An update on this error : I deleted the whole Work folder and tried to reinstall all packages using the rhel6 platform, with following packages (with versions if different then those set by default) :
PACKAGES=( bzip2 git # 1.9.0 python # 2.7.6 openmpi # 1.8.1 boost # 1_55_0 cmake # 2.8.12.2 swig # 3.0.0 # libxml2 # 2.9.1 -> crashed /usr/bin/ld: cannot find -lpython2.7 pcre # 8.35 libffi # 3.0.13 glib2 # 2.40.0 vtk gmp # 6.0.0 mpfr cgal # 4.4 ply blas eigen lapack # 3.5.0 ipython # 1.2.1 numpy # 1.8.1 cython # 0.20.1 mpi4py # 1.3.1 hdf5 # 1.8.12 h5py # 2.3.0 parmetis # 4.0.3 scientificpython scipy # 0.14 scotch petsc # 3.4.4 #trilinos #-> crashes can not find umfpack petsc4py skip:petsc # otherwise slepc install crashes slepc # 3.4.4 fiat ferari ufc ufl ffc instant dolfin ) I get the exact same error when the dolfin package is building. Imran 11. mai 2014 kl. 12:52 skrev Imran Ali <[email protected]>: > I am trying to install dolfin using dorsal (with > DOLFIN_SKIP_BUILD_TESTS:BOOL=ON) and get the following error : > > ¨Fetching dolfin-1.3.0 > Verifying dolfin-1.3.0 > dolfin-1.3.0.tar.gz: OK > Unpacking dolfin-1.3.0 > Building dolfin-1.3.0 > patching file demo/undocumented/plot-qt/cpp/CMakeLists.txt > Reversed (or previously applied) patch detected! Skipping patch. > 1 out of 1 hunk ignored -- saving rejects to file > demo/undocumented/plot-qt/cpp/CMakeLists.txt.rej > patching file dolfin/CMakeLists.txt > Reversed (or previously applied) patch detected! Skipping patch. > 2 out of 2 hunks ignored -- saving rejects to file dolfin/CMakeLists.txt.rej > fatal: Not a git repository (or any parent up to mount point > /mn/anatu/studenter-u1) > Stopping at filesystem boundary (GIT_DISCOVERY_ACROSS_FILESYSTEM not set). > -- Performing Test HAVE_PIPE > -- Performing Test HAVE_PIPE - Success > -- Performing Test HAVE_PEDANTIC > -- Performing Test HAVE_PEDANTIC - Success > -- Performing Test HAVE_STD > -- Performing Test HAVE_STD - Success > -- Performing Test HAVE_DEBUG > -- Performing Test HAVE_DEBUG - Success > -- Performing Test HAVE_O2_OPTIMISATION > -- Performing Test HAVE_O2_OPTIMISATION - Success > -- Found MPI_C: /mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libmpi.so > -- Found MPI_CXX: > /mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libmpi_cxx.so;/mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libmpi.so > -- Found MPI_Fortran: > /mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libmpi_usempi.so;/mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libmpi_mpifh.so;/mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libmpi.so > -- Try OpenMP C flag = [-fopenmp] > -- Performing Test OpenMP_FLAG_DETECTED > -- Performing Test OpenMP_FLAG_DETECTED - Success > -- Try OpenMP CXX flag = [-fopenmp] > -- Performing Test OpenMP_FLAG_DETECTED > -- Performing Test OpenMP_FLAG_DETECTED - Success > -- Found OpenMP: -fopenmp > -- Performing Test OPENMP_UINT_TEST_RUNS > -- Performing Test OPENMP_UINT_TEST_RUNS - Success > -- Boost version: 1.55.0 > -- Found the following Boost libraries: > -- filesystem > -- program_options > -- system > -- thread > -- iostreams > -- mpi > -- serialization > -- timer > -- chrono > -- UFC version: 2.3.0 > -- Found Eigen3: /mn/anatu/studenter-u1/imranal/Work/FEniCS/include/eigen3 > (Required is at least version "3.0.0") > -- Found LibXml2: /usr/lib64/libxml2.so (found version "2.7.6") > -- Found PythonInterp: /mn/anatu/studenter-u1/imranal/Work/FEniCS/bin/python > (found suitable version "2.7.6", minimum required is "2") > -- NumPy header version 1.8.1 found > -- Found SWIG: /mn/anatu/studenter-u1/imranal/Work/FEniCS/bin/swig (found > version "3.0.0") > -- Checking for package 'PETSc' > -- PETSC_DIR is /mn/anatu/studenter-u1/imranal/Work/FEniCS > -- PETSC_ARCH is empty > -- Found petscconf.h > -- Found PETSc: /mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libpetsc.so > (Required is at least version "3.2") > -- Checking for package 'SLEPc' > -- SLEPC_DIR is /mn/anatu/studenter-u1/imranal/Work/FEniCS > -- Found SLEPc: /mn/anatu/studenter-u1/imranal/Work/FEniCS/lib/libslepc.so > (Required is at least version "3.2") > -- Checking for package 'TAO' > -- TAO_DIR is TAO_DIR-NOTFOUND > -- TAO could not be found. Be sure to set TAO_DIR, PETSC_DIR, and PETSC_ARCH. > (missing: TAO_LIBRARIES TAO_DIR TAO_INCLUDE_DIRS) > -- Checking for package 'PETSc4Py' > -- petsc4py version 3.4 found > CMake Error at CMakeLists.txt:335 (if): > if given arguments: > > "NOT" "(" "3" "EQUAL" "AND" "4" "EQUAL" ")" > > Unknown arguments specified > > > -- Configuring incomplete, errors occurred! > See also > "/mn/anatu/studenter-u1/imranal/Work/FEniCS/src/dolfin-1.3.0/dorsal_build_dir/CMakeFiles/CMakeOutput.log". > Failure with exit status: 1 > Exit message: There was a problem configuring dolfin-1.3.0. > > > I have attached my CMakeOutput.log. > > I had managed to successfully build dolfin. However, I encountered an error > when importing dolfin (ImportError: No module named common). Apparently > dolfin was installed in Work/lib64/python2.6/site-packages and not > Work/lib/python2.7/site-packages . So deleted Work/lib64/python2.6 and > reinstalled all fenics packages. And now this error occurs. > > Imran > > Imran > <CMakeOutput.log>_______________________________________________ > fenics-support mailing list > [email protected] > http://fenicsproject.org/mailman/listinfo/fenics-support _______________________________________________ fenics-support mailing list [email protected] http://fenicsproject.org/mailman/listinfo/fenics-support
