[petsc-dev] PETSc release soon, request for input on needed fixes or enhancements

Matthew Knepley knepley at gmail.com
Sun Feb 28 16:43:57 CST 2016 

On Sun, Feb 28, 2016 at 3:12 PM, Barry Smith <bsmith at mcs.anl.gov> 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 ;)

   Matt


>
>    Barry
>
> > On Feb 28, 2016, at 3:00 PM, Satish Balay <balay at mcs.anl.gov> 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
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