This build is using gnu compilers with MKL. And PETSc configure doesn't guess compiler shortcuts like -mlk [or -framework Veclib] type options..
Satish On Sun, 28 Feb 2016, Jeff Hammond wrote: > On Sunday, February 28, 2016, Matthew Knepley <[email protected]> wrote: > > > On Sun, Feb 28, 2016 at 3:12 PM, Barry Smith <[email protected] > > <javascript:_e(%7B%7D,'cvml','[email protected]');>> wrote: > > > >> > >> Satish, > >> > >> Yeah, hypre totally botched its implementation of a way to check for > >> the blas/lapack libraries. I've iterated with them several times on the > >> basic problem but they keep patching what they do, rather then discard all > >> their incorrect code and handle it simply as they should. > > > > > > I'm sure it would have worked if they had used CMake ;) > > > > > Intel compilers need only "-mkl" unless you want threaded ScaLAPACK. Works > for both shared and static linking. > > I haven't tried but does "-lmkl" (plus appropriate LD_LIBRARY_PATH) not > work with shared linking? > > As far as I know, static linking of MKL with non-Intel compiler is the only > hard case for build systems. > > Obviously, CMake and C++11 are the only way to solve this problem :-D > > Jeff > > > > Matt > > > > > >> > >> Barry > >> > >> > On Feb 28, 2016, at 3:00 PM, Satish Balay <[email protected] > >> <javascript:_e(%7B%7D,'cvml','[email protected]');>> wrote: > >> > > >> > Executing: cd > >> /pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug/arch-linux2-c-debug/externalpackages/git.hypre/src > >> && ./configure --prefix=/opt/petsc-master_debug MAKE=/bin/gmake > >> --libdir=/opt/petsc-master_debug/lib CC="/opt/openmpi-1.10.2/bin/mpicc" > >> CFLAGS="-fPIC -g3" CXX="/opt/openmpi-1.10.2/bin/mpicxx" CXXFLAGS="-g -fPIC" > >> F90="/opt/openmpi-1.10.2/bin/mpif90" F90FLAGS="-fPIC -ffree-line-length-0 > >> -g" F77="/opt/openmpi-1.10.2/bin/mpif90" FFLAGS="-fPIC -ffree-line-length-0 > >> -g" FC="/opt/openmpi-1.10.2/bin/mpif90" FCFLAGS="-fPIC -ffree-line-length-0 > >> -g" --with-MPI-include="/opt/openmpi-1.10.2/include" --with-MPI-lib-dirs="" > >> --with-MPI-libs="" > >> --with-blas-lib="-Wl,-rpath,/opt/intel/composerxe/mkl/lib/intel64 > >> -L/opt/intel/composerxe/mkl/lib/intel64 -lmkl_intel_lp64 -lmkl_core > >> -lmkl_intel_thread -liomp5 -ldl -lpthread -lm > >> -Wl,-rpath,/opt/openmpi-1.10.2/lib -L/opt/openmpi-1.10.2/lib > >> -Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/4.8.5 > >> -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/compiler/lib/intel64 > >> -L/opt/intel/composer_xe_2015.2.164/compiler/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/ipp/lib/intel64 > >> -L/opt/intel/composer_xe_2015.2.164/ipp/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/mkl/lib/intel64 > >> -L/opt/intel/composer_xe_2015.2.164/mkl/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/tbb/lib/intel64/gcc4.4 > >> -L/opt/intel/composer_xe_2015.2.164/tbb/lib/intel64/gcc4.4 -lmpi_usempi > >> -lmpi_mpifh -lgfortran -lm -Wl,-rpath,/opt/openmpi-1.10.2/lib > >> -Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/4.8.5 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/compiler/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/ipp/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/mkl/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/tbb/lib/intel64/gcc4.4 > >> -lgfortran -lm -lquadmath -lm" --with-lapack-lib=" " --with-blas=no > >> --with-lapack=no --with-fmangle-blas=one-underscore > >> --with-fmangle-lapack=one-underscore --without-mli --without-fei > >> --without-superlu AR="/bin/ar cr" > >> > > >> > checking for dgemm_ in -lm... no > >> > checking for dgemm_ in -lquadmath... no > >> > checking for dgemm_ in -lm... (cached) no > >> > checking for dgemm_ in -lgfortran... no > >> > checking for dgemm_ in -linux/4.8.5... no > >> > checking for dgemm_ in -lm... (cached) no > >> > checking for dgemm_ in -lgfortran... (cached) no > >> > checking for dgemm_ in -lmpi_mpifh... no > >> > checking for dgemm_ in -lmpi_usempi... no > >> > checking for dgemm_ in -linux/4.8.5... (cached) no > >> > checking for dgemm_ in -lm... (cached) no > >> > checking for dgemm_ in -lpthread... no > >> > checking for dgemm_ in -ldl... no > >> > checking for dgemm_ in -liomp5... no > >> > checking for dgemm_ in -lmkl_intel_thread... no > >> > checking for dgemm_ in -lmkl_core... no > >> > checking for dgemm_ in -lmkl_intel_lp64... noconfigure: error: > >> **************** Non-linkable blas library error: > >> *************************** > >> > User set BLAS library path using either --with-blas-lib=<lib>, or > >> > --with-blas-libs=<blas_lib_base_name> and > >> --with-blas_dirs=<path-to-blas-lib>, > >> > but -L/opt/intel/composer_xe_2015.2.164/tbb/lib/intel64/gcc4.4 > >> -L/opt/intel/composer_xe_2015.2.164/mkl/lib/intel64 > >> -L/opt/intel/composer_xe_2015.2.164/ipp/lib/intel64 > >> -L/opt/intel/composer_xe_2015.2.164/compiler/lib/intel64 > >> -L/usr/lib/gcc/x86_64-redhat-linux/4.8.5 -L/opt/openmpi-1.10.2/lib > >> -L/opt/intel/composerxe/mkl/lib/intel64 -lm -lquadmath -lm -lgfortran > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/tbb/lib/intel64/gcc4.4 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/mkl/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/ipp/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/compiler/lib/intel64 > >> -Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/4.8.5 > >> -Wl,-rpath,/opt/openmpi-1.10.2/lib -lm -lgfortran -lmpi_mpifh -lmpi_usempi > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/tbb/lib/intel64/gcc4.4 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/mkl/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/ipp/lib/intel64 > >> -Wl,-rpath,/opt/intel/composer_xe_2015.2.164/compiler/lib/intel64 > >> -Wl,-rpath,/usr/lib/gcc/x86_64-redhat-linux/4.8.5 > >> -Wl,-rpath,/opt/openmpi-1.10.2/lib -lm -lpthread -ldl -liomp5 > >> -lmkl_intel_thread -lmkl_core -lmkl_intel_lp64 > >> -Wl,-rpath,/opt/intel/composerxe/mkl/lib/intel64 provided cannot be used. > >> See "configure --help" for usage details. > >> > > >> ***************************************************************************************** > >> > > >> ******************************************************************************* > >> > > >> > > >> > Hm - instead of using all the libs from --with-blas-libs in a single > >> > link command - hypre is checking one '-llibrary' form this list at a > >> > time? [including -linux/4.8.5 which is from a -L option] > >> > > >> > > >> > '-lm -lpthread -ldl -liomp5 -lmkl_intel_thread -lmkl_core > >> -lmkl_intel_lp64' ? > >> > > >> > Is hypre configure reversing the arguments it got? Its changed from > >> > > >> > --with-blas-lib='... -lmkl_intel_lp64 -lmkl_core -lmkl_intel_thread > >> -liomp5 -ldl -lpthread -lm ...' > >> > > >> > I can reproduce this issue locally with: > >> > > >> > ./configure --download-hypre PETSC_ARCH=arch-hypre > >> --with-blas-lapack-dir=/soft/com/packages/intel/15/update3/mkl > >> --with-sowing=0 > >> > > >> > Satish > >> > > >> > On Sun, 28 Feb 2016, Eric Chamberland wrote: > >> > > >> >> Hi Barry, > >> >> > >> >> the configuration of hypre looks broken since last night...? > >> >> > >> >> Here is the log issued from our automatic compilation of > >> petsc-master.tar.gz > >> >> at 2016-02-28 02h00: > >> >> > >> >> > >> http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/configure_20160228_0200.log > >> >> > >> >> Everything was fine until last night... > >> >> > >> >> Thanks, > >> >> > >> >> Eric > >> >> > >> >> Le 2016-02-27 15:36, Barry Smith a écrit : > >> >>> PETSc Users, > >> >>> > >> >>> We are planning the PETSc release 3.7 shortly. If you know of any > >> bugs > >> >>> that need to be fixed or enhancements added before the release > >> please > >> >>> let us know. > >> >>> > >> >>> You can think of the master branch of the PETSc repository > >> obtainable > >> >>> with > >> >>> > >> >>> git clone https://bitbucket.org/petsc/petsc petsc > >> >>> > >> >>> as a release candidate for 3.7. Changes for the release are listed at > >> >>> http://www.mcs.anl.gov/petsc/documentation/changes/dev.html > >> >>> > >> >>> Thanks > >> >>> > >> >>> Barry > >> >>> > >> >> > >> >> > >> > >> > > > > > > -- > > What most experimenters take for granted before they begin their > > experiments is infinitely more interesting than any results to which their > > experiments lead. > > -- Norbert Wiener > > > > >
