILD_TYPE Release CACHE STRING "Choose the type of build, option >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1 ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build" cmake -C /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/gentoo_common_config.cmake -G Ninja -DCMAKE_INSTALL_PREFIX=/usr -DENABLE_TESTING=yes -DCMAKE_DISABLE_FIND_PACKAGE_GROMACS=no -DBUILD_CSGAPPS=ON -DINSTALL_RC_FILES=OFF -DCMAKE_DISABLE_FIND_PACKAGE_MKL=ON -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/gentoo_toolchain.cmake /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1 loading initial cache file /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/gentoo_common_config.cmake -- The CXX compiler identification is GNU 13.1.1 -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Check for working CXX compiler: /usr/bin/x86_64-gentoo-linux-musl-g++ - skipped -- Detecting CXX compile features -- Detecting CXX compile features - done -- Performing Test COMPILER_SUPPORTS-Wall -- Performing Test COMPILER_SUPPORTS-Wall - Success -- Performing Test COMPILER_SUPPORTS-Wextra -- Performing Test COMPILER_SUPPORTS-Wextra - Success -- Performing Test COMPILER_SUPPORTS-Wpedantic -- Performing Test COMPILER_SUPPORTS-Wpedantic - Success -- Performing Test COMPILER_SUPPORTS-Wshadow -- Performing Test COMPILER_SUPPORTS-Wshadow - Success -- Performing Test COMPILER_SUPPORTS-Wconversion -- Performing Test COMPILER_SUPPORTS-Wconversion - Success -- Performing Test COMPILER_SUPPORTS_march_native -- Performing Test COMPILER_SUPPORTS_march_native - Success -- Performing Test CMAKE_HAVE_LIBC_PTHREAD -- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success -- Found Threads: TRUE -- Found Boost: /usr/lib/cmake/Boost-1.82.0/BoostConfig.cmake (found suitable version "1.82.0", minimum required is "1.71.0") found components: program_options filesystem system -- Found Python: /usr/bin/python3.12 (found suitable version "3.12.0", minimum required is "3") found components: Interpreter -- Found OpenMP_CXX: -fopenmp (found suitable version "4.5", minimum required is "4.5") -- Found OpenMP: TRUE (found suitable version "4.5", minimum required is "4.5") -- Found Eigen3: /usr/share/eigen3/cmake -- Found PkgConfig: /usr/bin/x86_64-gentoo-linux-musl-pkg-config (found version "1.8.1") -- Checking for module 'fftw3' -- Found fftw3, version 3.3.10 -- Found FFTW3: /usr/lib/libfftw3.so -- Looking for C++ include cassert -- Looking for C++ include cassert - found -- Looking for C++ include cmath -- Looking for C++ include cmath - found -- Looking for C++ include fstream -- Looking for C++ include fstream - found -- Looking for C++ include functional -- Looking for C++ include functional - found -- Looking for C++ include iostream -- Looking for C++ include iostream - found -- Looking for C++ include limits -- Looking for C++ include limits - found -- Looking for C++ include list -- Looking for C++ include list - found -- Looking for C++ include map -- Looking for C++ include map - found -- Looking for C++ include ostream -- Looking for C++ include ostream - found -- Looking for C++ include sstream -- Looking for C++ include sstream - found -- Looking for C++ include stack -- Looking for C++ include stack - found -- Looking for C++ include stdexcept -- Looking for C++ include stdexcept - found -- Looking for C++ include string -- Looking for C++ include string - found -- Looking for C++ include vector -- Looking for C++ include vector - found -- Found EXPAT: /usr/lib/libexpat.so (found version "2.5.0") -- Found Boost: /usr/lib/cmake/Boost-1.82.0/BoostConfig.cmake (found suitable version "1.82.0", minimum required is "1.71.0") found components: unit_test_framework -- Found Python: /usr/bin/python3.12 (found suitable version "3.12.0", minimum required is "3.5") found components: Interpreter -- Found Boost: /usr/lib/cmake/Boost-1.82.0/BoostConfig.cmake (found suitable version "1.82.0", minimum required is "1.71.0") found components: program_options filesystem system regex -- Found Eigen3: /usr/share/eigen3/cmake -- Found VOTCA_TOOLS: CMake Warning at csg/CMakeLists.txt:83 (message): Gromacs-2020 and above have no support for tabulated interactions, that are needed for coarse-graining (see and comment on https://gitlab.com/gromacs/gromacs/-/issues/1347) -- Found GMX: /usr/bin/gmx -- Found UnixCommands: /bin/bash -- Looking for C++ include algorithm -- Looking for C++ include algorithm - found -- Looking for C++ include iomanip -- Looking for C++ include iomanip - found -- Looking for C++ include numeric -- Looking for C++ include numeric - found -- Looking for C++ include cstdlib -- Looking for C++ include cstdlib - found -- Found HDF5: /usr/lib/libhdf5_cpp.so;/usr/lib/libhdf5.so;/usr/lib/libz.so;/usr/lib/libdl.a;/usr/lib/libm.a (found version "1.14.1") found components: CXX -- Found Boost: /usr/lib/cmake/Boost-1.82.0/BoostConfig.cmake (found suitable version "1.82.0", minimum required is "1.71.0") found components: unit_test_framework -- Could NOT find LMP (missing: LMP_EXECUTABLE) -- Found Python: /usr/bin/python3.12 (found suitable version "3.12.0", minimum required is "3") found components: Interpreter Traceback (most recent call last): File "", line 1, in ModuleNotFoundError: No module named 'pytest' -- Could NOT find Doxygen (missing: DOXYGEN_EXECUTABLE) -- Could NOT find SPHINX (missing: SPHINX_EXECUTABLE) -- Could NOT find CLANG_FORMAT: Found unsuitable version "0.0", but required is at least "11" (found CLANG_FORMAT_EXECUTABLE-NOTFOUND) -- The following features have been enabled: * ENABLE_TESTING, Enable unit tests * INJECT_MARCH_NATIVE, Add -march=native to CXX flags * BUILD_MANPAGES, Build manpages (disable for cross-compile) * BUILD_CSGAPPS, Install extra app using csg -- The following OPTIONAL packages have been found: * UnixCommands Used in testing -- The following RECOMMENDED packages have been found: * FFTW3 Enables FFT functionality * PkgConfig Used to detect fftw package * GROMACS (required version >= 2021) Used to read/write gromacs data files * HDF5 Used to read h5md data files -- The following REQUIRED packages have been found: * EXPAT Used for XML parsing * boost_program_options (required version == 1.82.0) * boost_atomic (required version == 1.82.0) * boost_filesystem (required version == 1.82.0) * boost_system (required version == 1.82.0) * boost_regex (required version == 1.82.0) * Eigen3 (required version >= 3.3.0) C++ vector data structures * Threads Used for thread parallelization * OpenMP Used for thread parallelization in tools * boost_headers (required version == 1.82.0) * boost_unit_test_framework (required version == 1.82.0) * Boost (required version >= 1.71.0) Extended C++ libraries * Python (required version >= 3) Used to build documentation