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

Satish Balay balay at mcs.anl.gov
Sun Feb 28 15:00:59 CST 2016 

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
> >
> 
>

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