Hello,
I try to install dealii on a CentOS virtual machine. It fails when
installing scalapack and mumps, both related to mpi fortran. Is it due to
openmpi compatibility?
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CMake Deprecation Warning at CMakeLists.txt:1 (cmake_minimum_required):
Compatibility with CMake < 2.8.12 will be removed from a future version of
CMake.
Update the VERSION argument <min> value or use a ...<max> suffix to tell
CMake that the project does not need compatibility with older versions.
-- The C compiler identification is GNU 9.3.1
-- The Fortran compiler identification is GNU 9.3.1
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/lib64/openmpi/bin/mpicc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - failed
-- Check for working Fortran compiler: /usr/lib64/openmpi/bin/mpif90
-- Check for working Fortran compiler: /usr/lib64/openmpi/bin/mpif90 - broken
CMake Error at
/home/123456/libs/candi-master/candi_install/cmake-3.20.5-linux-x86_64/share/cmake-3.20/Modules/CMakeTestFortranCompiler.cmake:51
(message):
The Fortran compiler
"/usr/lib64/openmpi/bin/mpif90"
is not able to compile a simple test program.
It fails with the following output:
Change Dir:
/home/123456/libs/candi-master/candi_install/tmp/build/scalapack-2.1.0/CMakeFiles/CMakeTmp
Run Build Command(s):/opt/rh/devtoolset-9/root/usr/bin/gmake -f Makefile
cmTC_238a2/fast && /opt/rh/devtoolset-9/root/usr/bin/gmake -f
CMakeFiles/cmTC_238a2.dir/build.make CMakeFiles/cmTC_238a2.dir/build
gmake[1]: Entering directory
'/home/123456/libs/candi-master/candi_install/tmp/build/scalapack-2.1.0/CMakeFiles/CMakeTmp'
Building Fortran object CMakeFiles/cmTC_238a2.dir/testFortranCompiler.f.o
/usr/lib64/openmpi/bin/mpif90 -g -O3 -fallow-argument-mismatch -fPIE -c
/home/123456/libs/candi-master/candi_install/tmp/build/scalapack-2.1.0/CMakeFiles/CMakeTmp/testFortranCompiler.f
-o CMakeFiles/cmTC_238a2.dir/testFortranCompiler.f.o
gfortran: error: unrecognized command line option
‘-fallow-argument-mismatch’; did you mean ‘-Wno-argument-mismatch’?
gmake[1]: *** [CMakeFiles/cmTC_238a2.dir/build.make:78:
CMakeFiles/cmTC_238a2.dir/testFortranCompiler.f.o] Error 1
gmake[1]: Leaving directory
'/home/123456/libs/candi-master/candi_install/tmp/build/scalapack-2.1.0/CMakeFiles/CMakeTmp'
gmake: *** [Makefile:127: cmTC_238a2/fast] Error 2
CMake will not be able to correctly generate this project.
Call Stack (most recent call first):
CMakeLists.txt:2 (project)
-- Configuring incomplete, errors occurred!
See also
"/home/123456/libs/candi-master/candi_install/tmp/build/scalapack-2.1.0/CMakeFiles/CMakeOutput.log".