files Used for csg scripts Used to build documentation files -- The following features have been disabled: * BUILD_XTP, Build xtp module * ENABLE_RPATH_INJECT, Inject rpath into executables * BUILD_OWN_GROMACS, Build an internal version of gromacs * BUILD_OWN_LIBINT, Build an internal version of libint * INSTALL_RC_FILES, Install votca rc files (VOTCARC.bash etc.) * ENABLE_VALGRIND_TESTING, Run unit tests through valgrind, too * ENABLE_REGRESSION_TESTING, Enable regression tests -- The following OPTIONAL packages have not been found: * Doxygen Needed to build API documentation * CLANG_FORMAT (required version >= 11) -- <<< Gentoo configuration >>> Build type Gentoo Install path /usr Compiler flags: C C++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native Linker flags: Executable -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 Module -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 Shared -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 -- Configuring done (9.3s) -- Generating done (0.4s) -- Build files have been written to: /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build >>> Source configured. >>> Compiling source in /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1 ... * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build" ninja -v -j16 -l0 [1/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg && /usr/bin/cmake -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" -DGIT_EXECUTABLE="" -P /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/CMakeModules/gitversion.cmake [2/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools && /usr/bin/cmake -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" -DGIT_EXECUTABLE="" -P /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/CMakeModules/gitversion.cmake [3/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts && /usr/bin/cmake -DINPUT="csg_inverse.in2" -DOUTPUT="csg_inverse" -DGIT_EXECUTABLE="" -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" -P /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/CMakeModules/gitscript.cmake [4/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts && /usr/bin/cmake -DINPUT="votca_compare.tmp.out" -DOUTPUT="votca_compare" -DGIT_EXECUTABLE="" -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" -P /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/CMakeModules/gitscript.cmake [5/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts && /usr/bin/cmake -DINPUT="votca_help2doc.tmp.out" -DOUTPUT="votca_help2doc" -DGIT_EXECUTABLE="" -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" -P /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/CMakeModules/gitscript.cmake [6/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts && /usr/bin/cmake -DINPUT="csg_call.in2" -DOUTPUT="csg_call" -DGIT_EXECUTABLE="" -DTOP_SOURCE_DIR="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" -P /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/CMakeModules/gitscript.cmake [7/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -Dvotca_tools_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fPIC -fopenmp -MD -MT tools/src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o -MF tools/src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o.d -o tools/src/libtools/CMakeFiles/votca_tools.dir/colors.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/src/libtools/colors.cc [8/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_compare --format groff --out votca_compare.man [9/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --format groff --out votca_help2doc.man [10/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB 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-I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fPIC -fopenmp -MD -MT csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytrajectorywriter.cc.o -MF csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytrajectorywriter.cc.o.d -o csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytrajectorywriter.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc: In member function 'virtual void votca::csg::DLPOLYTrajectoryWriter::Open(std::string, bool)': /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc:46:35: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 46 | if (boost::filesystem::extension(filepath).size() == 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc:23: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc:51:42: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 51 | } else if (boost::filesystem::extension(filepath) == ".dlpc") { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc:56:42: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 56 | } else if (boost::filesystem::extension(filepath) == ".dlph") { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectorywriter.cc:65:34: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] 65 | if (boost::filesystem::basename(filepath).size() == 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here 35 | inline std::string basename(const path& p) | ^~~~~~~~ [160/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DGMX_DOUBLE=0 -DTMPI_USE_VISIBILITY -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fPIC -fopenmp -MD -MT csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytrajectoryreader.cc.o -MF csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytrajectoryreader.cc.o.d -o csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytrajectoryreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc: In member function 'virtual bool votca::csg::DLPOLYTrajectoryReader::Open(const std::string&)': /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc:50:35: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 50 | if (boost::filesystem::extension(filepath).size() == 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc:24: /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc:56:42: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 56 | } else if (boost::filesystem::extension(filepath) == ".dlpc") { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc:61:42: warning: 'std::string boost::filesystem::extension(const path&)' is deprecated: Use path::extension() instead [-Wdeprecated-declarations] 61 | } else if (boost::filesystem::extension(filepath) == ".dlph") { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ /usr/include/boost/filesystem/convenience.hpp:29:20: note: declared here 29 | inline std::string extension(const path& p) | ^~~~~~~~~ /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytrajectoryreader.cc:70:34: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] 70 | if (boost::filesystem::basename(filepath).size() == 0) { | 