sci-chemistry:gromacs-2024.1:20240327-182807.log

sci-chemistry:gromacs-2024.1:20240327-182807.log (text/plain), 5.54 KB, created by Toralf Förster on 2024-03-27 18:58:41 UTC

 * Package:    sci-chemistry/gromacs-2024.1:0/2024.1
 * Repository: gentoo
 * Maintainer: [e-mail] [e-mail]
 * USE:        abi_x86_64 amd64 clang cpu_flags_x86_avx cpu_flags_x86_avx2 cpu_flags_x86_sse2 cpu_flags_x86_sse4_1 custom-cflags doc elibc_glibc fftw gmxapi gmxapi-legacy hwloc kernel_linux openmp python_single_target_python3_11 single-precision threads tng
 * FEATURES:   network-sandbox preserve-libs sandbox userpriv usersandbox
 * Using python3.11 to build
>>> Unpacking source...
>>> Unpacking gromacs-2024.1.tar.gz to /var/tmp/portage/sci-chemistry/gromacs-2024.1/work
>>> Unpacking manual-2024.1.pdf to /var/tmp/portage/sci-chemistry/gromacs-2024.1/work
unpack manual-2024.1.pdf: file format not recognized. Ignoring.
>>> Source unpacked in /var/tmp/portage/sci-chemistry/gromacs-2024.1/work
>>> Preparing source in /var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1 ...
 * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1"
 * Build directory  (BUILD_DIR):     "/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1_build"
 * Hardcoded definition(s) removed in src/external/muparser/CMakeLists.txt:
 *    set (CMAKE_BUILD_TYPE Release CACHE STRING "Build type")
 * Hardcoded definition(s) removed in CMakeLists.txt:
 *      set(CMAKE_INSTALL_PREFIX "/usr/local/gromacs" CACHE STRING "Installation 
 *      set(CMAKE_BUILD_TYPE "Release" CACHE STRING "Choose the type of build, op
>>> Source prepared.
>>> Configuring source in /var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1 ...
 * Configuring for float precision
 * Source directory (CMAKE_USE_DIR): "/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1"
 * Build directory  (BUILD_DIR):     "/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1_float"
cmake -C /var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1_float/gentoo_common_config.cmake -G Ninja -DCMAKE_INSTALL_PREFIX=/usr -DGMX_FFT_LIBRARY=fftw3 -DGMX_USE_LMFIT=EXTERNAL -DGMX_USE_MUPARSER=EXTERNAL -DGMX_EXTERNAL_BLAS=no -DGMX_EXTERNAL_LAPACK=no -DGMX_OPENMP=yes -DGMX_COOL_QUOTES=no -DGMX_USE_TNG=yes -DGMX_BUILD_MANUAL=no -DGMX_HWLOC=yes -DGMX_DEFAULT_SUFFIX=off -DGMX_SIMD=AVX2_256 -DGMX_VMD_PLUGIN_PATH=/usr/lib64/vmd/plugins/*/molfile/ -DBUILD_TESTING=no -DGMX_BUILD_UNITTESTS=no -DPYTHON_EXECUTABLE=/usr/bin/python3.11 -DGMX_DOUBLE=OFF -DGMX_MPI=no -DGMX_THREAD_MPI=yes -DGMXAPI=yes -DGMX_INSTALL_LEGACY_API=yes -DGMX_GPU=OFF  -DGMX_BINARY_SUFFIX= -DGMX_LIBS_SUFFIX= -DGMX_PYTHON_PACKAGE=no -DCMAKE_BUILD_TYPE=RelWithDebInfo -DCMAKE_TOOLCHAIN_FILE=/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1_float/gentoo_toolchain.cmake /var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1
CMake Warning:
  Ignoring empty string ("") provided on the command line.


loading initial cache file /var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1_float/gentoo_common_config.cmake
-- The C compiler identification is Clang 18.1.2
-- The CXX compiler identification is Clang 18.1.2
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/lib/llvm/18/bin/x86_64-pc-linux-gnu-clang - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/lib/llvm/18/bin/x86_64-pc-linux-gnu-clang++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Performing Test CXX17_COMPILES_SIMPLY
-- Performing Test CXX17_COMPILES_SIMPLY - Success
-- Found Python3: /var/tmp/portage/sci-chemistry/gromacs-2024.1/temp/python3.11/bin/python3 (found suitable version "3.11.8", minimum required is "3.7") found components: Interpreter Development Development.Module Development.Embed
-- Could NOT find OpenMP_C (missing: OpenMP_C_FLAGS OpenMP_C_LIB_NAMES) 
-- Could NOT find OpenMP_CXX (missing: OpenMP_CXX_FLAGS OpenMP_CXX_LIB_NAMES) 
-- Could NOT find OpenMP (missing: OpenMP_C_FOUND OpenMP_CXX_FOUND) 
CMake Error at cmake/gmxManageOpenMP.cmake:50 (message):
  The compiler you are using does not support OpenMP parallelism.  This might
  hurt your performance a lot, in particular with GPUs.  Try using a more
  recent version, or a different compiler.  If you don't want to use OpenMP,
  disable it explicitly with -DGMX_OPENMP=OFF
Call Stack (most recent call first):
  CMakeLists.txt:421 (include)


-- Configuring incomplete, errors occurred!
 * ERROR: sci-chemistry/gromacs-2024.1::gentoo failed (configure phase):
 *   cmake failed
 * 
 * Call stack:
 *     ebuild.sh, line  136:  Called src_configure
 *   environment, line 4573:  Called cmake_src_configure
 *   environment, line 1998:  Called die
 * The specific snippet of code:
 *       "${CMAKE_BINARY}" "${cmakeargs[@]}" "${CMAKE_USE_DIR}" || die "cmake failed";
 * 
 * If you need support, post the output of `emerge --info '=sci-chemistry/gromacs-2024.1::gentoo'`,
 * the complete build log and the output of `emerge -pqv '=sci-chemistry/gromacs-2024.1::gentoo'`.
 * The complete build log is located at '/var/log/portage/sci-chemistry:gromacs-2024.1:20240327-182807.log'.
 * For convenience, a symlink to the build log is located at '/var/tmp/portage/sci-chemistry/gromacs-2024.1/temp/build.log'.
 * The ebuild environment file is located at '/var/tmp/portage/sci-chemistry/gromacs-2024.1/temp/environment'.
 * Working directory: '/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1_float'
 * S: '/var/tmp/portage/sci-chemistry/gromacs-2024.1/work/gromacs-2024.1'