| Hi,
Maybe there is a problem with the output-to-screen buffer. A not very uncommon problem if you use a job-scheduler. Try to add unbuffer (if it is available in your system) in your script file and see if it improves.
With best regards, Shaman Mahmoudi On Jan 16, 2007, at 8:56 AM, Ben Tay wrote: Hi Pan, I also got very big library files if I use PETSc with mpich2. Btw, I have tried several options but I still don't understand why I can't get mpi to work with PETSc. The 4 processors are running together but each running its own code. I just use integer :: nprocs,rank,ierr call PetscInitialize(PETSC_NULL_CHARACTER,ierr) call MPI_Comm_rank(PETSC_COMM_WORLD,rank,ierr)
call MPI_Comm_size(PETSC_COMM_WORLD,nprocs,ierr) print *, rank, nprocs call PetscFinalize(ierr)
The answers I get is 0,1 repeated 4 times instead of 0,4 1,4 2,4 3,4. I'm using my school's server's mpich and it work if I just compile in pure mpi. Btw, if I need to send the job to 4 processors, I need to use a script file: #BSUB -o std-output
#BSUB -q linux_parallel_test
#BSUB -n 4
/usr/lsf6/bin/mpijob_gm /opt/mpich/myrinet/intel/bin/mpirun a.out I wonder if the problem lies here...
Thank you.
On 1/16/07, li pan <li76pan@xxxxxxxxx> wrote: I did try to download and install petsc2.3.2, but end
up with error: mpich can not be download & installed,
please install mpich for windows manually.
In the homepage of mpich2, I didn't choose the version
for windows but the source code version. And compiled
it by myself. Then, I gave the --with-mpi-dir="install
dir". Petsc was configured, and now it's doing "make".
One interesting thing is, I installed petsc in linux
before. The mpi libraries were very large
(libmpich.a==60 mb). But this time in cygwin it was
only several mbs.
best
pan
--- Ben Tay <zonexo@xxxxxxxxx> wrote:
> hi,
>
> i install PETSc using the following command:
>
> ./config/configure.py --with-vendor-compilers=intel
> --with-gnu-compilers=0
>
--with-blas-lapack-dir=/lsftmp/g0306332/inter/mkl/lib/32
> --with-mpi-dir=/opt/mpich/intel/ --with-x=0
> --with-shared
>
> then i got:
>
> Compilers:
>
> C Compiler: /opt/mpich/intel/bin/mpicc
> -fPIC -g
> Fortran Compiler: /opt/mpich/intel/bin/mpif90
> -I. -fPIC -g -w90 -w
> Linkers:
> Shared linker: /opt/mpich/intel/bin/mpicc
> -shared -fPIC -g
> Dynamic linker: /opt/mpich/intel/bin/mpicc
> -shared -fPIC -g
> PETSc:
> PETSC_ARCH: linux-mpif90
> PETSC_DIR: /nas/lsftmp/g0306332/petsc-2.3.2-p8
> **
> ** Now build and test the libraries with "make all
> test"
> **
> Clanguage: C
> Scalar type:real
> MPI:
> Includes: ['/opt/mpich/intel/include']
> PETSc shared libraries: enabled
> PETSc dynamic libraries: disabled
> BLAS/LAPACK:
> -Wl,-rpath,/lsftmp/g0306332/inter/mkl/lib/32
> -L/lsftmp/g0306332/inter/mkl/lib/32 -lmkl_lapack
> -lmkl_ia32 -lguide
>
> i ran "make all test" and everything seems fine
>
> /opt/mpich/intel/bin/mpicc -c -fPIC -g
>
-I/nas/lsftmp/g0306332/petsc-2.3.2-p8-I/nas/lsftmp/g0306332/petsc-
> 2.3.2-p8/bmake/linux-mpif90
> -I/nas/lsftmp/g0306332/petsc-2.3.2-p8/include
> -I/opt/mpich/intel/include
> -D__SDIR__="src/snes/examples/tutorials/" ex19.c
> /opt/mpich/intel/bin/mpicc -fPIC -g -o ex19
> ex19.o-Wl,-rpath,/nas/lsftmp/g0306332/petsc-
> 2.3.2-p8/lib/linux-mpif90
>
-L/nas/lsftmp/g0306332/petsc-2.3.2-p8/lib/linux-mpif90
> -lpetscsnes -lpetscksp -lpetscdm -lpetscmat
> -lpetscvec -lpetsc
> -Wl,-rpath,/lsftmp/g0306332/inter/mkl/lib/32
> -L/lsftmp/g0306332/inter/mkl/lib/32 -lmkl_lapack
> -lmkl_ia32 -lguide
> -lPEPCF90 -Wl,-rpath,/opt/intel/compiler70/ia32/lib
> -Wl,-rpath,/opt/mpich/intel/lib
> -L/opt/mpich/intel/lib -Wl,-rpath,-rpath
> -Wl,-rpath,-ldl -L-ldl -lmpich
> -Wl,-rpath,/opt/intel/compiler70/ia32/lib
> -Wl,-rpath,/opt/intel/compiler70/ia32/lib
> -L/opt/intel/compiler70/ia32/lib
> -Wl,-rpath,/usr/lib -Wl,-rpath,/usr/lib -L/usr/lib
> -limf -lirc -lcprts -lcxa
> -lunwind -ldl -lmpichf90 -lPEPCF90
> -Wl,-rpath,/opt/intel/compiler70/ia32/lib
> -L/opt/intel/compiler70/ia32/lib -Wl,-rpath,/usr/lib
> -L/usr/lib -lintrins
> -lIEPCF90 -lF90 -lm -Wl,-rpath,\ -Wl,-rpath,\ -L\
> -ldl -lmpich
> -Wl,-rpath,/opt/intel/compiler70/ia32/lib
> -L/opt/intel/compiler70/ia32/lib
> -Wl,-rpath,/usr/lib -L/usr/lib -limf -lirc -lcprts
> -lcxa -lunwind -ldl
> /bin/rm -f ex19.o
> 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
> Fortran example src/snes/examples/tutorials/ex5f run
> successfully with 1 MPI
> process
> Completed test examples
>
> I then tried to run my own parallel code. It's a
> simple code which prints
> the rank of each processor.
>
> If I compile the code using just mpif90 test.F(using
> just mpif.h)
>
> I get 0,1,2,3 (4 processors).
>
> however, if i change the code to use petsc.h etc
> ie.
>
>
> program ns2d_c
>
> implicit none
>
>
> #include "include/finclude/petsc.h"
> #include "include/finclude/petscvec.h"
> #include "include/finclude/petscmat.h"
> #include "include/finclude/petscksp.h"
> #include "include/finclude/petscpc.h"
> #include "include/finclude/petscmat.h90"
>
> integer,parameter :: size_x=8,size_y=4
>
> integer ::
> ierr,Istart_p,Iend_p,Ntot,Istart_m,Iend_m,k
>
> PetscMPIInt nprocs,rank
>
>
>
>
> call PetscInitialize(PETSC_NULL_CHARACTER,ierr)
>
> call
> MPI_Comm_rank(PETSC_COMM_WORLD,rank,ierr)
>
> call
> MPI_Comm_size(PETSC_COMM_WORLD,nprocs,ierr)
>
> end program ns2d_c
>
>
>
> i then rename the filename to ex2f.F and use "make
> ex2f"
>
> the result I get is something like 0,0,0,0.
>
>
>
> Why is this so?
>
> Thank you.
>
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