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-I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fPIC -fopenmp -MD -MT csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/lammpsdumpreader.cc.o -MF csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/lammpsdumpreader.cc.o.d -o csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/lammpsdumpreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/lammpsdumpreader.cc [163/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_ATOMIC_DYN_LINK -DBOOST_ATOMIC_NO_LIB -DBOOST_FILESYSTEM_DYN_LINK -DBOOST_FILESYSTEM_NO_LIB -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_REGEX_DYN_LINK -DBOOST_REGEX_NO_LIB -DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DGMX_DOUBLE=0 -DTMPI_USE_VISIBILITY -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fPIC -fopenmp -MD -MT csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytopologyreader.cc.o -MF csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytopologyreader.cc.o.d -o csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/dlpolytopologyreader.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytopologyreader.cc /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytopologyreader.cc: In member function 'virtual bool votca::csg::DLPOLYTopologyReader::ReadTopology(std::string, votca::csg::Topology&)': /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytopologyreader.cc:159:34: warning: 'std::string boost::filesystem::basename(const path&)' is deprecated: Use path::stem() instead [-Wdeprecated-declarations] 159 | if (boost::filesystem::basename(filepath).size() == 0) { | ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~ In file included from /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/libcsg/modules/io/dlpolytopologyreader.cc:25: /usr/include/boost/filesystem/convenience.hpp:35:20: note: declared here 35 | inline 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-DBOOST_SYSTEM_DYN_LINK -DBOOST_SYSTEM_NO_LIB -DGMX_DOUBLE=0 -DTMPI_USE_VISIBILITY -Dvotca_csg_EXPORTS -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fPIC -fopenmp -MD -MT csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/xyzreader.cc.o -MF csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/xyzreader.cc.o.d -o csg/src/libcsg/CMakeFiles/votca_csg.dir/modules/io/xyzreader.cc.o -c 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-I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tools/CMakeFiles/csg_fmatch.dir/csg_fmatch.cc.o -MF csg/src/tools/CMakeFiles/csg_fmatch.dir/csg_fmatch.cc.o.d -o csg/src/tools/CMakeFiles/csg_fmatch.dir/csg_fmatch.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tools/csg_fmatch.cc [220/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tools/CMakeFiles/csg_fmatch.dir/csg_fmatch.cc.o -o 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-I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tools/CMakeFiles/csg_imc_solve.dir/csg_imc_solve.cc.o -MF csg/src/tools/CMakeFiles/csg_imc_solve.dir/csg_imc_solve.cc.o.d -o csg/src/tools/CMakeFiles/csg_imc_solve.dir/csg_imc_solve.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tools/csg_imc_solve.cc [223/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tools/CMakeFiles/csg_imc_solve.dir/csg_imc_solve.cc.o -o csg/src/tools/csg_imc_solve -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools: csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [224/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/tools && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/tools/csg_imc_solve --format groff --out csg_imc_solve.man [225/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_beadtriple.dir/test_beadtriple.cc.o -MF csg/src/tests/CMakeFiles/unit_test_beadtriple.dir/test_beadtriple.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_beadtriple.dir/test_beadtriple.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_beadtriple.cc [226/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_beadmotif_base.dir/test_beadmotif_base.cc.o -MF csg/src/tests/CMakeFiles/unit_test_beadmotif_base.dir/test_beadmotif_base.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_beadmotif_base.dir/test_beadmotif_base.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_beadmotif_base.cc [227/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_beadtriple.dir/test_beadtriple.cc.o -o csg/src/tests/unit_test_beadtriple -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [228/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_basebead.dir/test_basebead.cc.o -MF csg/src/tests/CMakeFiles/unit_test_basebead.dir/test_basebead.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_basebead.dir/test_basebead.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_basebead.cc [229/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_beadmotif_base.dir/test_beadmotif_base.cc.o -o csg/src/tests/unit_test_beadmotif_base -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [230/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_basebead.dir/test_basebead.cc.o -o csg/src/tests/unit_test_basebead -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [231/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/partial_rdf.cc.o -MF csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/partial_rdf.cc.o.d -o csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/partial_rdf.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/csgapps/partial_rdf/partial_rdf.cc [232/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/csgapps/CMakeFiles/radii.dir/radii/radii.cc.o -MF csg/src/csgapps/CMakeFiles/radii.dir/radii/radii.cc.o.d -o csg/src/csgapps/CMakeFiles/radii.dir/radii/radii.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/csgapps/radii/radii.cc [233/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/csgapps/CMakeFiles/radii.dir/radii/radii.cc.o -o csg/src/csgapps/radii/csg_radii -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools: csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [234/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/csgapps && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name radii/csg_radii --format groff --out radii.man [235/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_bead.dir/test_bead.cc.o -MF csg/src/tests/CMakeFiles/unit_test_bead.dir/test_bead.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_bead.dir/test_bead.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_bead.cc [236/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_bead.dir/test_bead.cc.o -o csg/src/tests/unit_test_bead -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [237/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/csgapps/CMakeFiles/sphericalorder.dir/sphericalorder/sphericalorder.cc.o -MF csg/src/csgapps/CMakeFiles/sphericalorder.dir/sphericalorder/sphericalorder.cc.o.d -o csg/src/csgapps/CMakeFiles/sphericalorder.dir/sphericalorder/sphericalorder.