* Package: sci-physics/espresso-4.0_pre20170228  * Repository: gentoo  * Maintainer: junghans@gentoo.org sci-physics@gentoo.org  * USE: abi_x86_64 amd64 doc elibc_glibc examples fftw hdf5 kernel_linux python_single_target_python3_4 python_targets_python2_7 python_targets_python3_4 savedconfig userland_GNU  * FEATURES: preserve-libs sandbox userpriv usersandbox >>> Unpacking source... >>> Source unpacked in /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work >>> Preparing source in /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228 ... * Applying 1056.patch ...  [ ok ] >>> Source prepared. >>> Configuring source in /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228 ... >>> Working in BUILD_DIR: "/var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build" cmake -C /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build/gentoo_common_config.cmake -G Ninja -DCMAKE_INSTALL_PREFIX=/usr -DWITH_CUDA=no -DPYTHON_EXECUTABLE=/usr/bin/python3.4 -DWITH_TESTS=no -DWITH_SCAFACOS=ON -DINSTALL_PYPRESSO=OFF -DCMAKE_DISABLE_FIND_PACKAGE_FFTW3=no -DCMAKE_DISABLE_FIND_PACKAGE_HDF5=no -DCMAKE_SKIP_RPATH=YES -DLIBDIR=lib64 -DCMAKE_BUILD_TYPE=Gentoo -DCMAKE_USER_MAKE_RULES_OVERRIDE=/var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build/gentoo_rules.cmake -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build/gentoo_toolchain.cmake /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228 loading initial cache file /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build/gentoo_common_config.cmake -- The C compiler identification is GNU 5.4.0 -- The CXX compiler identification is GNU 5.4.0 -- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc -- Check for working C compiler: /usr/bin/x86_64-pc-linux-gnu-gcc -- works -- Detecting C compiler ABI info -- Detecting C compiler ABI info - done -- Detecting C compile features -- Detecting C compile features - done -- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++ -- Check for working CXX compiler: /usr/bin/x86_64-pc-linux-gnu-g++ -- works -- Detecting CXX compiler ABI info -- Detecting CXX compiler ABI info - done -- Detecting CXX compile features -- Detecting CXX compile features - done -- Config file: /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228/src/core/myconfig-default.hpp -- Performing Test result__PRETTY_FUNCTION__ -- Performing Test result__PRETTY_FUNCTION__ - Success -- Found PythonInterp: /usr/bin/python3.4 (found version "3.4.5") -- Found Cython version 0.25 -- Found Cython: /usr/bin/cython (Required is at least version "0.23") -- Found NumPy: /usr/lib64/python3.4/site-packages/numpy/core/include (found version "1.10.4") -- NumPy ver. 1.10.4 found (include: /usr/lib64/python3.4/site-packages/numpy/core/include) -- Found FFTW3: /usr/lib64/libfftw3.so -- HDF5: Using hdf5 compiler wrapper to determine C configuration -- Found HDF5: /usr/lib64/libhdf5.so;/usr/lib64/libsz.so;/usr/lib64/libz.so;/usr/lib64/libdl.so;/usr/lib64/libm.so (found suitable version "1.8.18", minimum required is "1.8") found components: C * ACCESS DENIED: open_wr: /proc/mtrr -- Could NOT find PY_h5py (missing: PY_H5PY) -- Found Git: /usr/bin/git (found version "2.13.6") fatal: Not a git repository (or any parent up to mount point /var) Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). -- Found PkgConfig: x86_64-pc-linux-gnu-pkg-config (found version "0.28") -- Checking for module 'scafacos' -- No package 'scafacos' found -- Boost version: 1.62.0 -- Found the following Boost libraries: -- mpi -- serialization -- filesystem -- system -- Found MPI_C: /usr/lib64/libmpi.so -- Found MPI_CXX: /usr/lib64/libmpi_cxx.so;/usr/lib64/libmpi.so -- Found Doxygen: /usr/bin/doxygen (found version "1.8.13") -- Found Sphinx: /usr/bin/sphinx-build (found suitable version "1.6.3", minimum required is "1.5.2") -- writing /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build/myconfig-sample.hpp -- -- The following features have been enabled: * HDF5 (required version >= 1.8) , parallel -- The following OPTIONAL packages have been found: * PythonInterp * FFTW3 * HDF5 (required version >= 1.8) , parallel * Git * PkgConfig * Doxygen * Sphinx (required version >= 1.5.2) -- The following REQUIRED packages have been found: * Cython (required version >= 0.23) * NumPy * Boost * MPI -- <<< Gentoo configuration >>> Build type Gentoo Install path /usr Compiler flags: C -pipe -O2 -march=amdfam10 -mtune=amdfam10 C++ -pipe -O2 -march=amdfam10 -mtune=amdfam10 -std=c++11 Linker flags: Executable -Wl,-O1 -Wl,--as-needed -Wl,-rpath -Wl,/usr/lib64 -Wl,--enable-new-dtags Module -Wl,-O1 -Wl,--as-needed Shared -Wl,-O1 -Wl,--as-needed -Wl,--no-as-needed -- Configuring done -- Generating done -- Build files have been written to: /var/tmp/portage/sci-physics/espresso-4.0_pre20170228/work/espresso-4.0_pre20170228_build >>> Source configured. * --------------------------- ACCESS VIOLATION SUMMARY --------------------------- * LOG FILE: "/var/log/sandbox/sandbox-17662.log" * VERSION 1.0 FORMAT: F - Function called FORMAT: S - Access Status FORMAT: P - Path as passed to function FORMAT: A - Absolute Path (not canonical) FORMAT: R - Canonical Path FORMAT: C - Command Line F: open_wr S: deny P: /proc/mtrr A: /proc/mtrr R: /proc/mtrr C: orted --hnp --set-sid --report-uri 9 --singleton-died-pipe 10 -mca state_novm_select 1 * --------------------------------------------------------------------------------