[petsc-dev] PETSC's compilation
David sheehan
david.sheehanjr at gmail.com
Wed Mar 24 12:35:35 CDT 2010
Matt already moved it to petsc-maint before.
can you help me to fix the build-up of PETSC and HYPRE? thanks in advance.
David
On Wed, Mar 24, 2010 at 12:09 PM, Satish Balay <balay at mcs.anl.gov> wrote:
> moving this discussion to petsc-maint. Not appropriate for petsc-dev
>
> satish
>
> On Wed, 24 Mar 2010, David sheehan wrote:
>
> > That was an old try.
> >
> > My new try including all output information is the following. Everything
> is
> > OK except for "make test" has one error.
> > I checked the library of HYPRE. All HYPRE libs have been created, but
> they
> > cannot be installed with PETSC libs.
> > And I manually copy all HYPRE libs into the directory of the
> final-installed
> > PETSC's libs, but "make test" still has
> > the same problem.
> >
> > Please fix it, thanks.
> >
> > David
> > -----------------------------------------------the final installed
> >
> libs-------------------------------------------------------------------------------------------------
> > [ petsc-2.3.3-p15]$ ls /home/David/petsc233-p15/lib/linux-gnu-c-debug/
> > libpetsc.a libpetscdm.a libpetscmat.a libpetscts.a
> > libpetsccontrib.a libpetscksp.a libpetscsnes.a libpetscvec.a
> > ------------------------------------------------PETSC
> >
> libs---------------------------------------------------------------------------------------------------
> > [ petsc-2.3.3-p15]$ ls lib/linux-gnu-c-debug/
> > libpetsc.a libpetscdm.a libpetscmat.a libpetscts.a
> > libpetsccontrib.a libpetscksp.a libpetscsnes.a libpetscvec.a
> >
> > --------------------------------------------------HYPRE
> >
> libs-------------------------------------------------------------------------------------------------
> >
> >
> > [ petsc-2.3.3-p15]$ ls
> externalpackages/hypre-2.0.0/linux-gnu-c-debug/lib/
> > libHYPRE.a libHYPRE_MatrixMatrix.a
> > libHYPRE_sstruct_ls.a
> > libHYPRE_DistributedMatrix.a libHYPRE_multivector.a
> > libHYPRE_sstruct_mv.a
> > libHYPRE_DistributedMatrixPilutSolver.a libHYPRE_ParaSails.a
> > libHYPRE_struct_ls.a
> > libHYPRE_Euclid.a libHYPRE_parcsr_block_mv.a
> > libHYPRE_struct_mv.a
> > libHYPRE_IJ_mv.a libHYPRE_parcsr_ls.a
> > libHYPRE_utilities.a
> > libHYPRE_krylov.a libHYPRE_parcsr_mv.a
> > libHYPRE_LSI.a libHYPRE_seq_mv.a
> >
> ----------------------------------------configure------------------------------------------------------------------------------------------------------
> > [ petsc-2.3.3-p15]$ export PETSC_DIR=$PWD
> > [ petsc-2.3.3-p15]$ ./config/configure.py
> --prefix=/home/David/petsc233-p15
> > --with-cc=gcc --with-cxx=g++ --with-fc=ifort --with-mpi-dir=/opt/openmpi
> > --with-hypre=1 --download-hypre=ifneeded
> >
> =================================================================================
> > Configuring PETSc to compile on your system
> >
> =================================================================================
> > TESTING: configureLibrary from
> > PETSc.packages.hypre(python/PETSc/packages/hypre.py:120)
> > using: --with-MPI-include="/opt/openmpi/include"
> > Compilers:
> > C Compiler: gcc -fPIC -Wall -Wwrite-strings
> -Wno-strict-aliasing
> > -g3
> > C++ Compiler: g++ -Wall -Wwrite-strings -Wno-strict-aliasing -g
> > -fPIC
> > Fortran Compiler: ifort -fPIC -g
> > Linkers:
> > Shared linker: gcc -shared -fPIC -Wall -Wwrite-strings
> > -Wno-strict-aliasing -g3
> > Dynamic linker: gcc -shared -fPIC -Wall -Wwrite-strings
> > -Wno-strict-aliasing -g3
> > PETSc:
> > **
> > ** Before running "make" your PETSC_ARCH must be specified with:
> > ** ** setenv PETSC_ARCH linux-gnu-c-debug (csh/tcsh)
> > ** ** PETSC_ARCH=linux-gnu-c-debug; export PETSC_ARCH (sh/bash)
> > **
> > PETSC_DIR: /home/David/petsc/petsc-2.3.3-p15
> > **
> > ** Now build and test the libraries with "make all test"
> > **
> > Clanguage: C
> > PETSc shared libraries: disabled
> > PETSc dynamic libraries: disabled
> > Scalar type:real
> > MPI:
> > Includes: ['/opt/openmpi/include']
> > Library: ['/opt/openmpi/lib/libmpi.a']
> > X11:
> > Includes: ['-I/usr/X11R6/include']
> > Library: ['-L/usr/X11R6/lib -lX11']
> > BLAS/LAPACK: -llapack -lblas
> > hypre:
> > Includes:
> >
> ['/home/David/petsc/petsc-2.3.3-p15/externalpackages/hypre-2.0.0/linux-gnu-c-debug/include']
> > Library:
> >
> ['/home/David/petsc/petsc-2.3.3-p15/externalpackages/hypre-2.0.0/linux-gnu-c-debug/lib/libHYPRE.a',
> > '-Wl,-rpath,/usr/lib/gcc/i386-redhat-linux/3.4.6',