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/csgapps/sphericalorder/sphericalorder.cc [238/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/csgapps/CMakeFiles/sphericalorder.dir/sphericalorder/sphericalorder.cc.o -o csg/src/csgapps/sphericalorder/csg_sphericalorder -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools: csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [239/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/rdf_calculator.cc.o -MF csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/rdf_calculator.cc.o.d -o csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/rdf_calculator.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/csgapps/partial_rdf/rdf_calculator.cc [240/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/csgapps && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name sphericalorder/csg_sphericalorder --format groff --out sphericalorder.man [241/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/csgapps/CMakeFiles/traj_force.dir/traj_force/traj_force.cc.o -MF csg/src/csgapps/CMakeFiles/traj_force.dir/traj_force/traj_force.cc.o.d -o csg/src/csgapps/CMakeFiles/traj_force.dir/traj_force/traj_force.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/csgapps/traj_force/traj_force.cc [242/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/partial_rdf.cc.o csg/src/csgapps/CMakeFiles/partial_rdf.dir/partial_rdf/rdf_calculator.cc.o -o csg/src/csgapps/partial_rdf/csg_partial_rdf -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools: csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [243/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/csgapps && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name partial_rdf/csg_partial_rdf --format groff --out partial_rdf.man [244/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/csgapps/CMakeFiles/traj_force.dir/traj_force/traj_force.cc.o -o csg/src/csgapps/traj_force/csg_traj_force -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools: csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [245/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/csgapps && /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name traj_force/csg_traj_force --format groff --out traj_force.man [246/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts && /usr/bin/cmake -E env VOTCASHARE="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/share" PATH="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/tools:/var/tmp/portage/sci-chemistry/votca-2022.1/temp/python3.11/bin:/usr/lib/portage/python3.11/ebuild-helpers/xattr:/usr/lib/portage/python3.11/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin" VOTCA_CSG_DEFAULTS="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/share/xml/csg_defaults.xml" /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts/csg_call --format groff --out csg_call.man [247/281] cd /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts && /usr/bin/cmake -E env VOTCASHARE="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/share" PATH="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/tools:/var/tmp/portage/sci-chemistry/votca-2022.1/temp/python3.11/bin:/usr/lib/portage/python3.11/ebuild-helpers/xattr:/usr/lib/portage/python3.11/ebuild-helpers:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/bin" VOTCA_CSG_DEFAULTS="/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/share/xml/csg_defaults.xml" /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/scripts/votca_help2doc --name /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/scripts/csg_inverse --format groff --out csg_inverse.man [248/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_beadmotif_connector.dir/test_beadmotif_connector.cc.o -MF csg/src/tests/CMakeFiles/unit_test_beadmotif_connector.dir/test_beadmotif_connector.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_beadmotif_connector.dir/test_beadmotif_connector.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_beadmotif_connector.cc [249/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_beadmotif_connector.dir/test_beadmotif_connector.cc.o -o csg/src/tests/unit_test_beadmotif_connector -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [250/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_beadmotif_algorithms.dir/test_beadmotif_algorithms.cc.o -MF csg/src/tests/CMakeFiles/unit_test_beadmotif_algorithms.dir/test_beadmotif_algorithms.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_beadmotif_algorithms.dir/test_beadmotif_algorithms.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_beadmotif_algorithms.cc [251/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_beadmotif_algorithms.dir/test_beadmotif_algorithms.cc.o -o csg/src/tests/unit_test_beadmotif_algorithms -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [252/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_beadstructure_algorithms.dir/test_beadstructure_algorithms.cc.o -MF csg/src/tests/CMakeFiles/unit_test_beadstructure_algorithms.dir/test_beadstructure_algorithms.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_beadstructure_algorithms.dir/test_beadstructure_algorithms.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_beadstructure_algorithms.cc [253/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_beadstructure_algorithms.dir/test_beadstructure_algorithms.cc.o -o csg/src/tests/unit_test_beadstructure_algorithms -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [254/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_beadstructure_base.dir/test_beadstructure_base.cc.o -MF csg/src/tests/CMakeFiles/unit_test_beadstructure_base.dir/test_beadstructure_base.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_beadstructure_base.dir/test_beadstructure_base.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_beadstructure_base.cc [255/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_beadstructure_base.dir/test_beadstructure_base.cc.o -o csg/src/tests/unit_test_beadstructure_base -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [256/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_boundarycondition.dir/test_boundarycondition.cc.o -MF csg/src/tests/CMakeFiles/unit_test_boundarycondition.dir/test_boundarycondition.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_boundarycondition.dir/test_boundarycondition.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_boundarycondition.cc [257/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_bondedstatistics.dir/test_bondedstatistics.cc.o -MF csg/src/tests/CMakeFiles/unit_test_bondedstatistics.dir/test_bondedstatistics.