[petsc-users] Problems running KSP ex59
Matthew Knepley
knepley at gmail.com
Tue Mar 28 08:12:25 CDT 2017
On Tue, Mar 28, 2017 at 3:46 AM, <vitse at lmt.ens-cachan.fr> wrote:
> Hi,
>
> I'm a fairly new PETSc user and I've been trying to look at ex59 for the
> last couple of days but I can't seem to have it working, nor can I really
> understand what's wrong. Maybe there are some options missing in the
> configuration? I'm also not sure wether the given warning is important or
> not during the make step...
>
> You'll find below both the make and run output, thanks in advance for the
> help.
>
> Matt
>
>
>
> * Here's the make output:
>
> vitse at sauternes:/ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/tutorials$
> make ex59
> *********************W-a-r-n-i-n-g*************************
> Your PETSC_DIR may not match the directory you are in
> PETSC_DIR /u/vitse/Documents/softs/petsc-3.7.5 Current directory
> /ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/tutorials
> Ignore this if you are running make test
> ******************************************************
> /u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/bin/mpicc -o
> ex59.o -c -Wall -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas
> -fvisibility=hidden -g3 -I/u/vitse/Documents/softs/petsc-3.7.5/include
> -I/u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/include
> `pwd`/ex59.c
> /u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/bin/mpicc -Wall
> -Wwrite-strings -Wno-strict-aliasing -Wno-unknown-pragmas
> -fvisibility=hidden -g3 -o ex59 ex59.o -Wl,-rpath,/u/vitse/Documents/
> softs/petsc-3.7.5/linux-gnu-c-debug/lib -L/u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/lib
> -Wl,-rpath,/u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/lib
> -Wl,-rpath,/usr/lib/gcc/x86_64-linux-gnu/6 -L/usr/lib/gcc/x86_64-linux-gnu/6
> -Wl,-rpath,/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu
> -Wl,-rpath,/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu -lpetsc -lcmumps
> -ldmumps -lsmumps -lzmumps -lmumps_common -lpord -lparmetis -lmetis
> -lscalapack -lHYPRE -lmpicxx -lstdc++ -lm -lflapack -lfblas -lptesmumps
> -lptscotch -lptscotcherr -lscotch -lscotcherr -lX11 -lhwloc -lpthread -lm
> -lmpifort -lgfortran -lm -lgfortran -lm -lquadmath -lmpicxx -lstdc++ -lm
> -lrt -lm -lpthread -lz -Wl,-rpath,/u/vitse/Documents/
> softs/petsc-3.7.5/linux-gnu-c-debug/lib -L/u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/lib
> -Wl,-rpath,/usr/lib/gcc/x86_64-linux-gnu/6 -L/usr/lib/gcc/x86_64-linux-gnu/6
> -Wl,-rpath,/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu
> -Wl,-rpath,/lib/x86_64-linux-gnu -L/lib/x86_64-linux-gnu
> -Wl,-rpath,/usr/lib/x86_64-linux-gnu -L/usr/lib/x86_64-linux-gnu -ldl
> -Wl,-rpath,/u/vitse/Documents/softs/petsc-3.7.5/linux-gnu-c-debug/lib
> -lmpi -lgcc_s -ldl
> /bin/rm -f ex59.o
>
>
> * and here's what I get when I run the test:
>
> vitse at sauternes:/ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/tutorials$
> mpiexec -n 4 ex59 -npx 2 -npy 2 -nex 2 -ney 2
>
This is likely to happen if 'mpiexec' in your path does not match the MPI
that you compiled PETSc with. If you configured with --download-mpich
or something like that, then use
$PETSC_DIR/$PETSC_ARCH/bin/mpiexec
Thanks,
Matt
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR:
> [0]PETSC ERROR: This is not a uniprocessor test
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Release Version 3.7.5, unknown
> [0]PETSC ERROR: ex59 on a linux-gnu-c-debug named sauternes by vitse Tue
> Mar 28 09:59:10 2017
> [0]PETSC ERROR: Configure options PETSC_DIR=/u/vitse/Documents/softs/petsc-3.7.5
> PETSC_ARCH=linux-gnu-c-debug --with-cc=gcc --with-cxx=g++
> --with-fc=gfortran --download-fblaslapack=1 --download-mpich=1
> --download-superflu-dist=1 --download-parmetis=1 --download-metis=1
> --download-ptscotch=1 --with-pcbddc=1 --download-hypre=1
> --download-scalapack=1 --download-mumps=1 --with-pcbddc=1
> [0]PETSC ERROR: #1 InitializeDomainData() line 934 in
> /ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/
> tutorials/ex59.c
> [0]PETSC ERROR: #2 main() line 1009 in /ul/vitse/Documents/softs/pets
> c-3.7.5/src/ksp/ksp/examples/tutorials/ex59.c
> [0]PETSC ERROR: PETSc Option Table entries:
> [0]PETSC ERROR: -nex 2
> [0]PETSC ERROR: -ney 2
> [0]PETSC ERROR: -npx 2
> [0]PETSC ERROR: -npy 2
> [0]PETSC ERROR: ----------------End of Error Message -------send entire
> error message to petsc-maint at mcs.anl.gov----------
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> [unset]: aborting job:
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> -------------------------------------------------------
> Primary job terminated normally, but 1 process returned
> a non-zero exit code.. Per user-direction, the job has been aborted.