> > '-Wl,-rpath,/usr/lib/gcc/i386-redhat-linux/3.4.6/../../..', '-lstdc++']
> > ---------------------------------------------------make
> >
> install---------------------------------------------------------------------------------
> > Installing PETSc at /home/David/petsc233-p15
> > Shared libraries disabled
> > sh/bash: PETSC_DIR=/home/David/petsc233-p15; export PETSC_DIR
> > csh/tcsh: setenv PETSC_DIR /home/David/petsc233-p15
> > Then do make test to verify correct install
> > ---------------------------------------------------make
> >
> test-------------------------------------------------------------------------------------
> > Running test examples to verify correct installation
> > C/C++ example src/snes/examples/tutorials/ex19 run successfully with 1
> MPI
> > process
> > C/C++ example src/snes/examples/tutorials/ex19 run successfully with 2
> MPI
> > processes
> > Possible error running Graphics examples src/snes/examples/tutorials/ex19
> 1
> > MPI process
> > See
> http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html
> > lid velocity = 0.0016, prandtl # = 1, grashof # = 1
> > [0]PETSC ERROR: --------------------- Error Message
> > ------------------------------------
> > [0]PETSC ERROR: Error in external library!
> > [0]PETSC ERROR: Unable to open display on apmachine:0.0
> > . Make sure your COMPUTE NODES are authorized to connect
> > to this X server and either your DISPLAY variable
> > is set or you use the -display name option
> > !
> > [0]PETSC ERROR:
> > ------------------------------------------------------------------------
> > [0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 15, Tue Sep 23
> 10:02:49
> > CDT 2008 HG revision: 31306062cd1a6f6a2496fccb4878f485c9b91760
> > [0]PETSC ERROR: See docs/changes/index.html for recent updates.
> > [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
> > [0]PETSC ERROR: See docs/index.html for manual pages.
> > [0]PETSC ERROR:
> > ------------------------------------------------------------------------
> > [0]PETSC ERROR: ./ex19 on a linux-gnu named apmachine by David Wed Mar 24
> > 11:41:48 2010
> > [0]PETSC ERROR: Libraries linked from
> > /home/David/petsc233-p15/lib/linux-gnu-c-debug
> > [0]PETSC ERROR: Configure run at Wed Mar 24 11:21:40 2010
> > [0]PETSC ERROR: Configure options --prefix=/home/David/petsc233-p15
> > --with-cc=gcc --with-cxx=g++ --with-fc=ifort --with-mpi-dir=/opt/openmpi
> > --with-hypre=1 --download-hypre=ifneeded --with-shared=0
> > [0]PETSC ERROR:
> > ------------------------------------------------------------------------
> > [0]PETSC ERROR: PetscDrawXGetDisplaySize_Private() line 618 in
> > src/sys/draw/impls/x/xops.c
> > [0]PETSC ERROR: PETSc unable to use X windows
> > proceeding without graphics
> > Number of Newton iterations = 2
> > lid velocity = 0.0016, prandtl # = 1, grashof # = 1
> > Number of Newton iterations = 2
> > Fortran example src/snes/examples/tutorials/ex5f run successfully with 1
> MPI
> > process
> > Completed test examples
> >
> > On Wed, Mar 24, 2010 at 9:35 AM, Satish Balay <balay at mcs.anl.gov> wrote:
> >
> > > On Tue, 23 Mar 2010, David sheehan wrote:
> > >
> > > > I try openmpi, there are the following error,
> > > >
> > > > ./configure --prefix=/home/David/petsc300p11_openmpi --with-cc=gcc
> > > > --with-cxx=g++ --with-fc=ifort --download-openmpi=1
> --download-hypre=1
> > > >
> > >
> =================================================================================
> > > > Configuring PETSc to compile on your system
> > > >
> > >
> =================================================================================
> > > > TESTING: check from
> > > > config.libraries(config/BuildSystem/config/libraries.py:126)
> > > >
> > >
> *********************************************************************************
> > > > UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log
> for
> > > > details):
> > > >
> > >
> ---------------------------------------------------------------------------------------
> > > > Currently --download-openmpi option does not work with --prefix
> install.
> > > > Suggest installing OpenMPI separately, and then configuring PETSc
> with
> > > > --with-mpi-dir option.
> > > >
> > >
> *********************************************************************************
> > > >
> > > > How to fix it? thanks.
> > >
> > > configure already gave the answer to your question
> > >
> > > satish
> > >
> >
>
>
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