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_bondedstatistics.dir/test_bondedstatistics.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_bondedstatistics.cc [258/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_boundarycondition.dir/test_boundarycondition.cc.o -o csg/src/tests/unit_test_boundarycondition -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so 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-DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_lammpsdumpreaderwriter.dir/test_lammpsdumpreaderwriter.cc.o -MF csg/src/tests/CMakeFiles/unit_test_lammpsdumpreaderwriter.dir/test_lammpsdumpreaderwriter.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_lammpsdumpreaderwriter.dir/test_lammpsdumpreaderwriter.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_lammpsdumpreaderwriter.cc [273/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_lammpsdumpreaderwriter.dir/test_lammpsdumpreaderwriter.cc.o -o csg/src/tests/unit_test_lammpsdumpreaderwriter -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [274/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/share/template/CMakeFiles/template_serial.dir/template_serial.cc.o -MF csg/share/template/CMakeFiles/template_serial.dir/template_serial.cc.o.d -o csg/share/template/CMakeFiles/template_serial.dir/template_serial.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/share/template/template_serial.cc [275/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_triplelist.dir/test_triplelist.cc.o -MF csg/src/tests/CMakeFiles/unit_test_triplelist.dir/test_triplelist.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_triplelist.dir/test_triplelist.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_triplelist.cc [276/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/share/template/CMakeFiles/template_serial.dir/template_serial.cc.o -o csg/share/template/template_serial -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [277/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/tests/CMakeFiles/unit_test_triplelist.dir/test_triplelist.cc.o -o csg/src/tests/unit_test_triplelist -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [278/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/share/template/CMakeFiles/template_threaded.dir/template_threaded.cc.o -MF csg/share/template/CMakeFiles/template_threaded.dir/template_threaded.cc.o.d -o csg/share/template/CMakeFiles/template_threaded.dir/template_threaded.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/share/template/template_threaded.cc [279/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/share/template/CMakeFiles/template_threaded.dir/template_threaded.cc.o -o csg/share/template/template_threaded -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : [280/281] /usr/bin/x86_64-gentoo-linux-musl-g++ -DBOOST_PROGRAM_OPTIONS_DYN_LINK -DBOOST_PROGRAM_OPTIONS_NO_LIB -DBOOST_TEST_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_DYN_LINK -DBOOST_UNIT_TEST_FRAMEWORK_NO_LIB -DCSG_TEST_DATA_FOLDER=\"/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/DataFiles\" -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include -I/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/include/votca/tools -isystem /usr/include/eigen3 -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -std=c++17 -fopenmp -MD -MT csg/src/tests/CMakeFiles/unit_test_tabulatedpotential.dir/test_tabulatedpotential.cc.o -MF csg/src/tests/CMakeFiles/unit_test_tabulatedpotential.dir/test_tabulatedpotential.cc.o.d -o csg/src/tests/CMakeFiles/unit_test_tabulatedpotential.dir/test_tabulatedpotential.cc.o -c /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1/csg/src/tests/test_tabulatedpotential.cc [281/281] : && /usr/bin/x86_64-gentoo-linux-musl-g++ -O2 -march=x86-64 -pipe -pipe -frecord-gcc-switches -fno-diagnostics-color -fmessage-length=0 -Wall -Wextra -Wpedantic -Wshadow -Wconversion -march=native -Wl,-O1 -Wl,--as-needed -Wl,--defsym=__gentoo_check_ldflags__=0 csg/src/csg_boltzmann/CMakeFiles/votca_csg_boltzmann.dir/bondedstatistics.cc.o csg/src/csg_boltzmann/CMakeFiles/votca_csg_boltzmann.dir/stdanalysis.cc.o csg/src/csg_boltzmann/CMakeFiles/votca_csg_boltzmann.dir/tabulatedpotential.cc.o csg/src/tests/CMakeFiles/unit_test_tabulatedpotential.dir/test_tabulatedpotential.cc.o -o csg/src/tests/unit_test_tabulatedpotential -Wl,-rpath,/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/csg/src/libcsg:/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/tools/src/libtools csg/src/libcsg/libvotca_csg.so.2022 /usr/lib/libboost_unit_test_framework.so.1.82.0 tools/src/libtools/libvotca_tools.so.2022 /usr/lib/libboost_program_options.so.1.82.0 /usr/lib/libfftw3.so /usr/lib/gcc/x86_64-gentoo-linux-musl/13/libgomp.so /usr/lib/libpthread.a && : >>> Source compiled. >>> Test phase: sci-chemistry/votca-2022.1 * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1" * Build directory (BUILD_DIR): "/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build" ctest -j 16 --test-load 999 Test project /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build Start 103: integration_Run_gmx_grompp Start 55: integration_Run_gmx_grompp_re Start 123: integration_Run_gmx_grompp_ppy Start 126: integration_Run_gmx_grompp_mma Start 50: integration_Run_csg_reupdate Start 52: integration_Run_csg_reupdate2 Start 59: integration_Run_csg_fmatch Start 61: integration_Run_csg_fmatch_3body Start 65: integration_Run_csg_map Start 67: integration_Run_csg_map_gro Start 69: integration_Run_csg_stat Start 72: integration_Run_csg_stat_angular Start 74: integration_Run_csg_stat-imc Start 79: integration_Run_csg_imc_solve Start 81: integration_Run_csg_imc_solve_reg Start 85: integration_Run_csg_stat_imc_multi 1/157 Test #55: integration_Run_gmx_grompp_re ...................... Passed 0.03 sec Start 56: integration_Run_csg_reupdate_gmx 2/157 Test #123: integration_Run_gmx_grompp_ppy ..................... Passed 0.03 sec Start 89: integration_Run_csg_resample_akima 3/157 Test #126: integration_Run_gmx_grompp_mma ..................... Passed 0.03 sec Start 91: integration_Run_csg_resample_cubic 4/157 Test #50: integration_Run_csg_reupdate ....................... Passed 0.03 sec Start 93: integration_Run_csg_resample_linear 5/157 Test #52: integration_Run_csg_reupdate2 ...................... Passed 0.03 sec Start 95: integration_Run_csg_resample_cubicfit 6/157 Test #65: integration_Run_csg_map ............................ Passed 0.03 sec Start 97: integration_Run_csg_dump 7/157 Test #59: integration_Run_csg_fmatch ......................... Passed 0.04 sec Start 99: integration_Run_csg_dump_gro 8/157 Test #67: integration_Run_csg_map_gro ........................ Passed 0.03 sec Start 101: integration_Run_csg_dump_data 9/157 Test #79: integration_Run_csg_imc_solve ...................... Passed 0.03 sec Start 115: integration_Run_csg_property 10/157 Test #89: integration_Run_csg_resample_akima ................. Passed 0.02 sec Start 117: integration_Run_csg_property2 11/157 Test #74: integration_Run_csg_stat-imc ....................... Passed 0.03 sec Start 119: integration_Run_csg_property3 12/157 Test #56: integration_Run_csg_reupdate_gmx ................... Passed 0.03 sec Start 121: integration_Run_csg_property4 13/157 Test #91: integration_Run_csg_resample_cubic ................. Passed 0.02 sec Start 124: integration_Run_csg_boltzmann_ppy 14/157 Test #93: integration_Run_csg_resample_linear ................ Passed 0.02 sec Start 127: integration_Run_csg_boltzmann_mma 15/157 Test #95: integration_Run_csg_resample_cubicfit .............. Passed 0.02 sec Start 1: integration_votca_propertyHelp 16/157 Test #69: integration_Run_csg_stat ........................... Passed 0.05 sec Start 2: unit_test_calculator 17/157 Test #97: integration_Run_csg_dump ........................... Passed 0.03 sec Start 3: unit_test_constants 18/157 Test #99: integration_Run_csg_dump_gro ....................... Passed 0.04 sec Start 4: unit_test_correlate 19/157 Test #101: integration_Run_csg_dump_data ...................... Passed 0.05 sec Start 5: unit_test_crosscorrelate 20/157 Test #115: integration_Run_csg_property ....................... Passed 0.05 sec Start 6: unit_test_cubicspline 21/157 Test #117: integration_Run_csg_property2 ...................... Passed 0.06 sec Start 7: unit_test_datacollection 22/157 Test #121: integration_Run_csg_property4 ...................... Passed 0.06 sec Start 8: unit_test_edge_base 23/157 Test #1: integration_votca_propertyHelp ..................... Passed 0.05 sec Start 9: unit_test_edgecontainer 24/157 Test #124: integration_Run_csg_boltzmann_ppy .................. Passed 0.07 sec Start 10: unit_test_elements 25/157 Test #72: integration_Run_csg_stat_angular ................... Passed 0.12 sec Start 11: unit_test_filesystem 26/157 Test #127: integration_Run_csg_boltzmann_mma .................. Passed 0.10 sec Start 12: unit_test_floatingpointcomparison 27/157 Test #85: integration_Run_csg_stat_imc_multi ................. Passed 0.14 sec Start 13: unit_test_graphalgorithm 28/157 Test #119: integration_Run_csg_property3 ...................... Passed 0.12 sec Start 14: unit_test_graph_base 29/157 Test #2: unit_test_calculator ............................... Passed 0.10 sec Start 15: unit_test_graph_bf_visitor 30/157 Test #3: unit_test_constants ................................ Passed 0.10 sec Start 16: unit_test_graph_df_visitor 31/157 Test #4: unit_test_correlate ................................ Passed 0.09 sec Start 17: unit_test_graphdistvisitor 32/157 Test #5: unit_test_crosscorrelate ........................... Passed 0.08 sec Start 18: unit_test_graphnode 33/157 Test #7: unit_test_datacollection ........................... Passed 0.07 sec Start 19: unit_test_graphvisitor 34/157 Test #8: unit_test_edge_base ................................ Passed 0.07 sec Start 20: unit_test_histogramnew 35/157 Test #6: unit_test_cubicspline .............................. Passed 0.08 sec Start 21: unit_test_identity 36/157 Test #9: unit_test_edgecontainer ............................ Passed 0.07 sec Start 22: unit_test_linalg 37/157 Test #81: integration_Run_csg_imc_solve_reg .................. Passed 0.17 sec Start 23: unit_test_name 38/157 Test #10: unit_test_elements ................................. Passed 0.07 sec Start 24: unit_test_objectfactory 39/157 Test #11: unit_test_filesystem ............................... Passed 0.06 sec Start 25: unit_test_optionshandler 40/157 Test #12: unit_test_floatingpointcomparison .................. Passed 0.04 sec Start 26: unit_test_property 41/157 Test #13: unit_test_graphalgorithm ........................... Passed 0.04 sec Start 27: unit_test_reducededge 42/157 Test #14: unit_test_graph_base ............................... Passed 0.03 sec Start 28: unit_test_reducedgraph 43/157 Test #15: unit_test_graph_bf_visitor ......................... Passed 0.03 sec Start 29: unit_test_structureparameters 44/157 Test #16: unit_test_graph_df_visitor ......................... Passed 0.03 sec Start 30: unit_test_table 45/157 Test #17: unit_test_graphdistvisitor ......................... Passed 0.03 sec Start 31: unit_test_thread 46/157 Test #18: unit_test_graphnode ................................ Passed 0.03 sec Start 32: unit_test_tokenizer 47/157 Test #19: unit_test_graphvisitor ............................. Passed 0.03 sec Start 33: unit_test_random 48/157 Test #20: unit_test_histogramnew ............................. Passed 0.03 sec Start 34: unit_test_akimaspline 49/157 Test #21: unit_test_identity ................................. Passed 0.03 sec Start 35: unit_test_linspline 50/157 Test #22: unit_test_linalg ................................... Passed 0.03 sec Start 36: unit_test_unitconverter 51/157 Test #23: unit_test_name ..................................... Passed 0.03 sec Start 37: unit_test_NDimVector 52/157 Test #24: unit_test_objectfactory ............................ Passed 0.03 sec Start 38: unit_test_eigenio_matrixmarket 53/157 Test #25: unit_test_optionshandler ........................... Passed 0.03 sec Start 39: integration_csg_reupdateHelp 54/157 Test #26: unit_test_property ................................. Passed 0.03 sec Start 40: integration_csg_mapHelp 55/157 Test #27: unit_test_reducededge .............................. Passed 0.03 sec Start 41: integration_csg_dumpHelp 56/157 Test #28: unit_test_reducedgraph ............................. Passed 0.03 sec Start 42: integration_csg_propertyHelp 57/157 Test #29: unit_test_structureparameters ...................... Passed 0.03 sec Start 43: integration_csg_resampleHelp 58/157 Test #30: unit_test_table .................................... Passed 0.03 sec Start 44: integration_csg_statHelp 59/157 Test #31: unit_test_thread ................................... Passed 0.03 sec Start 45: integration_csg_fmatchHelp 60/157 Test #32: unit_test_tokenizer ................................ Passed 0.03 sec Start 46: integration_csg_gmxtopolHelp 61/157 Test #33: unit_test_random ................................... Passed 0.03 sec Start 47: integration_csg_dlptopolHelp 62/157 Test #34: unit_test_akimaspline .............................. Passed 0.03 sec Start 48: integration_csg_densityHelp 63/157 Test #35: unit_test_linspline ................................ Passed 0.03 sec Start 49: integration_csg_imc_solveHelp 64/157 Test #36: unit_test_unitconverter ............................ Passed 0.03 sec Start 51: integration_Compare_csg_reupdate_output 65/157 Test #37: unit_test_NDimVector ............................... Passed 0.03 sec Start 53: integration_Compare_csg_reupdate_output2 66/157 Test #38: unit_test_eigenio_matrixmarket ..................... Passed 0.03 sec Start 54: integration_Compare_csg_reupdate_output3 67/157 Test #39: integration_csg_reupdateHelp ....................... Passed 0.03 sec Start 57: integration_Compare_csg_reupdate_gmx_output 68/157 Test #40: integration_csg_mapHelp ............................ Passed 0.03 sec Start 58: integration_Compare_csg_reupdate_gmx_output2 69/157 Test #41: integration_csg_dumpHelp ........................... Passed 0.03 sec Start 60: integration_Compare_csg_fmatch_output 70/157 Test #42: integration_csg_propertyHelp ....................... Passed 0.03 sec Start 66: integration_Compare_csg_map_output 71/157 Test #43: integration_csg_resampleHelp ....................... Passed 0.03 sec Start 68: integration_Compare_csg_map_gro_output 72/157 Test #44: integration_csg_statHelp ........................... Passed 0.03 sec Start 70: integration_Compare_csg_stat_output1 73/157 Test #45: integration_csg_fmatchHelp ......................... Passed 0.03 sec Start 71: integration_Compare_csg_stat_output2 74/157 Test #46: integration_csg_gmxtopolHelp ....................... Passed 0.03 sec Start 73: integration_Compare_csg_stat_angular_output 75/157 Test #47: integration_csg_dlptopolHelp ....................... Passed 0.03 sec Start 75: integration_Compare_csg_stat-imc_output 76/157 Test #48: integration_csg_densityHelp ........................ Passed 0.03 sec Start 76: integration_Compare_csg_stat-imc_output_2 77/157 Test #49: integration_csg_imc_solveHelp ...................... Passed 0.03 sec Start 77: integration_Compare_csg_stat-imc_output_3 78/157 Test #103: integration_Run_gmx_grompp ......................... Passed 0.30 sec Start 110: integration_Run_gmx_mdrun 79/157 Test #51: integration_Compare_csg_reupdate_output ............ Passed 0.05 sec Start 104: integration_Run_csg_dump_gmx_tpr 80/157 Test #53: integration_Compare_csg_reupdate_output2 ........... Passed 0.05 sec Start 106: integration_Run_csg_dump_gmx_tpr_excl 81/157 Test #54: integration_Compare_csg_reupdate_output3 ........... Passed 0.05 sec Start 108: integration_Run_csg_dump_gmx_tpr_cg 82/157 Test #57: integration_Compare_csg_reupdate_gmx_output ........ Passed 0.05 sec Start 78: integration_Compare_csg_stat-imc_output_4 83/157 Test #58: integration_Compare_csg_reupdate_gmx_output2 ....... Passed 0.05 sec Start 80: integration_Compare_csg_imc_solve_output 84/157 Test #60: integration_Compare_csg_fmatch_output .............. Passed 0.05 sec Start 82: integration_Compare_csg_imc_solve_reg_output_2 85/157 Test #70: integration_Compare_csg_stat_output1 ............... Passed 0.05 sec Start 83: integration_Compare_csg_imc_solve_reg_output_3 86/157 Test #78: integration_Compare_csg_stat-imc_output_4 .......... Passed 0.01 sec Start 84: integration_Compare_csg_imc_solve_reg_output_4 87/157 Test #104: integration_Run_csg_dump_gmx_tpr ................... Passed 0.02 sec Start 86: integration_Compare_csg_stat-imc_multi_output 88/157 Test #68: integration_Compare_csg_map_gro_output ............. Passed 0.06 sec Start 87: integration_Compare_csg_stat-imc_multi_output_2 89/157 Test #71: integration_Compare_csg_stat_output2 ............... Passed 0.06 sec Start 88: integration_Compare_csg_stat-imc_multi_output_3 90/157 Test #106: integration_Run_csg_dump_gmx_tpr_excl .............. Passed 0.03 sec Start 90: integration_Compare_csg_resample_akima_output 91/157 Test #76: integration_Compare_csg_stat-imc_output_2 .......... Passed 0.06 sec Start 92: integration_Compare_csg_resample_cubic_output 92/157 Test #108: integration_Run_csg_dump_gmx_tpr_cg ................ Passed 0.03 sec Start 94: integration_Compare_csg_resample_linear_output 93/157 Test #66: integration_Compare_csg_map_output ................. Passed 0.08 sec Start 96: integration_Compare_csg_resample_cubicfit_output 94/157 Test #73: integration_Compare_csg_stat_angular_output ........ Passed 0.07 sec Start 98: integration_Compare_csg_dump_output 95/157 Test #77: integration_Compare_csg_stat-imc_output_3 .......... Passed 0.06 sec Start 100: integration_Compare_csg_dump_gro_output 96/157 Test #75: integration_Compare_csg_stat-imc_output ............ Passed 0.07 sec Start 102: integration_Compare_csg_dump_data_output 97/157 Test #88: integration_Compare_csg_stat-imc_multi_output_3 .... Passed 0.02 sec Start 105: integration_Compare_csg_dump_gmx_tpr_output 98/157 Test #98: integration_Compare_csg_dump_output ................ Passed 0.01 sec Start 107: integration_Compare_csg_dump_gmx_tpr_excl_output 99/157 Test #100: integration_Compare_csg_dump_gro_output ............ Passed 0.01 sec Start 109: integration_Compare_csg_dump_gmx_tpr_cg_output 100/157 Test #102: integration_Compare_csg_dump_data_output ........... Passed 0.01 sec Start 116: integration_Compare_csg_property_output 101/157 Test #105: integration_Compare_csg_dump_gmx_tpr_output ........ Passed 0.01 sec Start 118: integration_Compare_csg_property_output2 102/157 Test #107: integration_Compare_csg_dump_gmx_tpr_excl_output ... Passed 0.01 sec Start 120: integration_Compare_csg_property_output3 103/157 Test #80: integration_Compare_csg_imc_solve_output ........... Passed 0.05 sec Start 122: integration_Compare_csg_property_output4 104/157 Test #109: integration_Compare_csg_dump_gmx_tpr_cg_output ..... Passed 0.01 sec Start 125: Compare_csg_boltzmann_output_ppy 105/157 Test #83: integration_Compare_csg_imc_solve_reg_output_3 ..... Passed 0.05 sec Start 128: Compare_csg_boltzmann_output_mma 106/157 Test #82: integration_Compare_csg_imc_solve_reg_output_2 ..... Passed 0.06 sec Start 129: fluctuationsHelp 107/157 Test #116: integration_Compare_csg_property_output ............ Passed 0.02 sec Start 130: orientcorrHelp 108/157 Test #118: integration_Compare_csg_property_output2 ........... Passed 0.02 sec Start 131: part_distHelp 109/157 Test #84: integration_Compare_csg_imc_solve_reg_output_4 ..... Passed 0.06 sec Start 132: partial_rdfHelp 110/157 Test #86: integration_Compare_csg_stat-imc_multi_output ...... Passed 0.06 sec Start 133: radiiHelp 111/157 Test #120: integration_Compare_csg_property_output3 ........... Passed 0.02 sec Start 134: sphericalorderHelp 112/157 Test #122: integration_Compare_csg_property_output4 ........... Passed 0.02 sec Start 135: traj_forceHelp 113/157 Test #125: Compare_csg_boltzmann_output_ppy ................... Passed 0.02 sec Start 136: unit_test_bead 114/157 Test #128: Compare_csg_boltzmann_output_mma ................... Passed 0.02 sec Start 137: unit_test_beadtriple 115/157 Test #90: integration_Compare_csg_resample_akima_output ...... Passed 0.06 sec Start 138: unit_test_basebead 116/157 Test #92: integration_Compare_csg_resample_cubic_output ...... Passed 0.06 sec Start 139: unit_test_beadmotif_algorithms 117/157 Test #94: integration_Compare_csg_resample_linear_output ..... Passed 0.06 sec Start 140: unit_test_beadmotif_base 118/157 Test #96: integration_Compare_csg_resample_cubicfit_output ... Passed 0.06 sec Start 141: unit_test_beadmotif_connector 119/157 Test #129: fluctuationsHelp ................................... Passed 0.03 sec Start 142: unit_test_beadstructure_base 120/157 Test #130: orientcorrHelp ..................................... Passed 0.03 sec Start 143: unit_test_beadstructure_algorithms 121/157 Test #131: part_distHelp ...................................... Passed 0.03 sec Start 144: unit_test_bondedstatistics 122/157 Test #132: partial_rdfHelp .................................... Passed 0.03 sec Start 145: unit_test_csg_topology 123/157 Test #133: radiiHelp .......................................... Passed 0.03 sec Start 146: unit_test_interaction 124/157 Test #134: sphericalorderHelp ................................. Passed 0.03 sec Start 147: unit_test_lammpsdatareader 125/157 Test #135: traj_forceHelp ..................................... Passed 0.03 sec Start 148: unit_test_lammpsdumpreaderwriter 126/157 Test #136: unit_test_bead ..................................... Passed 0.03 sec Start 149: unit_test_nblist_3body 127/157 Test #137: unit_test_beadtriple ............................... Passed 0.03 sec Start 150: unit_test_nblistgrid_3body 128/157 Test #138: unit_test_basebead ................................. Passed 0.03 sec Start 151: unit_test_boundarycondition 129/157 Test #61: integration_Run_csg_fmatch_3body ...................***Exception: SegFault 0.43 sec Start 62: integration_Compare_csg_fmatch_3body_output1 130/157 Test #139: unit_test_beadmotif_algorithms ..................... Passed 0.04 sec Start 63: integration_Compare_csg_fmatch_3body_output2 131/157 Test #140: unit_test_beadmotif_base ........................... Passed 0.04 sec Start 64: integration_Compare_csg_fmatch_3body_output3 132/157 Test #141: unit_test_beadmotif_connector ...................... Passed 0.04 sec Start 152: unit_test_pdbreader 133/157 Test #143: unit_test_beadstructure_algorithms ................. Passed 0.03 sec Start 153: unit_test_tabulatedpotential 134/157 Test #144: unit_test_bondedstatistics ......................... Passed 0.03 sec Start 154: unit_test_triplelist 135/157 Test #142: unit_test_beadstructure_base ....................... Passed 0.04 sec Start 155: template_serialHelp 136/157 Test #145: unit_test_csg_topology ............................. Passed 0.04 sec Start 156: template_threadedHelp 137/157 Test #146: unit_test_interaction .............................. Passed 0.04 sec Start 157: regression_UninstallExists 138/157 Test #148: unit_test_lammpsdumpreaderwriter ................... Passed 0.03 sec 139/157 Test #149: unit_test_nblist_3body ............................. Passed 0.03 sec 140/157 Test #150: unit_test_nblistgrid_3body ......................... Passed 0.03 sec 141/157 Test #147: unit_test_lammpsdatareader ......................... Passed 0.04 sec 142/157 Test #151: unit_test_boundarycondition ........................ Passed 0.03 sec 143/157 Test #152: unit_test_pdbreader ................................ Passed 0.02 sec 144/157 Test #155: template_serialHelp ................................ Passed 0.01 sec 145/157 Test #157: regression_UninstallExists ......................... Passed 0.01 sec 146/157 Test #156: template_threadedHelp .............................. Passed 0.01 sec 147/157 Test #154: unit_test_triplelist ............................... Passed 0.02 sec 148/157 Test #87: integration_Compare_csg_stat-imc_multi_output_2 .... Passed 0.14 sec 149/157 Test #62: integration_Compare_csg_fmatch_3body_output1 .......***Failed 0.05 sec 150/157 Test #63: integration_Compare_csg_fmatch_3body_output2 .......***Failed 0.05 sec 151/157 Test #64: integration_Compare_csg_fmatch_3body_output3 .......***Failed 0.05 sec 152/157 Test #110: integration_Run_gmx_mdrun .......................... Passed 4.97 sec Start 111: integration_Run_csg_map_gmx Start 113: integration_Run_csg_map_gmx_xtc 153/157 Test #111: integration_Run_csg_map_gmx ........................ Passed 0.02 sec Start 112: integration_Compare_csg_map_gmx_output 154/157 Test #113: integration_Run_csg_map_gmx_xtc .................... Passed 0.02 sec Start 114: integration_Compare_csg_map_gmx_xtc_output 155/157 Test #112: integration_Compare_csg_map_gmx_output ............. Passed 0.05 sec 156/157 Test #114: integration_Compare_csg_map_gmx_xtc_output ......... Passed 0.05 sec 157/157 Test #153: unit_test_tabulatedpotential ....................... Passed 5.86 sec 97% tests passed, 4 tests failed out of 157 Label Time Summary: csg = 16.39 sec*proc (118 tests) csg-tutorials = 0.01 sec*proc (1 test) csgapps = 0.22 sec*proc (7 tests) integration = 9.19 sec*proc (79 tests) tools = 11.71 sec*proc (137 tests) unit = 8.15 sec*proc (56 tests) votca = 18.16 sec*proc (157 tests) Total Test time (real) = 6.34 sec The following tests FAILED: 61 - integration_Run_csg_fmatch_3body (SEGFAULT) 62 - integration_Compare_csg_fmatch_3body_output1 (Failed) 63 - integration_Compare_csg_fmatch_3body_output2 (Failed) 64 - integration_Compare_csg_fmatch_3body_output3 (Failed) Errors while running CTest Output from these tests are in: /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/Testing/Temporary/LastTest.log Use "--rerun-failed --output-on-failure" to re-run the failed cases verbosely. * ERROR: sci-chemistry/votca-2022.1::gentoo failed (test phase): * Tests failed. When you file a bug, please attach the following file: * /var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build/Testing/Temporary/LastTest.log * * Call stack: * ebuild.sh, line 136: Called src_test * environment, line 3224: Called cmake_src_test * environment, line 1555: Called die * The specific snippet of code: * die "Tests failed. When you file a bug, please attach the following file: * ${BUILD_DIR}/Testing/Temporary/LastTest.log"; * * If you need support, post the output of `emerge --info '=sci-chemistry/votca-2022.1::gentoo'`, * the complete build log and the output of `emerge -pqv '=sci-chemistry/votca-2022.1::gentoo'`. * The complete build log is located at '/var/log/emerge-log/build/sci-chemistry/votca-2022.1:20230607-131035.log'. * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/votca-2022.1/temp/build.log'. * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/votca-2022.1/temp/environment'. * Working directory: '/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1_build' * S: '/var/tmp/portage/sci-chemistry/votca-2022.1/work/votca-2022.1'