> -------------------------------------------------------
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR:
> [0]PETSC ERROR: This is not a uniprocessor test
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Release Version 3.7.5, unknown
> [0]PETSC ERROR: ex59 on a linux-gnu-c-debug named sauternes by vitse Tue
> Mar 28 09:59:10 2017
> [0]PETSC ERROR: Configure options PETSC_DIR=/u/vitse/Documents/softs/petsc-3.7.5
> PETSC_ARCH=linux-gnu-c-debug --with-cc=gcc --with-cxx=g++
> --with-fc=gfortran --download-fblaslapack=1 --download-mpich=1
> --download-superflu-dist=1 --download-parmetis=1 --download-metis=1
> --download-ptscotch=1 --with-pcbddc=1 --download-hypre=1
> --download-scalapack=1 --download-mumps=1 --with-pcbddc=1
> [0]PETSC ERROR: #1 InitializeDomainData() line 934 in
> /ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/
> tutorials/ex59.c
> [0]PETSC ERROR: #2 main() line 1009 in /ul/vitse/Documents/softs/pets
> c-3.7.5/src/ksp/ksp/examples/tutorials/ex59.c
> [0]PETSC ERROR: PETSc Option Table entries:
> [0]PETSC ERROR: -nex 2
> [0]PETSC ERROR: -ney 2
> [0]PETSC ERROR: -npx 2
> [0]PETSC ERROR: -npy 2
> [0]PETSC ERROR: ----------------End of Error Message -------send entire
> error message to petsc-maint at mcs.anl.gov----------
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> [unset]: aborting job:
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR:
> [0]PETSC ERROR: This is not a uniprocessor test
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Release Version 3.7.5, unknown
> [0]PETSC ERROR: ex59 on a linux-gnu-c-debug named sauternes by vitse Tue
> Mar 28 09:59:10 2017
> [0]PETSC ERROR: Configure options PETSC_DIR=/u/vitse/Documents/softs/petsc-3.7.5
> PETSC_ARCH=linux-gnu-c-debug --with-cc=gcc --with-cxx=g++
> --with-fc=gfortran --download-fblaslapack=1 --download-mpich=1
> --download-superflu-dist=1 --download-parmetis=1 --download-metis=1
> --download-ptscotch=1 --with-pcbddc=1 --download-hypre=1
> --download-scalapack=1 --download-mumps=1 --with-pcbddc=1
> [0]PETSC ERROR: #1 InitializeDomainData() line 934 in
> /ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/
> tutorials/ex59.c
> [0]PETSC ERROR: #2 main() line 1009 in /ul/vitse/Documents/softs/pets
> c-3.7.5/src/ksp/ksp/examples/tutorials/ex59.c
> [0]PETSC ERROR: PETSc Option Table entries:
> [0]PETSC ERROR: -nex 2
> [0]PETSC ERROR: -ney 2
> [0]PETSC ERROR: -npx 2
> [0]PETSC ERROR: -npy 2
> [0]PETSC ERROR: ----------------End of Error Message -------send entire
> error message to petsc-maint at mcs.anl.gov----------
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> [unset]: aborting job:
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR:
> [0]PETSC ERROR: This is not a uniprocessor test
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> [0]PETSC ERROR: Petsc Release Version 3.7.5, unknown
> [0]PETSC ERROR: ex59 on a linux-gnu-c-debug named sauternes by vitse Tue
> Mar 28 09:59:10 2017
> [0]PETSC ERROR: Configure options PETSC_DIR=/u/vitse/Documents/softs/petsc-3.7.5
> PETSC_ARCH=linux-gnu-c-debug --with-cc=gcc --with-cxx=g++
> --with-fc=gfortran --download-fblaslapack=1 --download-mpich=1
> --download-superflu-dist=1 --download-parmetis=1 --download-metis=1
> --download-ptscotch=1 --with-pcbddc=1 --download-hypre=1
> --download-scalapack=1 --download-mumps=1 --with-pcbddc=1
> [0]PETSC ERROR: #1 InitializeDomainData() line 934 in
> /ul/vitse/Documents/softs/petsc-3.7.5/src/ksp/ksp/examples/
> tutorials/ex59.c
> [0]PETSC ERROR: #2 main() line 1009 in /ul/vitse/Documents/softs/pets
> c-3.7.5/src/ksp/ksp/examples/tutorials/ex59.c
> [0]PETSC ERROR: PETSc Option Table entries:
> [0]PETSC ERROR: -nex 2
> [0]PETSC ERROR: -ney 2
> [0]PETSC ERROR: -npx 2
> [0]PETSC ERROR: -npy 2
> [0]PETSC ERROR: ----------------End of Error Message -------send entire
> error message to petsc-maint at mcs.anl.gov----------
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> [unset]: aborting job:
> application called MPI_Abort(MPI_COMM_WORLD, 83) - process 0
> --------------------------------------------------------------------------
> mpiexec detected that one or more processes exited with non-zero status,
> thus causing
> the job to be terminated. The first process to do so was:
>
> Process name: [[40774,1],1]
> Exit code: 83
> --------------------------------------------------------------------------
>
>
>
--
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-users/attachments/20170328/48fd0c09/attachment-0001.html>
More information about the petsc-users
mailing list