See also
"/home/123456/libs/candi-master/candi_install/tmp/build/scalapack-2.1.0/CMakeFiles/CMakeError.log".-- The C compiler identification is GNU 9.3.1
-- The Fortran compiler identification is GNU 9.3.1
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /usr/lib64/openmpi/bin/mpicc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Check for working Fortran compiler: /usr/lib64/openmpi/bin/mpif90 - skipped
-- Checking whether /usr/lib64/openmpi/bin/mpif90 supports Fortran 90
-- Checking whether /usr/lib64/openmpi/bin/mpif90 supports Fortran 90 - yes
-- checking that C and Fortran compilers can link
-- checking that C and Fortran compilers can link - OK
-- Looking for pthread.h
-- Looking for pthread.h - found
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD
-- Performing Test CMAKE_HAVE_LIBC_PTHREAD - Success
-- Found Threads: TRUE
-- Found PkgConfig: /usr/bin/pkg-config (found version "0.27.1")
-- Checking for one of the modules 'lapack-netlib;lapack'
-- Checking for one of the modules 'blas-netlib;blas'
-- Performing Test LAPACK_real64_links
-- Performing Test LAPACK_real64_links - Success
-- Performing Test LAPACK_real32_links
-- Performing Test LAPACK_real32_links - Success
-- Found LAPACK: /usr/lib64/liblapack.so;/usr/lib64/libblas.so found
components: Netlib
-- Checking for one of the modules 'ompi-c'
-- Performing Test MPI_C_links
-- Performing Test MPI_C_links - Success
-- Checking for one of the modules 'ompi-fort'
-- Performing Test MPI_Fortran_links
-- Performing Test MPI_Fortran_links - Failed
CMake Error at
/home/123456/libs/candi-master/candi_install/cmake-3.20.5-linux-x86_64/share/cmake-3.20/Modules/FindPackageHandleStandardArgs.cmake:230
(message):
Could NOT find MPI (missing: Fortran)
Call Stack (most recent call first):
/home/123456/libs/candi-master/candi_install/cmake-3.20.5-linux-x86_64/share/cmake-3.20/Modules/FindPackageHandleStandardArgs.cmake:594
(_FPHSA_FAILURE_MESSAGE)
cmake/Modules/FindMPI.cmake:541 (find_package_handle_standard_args)
CMakeLists.txt:42 (find_package)
-- Configuring incomplete, errors occurred!
See also
"/home/123456/libs/candi-master/candi_install/tmp/build/mumps-5.4.0.5/CMakeFiles/CMakeOutput.log".
See also
"/home/123456/libs/candi-master/candi_install/tmp/build/mumps-5.4.0.5/CMakeFiles/CMakeError.log".
# Global configuration.
# Meta-project to build
PROJECT=deal.II-toolchain
# Option {ON|OFF}: Use fresh build directory by remove existing ones?
CLEAN_BUILD=OFF
#########################################################################
# Where do you want the downloaded source files to go?
#DOWNLOAD_PATH=${PREFIX_PATH}/tmp/src
# Where do you want to unpack source files to go?
#UNPACK_PATH=${PREFIX_PATH}/tmp/unpack
# Where do you want the build files to go?
#BUILD_PATH=${PREFIX_PATH}/tmp/build
# Where do you want the compiled software installed?
INSTALL_PATH=${PREFIX_PATH}
#########################################################################
# Set up mirror server url(s), to speed up downloads, e.g.
# MIRROR="${MIRROR} http://server1.org/package_mirror_dir/";
# MIRROR="${MIRROR} ftp://server2.org/package_mirror_dir/";
MIRROR="https://tjhei.info/candi-mirror/
https://cecas.clemson.edu/dealii/mirror/";
#########################################################################
# Choose additional configuration and components of deal.II
DEAL_II_CONFOPTS=""
