[petsc-dev] PETSC's compilation
David sheehan
david.sheehanjr at gmail.com
Wed Mar 24 14:14:02 CDT 2010
Appreciate your help. Sorry for the effect.
David
On Wed, Mar 24, 2010 at 2:08 PM, Matthew Knepley <knepley at gmail.com> wrote:
> Instead of mailing questions to petsc-dev at mcs.anl.gov, mail your questions
> to
>
> petsc-maint at mcs.anl.gov
>
> Please start a new thread (do not reply to this one).
>
> Matt
>
>
> On Wed, Mar 24, 2010 at 2:03 PM, David sheehan <david.sheehanjr at gmail.com>wrote:
>
>> How can I be added in the list of petsc-maint? thanks.
>>
>> David
>>
>> On Wed, Mar 24, 2010 at 12:45 PM, Matthew Knepley <knepley at gmail.com>wrote:
>>
>>> On Wed, Mar 24, 2010 at 12:35 PM, David sheehan <
>>> david.sheehanjr at gmail.com> wrote:
>>>
>>>> Matt already moved it to petsc-maint before.
>>>> can you help me to fix the build-up of PETSC and HYPRE? thanks in
>>>> advance.
>>>>
>>>
>>> This is the last time I will tell you this before removing you from the
>>> list. Do not post
>>> these questions here.
>>>
>>> Matt
>>>
>>>
>>>>
>>>> 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
>>>>> > >
>>>>> >
>>>>>
>>>>>
>>>>
>>>
>>>
>>> --
>>> 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
>>>
>>
>>
>
>
> --
> 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
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-dev/attachments/20100324/0a459d08/attachment.html>
More information about the petsc-dev
mailing list