# Option {ON|OFF}: Enable machine-specific optimizations (e.g. -march=native)?
NATIVE_OPTIMIZATIONS=ON
# Option {ON|OFF}: Enable 64-bit indices for large computations?
USE_64_BIT_INDICES=ON
# Option {ON|OFF}: Enable building of dealii examples?
BUILD_EXAMPLES=ON
# Option {ON|OFF}: Unset CXX and set the compiler as MPI_CXX_COMPILER when
configuring deal.II
#
# This is recommended for very recent CMake versions but it currently is not
reliable enough
# to enable by default.
USE_DEAL_II_CMAKE_MPI_COMPILER=OFF
# Option {ON|OFF}: Run tests after installation?
RUN_DEAL_II_TESTS=OFF
# Choose the python interpreter to use. We pick python2, python3,
# python in that order by default. If you want to override this
# choice, uncomment the following:
#PYTHON_INTERPRETER=python3
# Now we pick the packages to install:
PACKAGES="load:dealii-prepare"
# These are system dependencies that are often pre-installed:
PACKAGES="${PACKAGES} once:zlib"
PACKAGES="${PACKAGES} once:bzip2"
#PACKAGES="${PACKAGES} once:git"
PACKAGES="${PACKAGES} once:cmake"
PACKAGES="${PACKAGES} once:boost"
PACKAGES="${PACKAGES} once:numdiff"
PACKAGES="${PACKAGES} once:openblas"
PACKAGES="${PACKAGES} once:scalapack"
# These packages are not dependencies but are tools used for deal.II
development:
#PACKAGES="${PACKAGES} once:astyle"
#PACKAGES="${PACKAGES} once:numdiff"
# These packages determine the active components of deal.II:
PACKAGES="${PACKAGES} once:adolc"
PACKAGES="${PACKAGES} once:arpack-ng"
PACKAGES="${PACKAGES} once:assimp"
PACKAGES="${PACKAGES} once:ginkgo"
PACKAGES="${PACKAGES} once:gmsh"
PACKAGES="${PACKAGES} once:gsl"
PACKAGES="${PACKAGES} once:mumps"
PACKAGES="${PACKAGES} once:opencascade"
PACKAGES="${PACKAGES} once:parmetis"
PACKAGES="${PACKAGES} once:sundials"
PACKAGES="${PACKAGES} once:superlu_dist"
PACKAGES="${PACKAGES} once:hdf5"
PACKAGES="${PACKAGES} once:netcdf"
PACKAGES="${PACKAGES} once:p4est"
PACKAGES="${PACKAGES} once:trilinos"
PACKAGES="${PACKAGES} once:petsc"
PACKAGES="${PACKAGES} once:slepc"
PACKAGES="${PACKAGES} once:symengine"
PACKAGES="${PACKAGES} dealii"
#########################################################################
# Install the following deal.II version (choose master, v9.3.0, v9.2.0, ...)
DEAL_II_VERSION=master
#########################################################################
# If you want to use Trilinos, decide if you want v12.x.x (AUTO) or v11.x.x
TRILINOS_MAJOR_VERSION=AUTO
#TRILINOS_MAJOR_VERSION=12
#TRILINOS_MAJOR_VERSION=11
# If enabled, Trilinos is configured with complex number support in
# Teuchos and Tpetra. This takes a long time to compile and requires a
# lot of RAM. It is also likely not something you will need.
TRILINOS_WITH_COMPLEX=OFF
#########################################################################
# Option {ON|OFF}: Do you want to use MKL?
MKL=OFF
# MKL_DIR=
# BLAS_DIR=
# LAPACK_DIR=
#########################################################################
# If you have commits from the deal.II master to cherry-pick in stable version
# bugfix for TrilinosWrapper::SparseMatrix ::add(factor, SparseMatrix)
#DEAL_CHERRYPICKCOMMITS="8bcaf55df6754238b2e4e41bf6a5dd276a97bdd2
${DEAL_CHERRYPICKCOMMITS}"
#########################################################################
# Option {ON|OFF}: If you want to change the source code of one or multiple
# packages switch on the developer mode to avoid a package fetch and unpack.
# Note: a previous run of candi with the same settings must be done without
# this mode!
DEVELOPER_MODE=OFF
################################################################################
# OPTION {ON|OFF}: Remove build directory after successful installation
INSTANT_CLEAN_BUILD_AFTER_INSTALL=OFF
# OPTION {ON|OFF}: Remove downloaded packed src after successful installation
INSTANT_CLEAN_SRC_AFTER_INSTALL=OFF
# OPTION {ON|OFF}: Remove unpack directory after successful installation
INSTANT_CLEAN_UNPACK_AFTER_INSTALL=OFF
