[petsc-users] Spectrum slicing with MUMPS (Segmentation fault)

Tue Jul 19 09:50:09 CDT 2016

"I got INFOG(1)=-22 error from MUMPS in another run. " does not tell much
about the error (check MUMPS's user manual). Suggest building petsc in
debugging mode, then you may get more error info.

Hong

On Tue, Jul 19, 2016 at 9:42 AM, Jose E. Roman <jroman at dsic.upv.es> wrote:

> SuperLU_dist can be used in general with shift-and-invert, but for
> spectrum slicint (eps_interval) it does not work because it does not
> provide inertia (MatGetInertia) which is required in that case.
>
> Jose
>
>
> > El 19 jul 2016, a las 16:38, Matthew Knepley <knepley at gmail.com>
> escribió:
> >
> > On Tue, Jul 19, 2016 at 12:42 PM, Hassan Md Mahmudulla <
> mhassan at miners.utep.edu> wrote:
> > Hi all,
> >
> > I have been trying spectrum slicing with MUMPS external solver. The
> error output is the following:
> >
> > A stack trace in the debugger would help, but it sounds like an error in
> MUMPS. You can try SuperLU_dist instead.
> >
> >   Thanks,
> >
> >     Matt
> >
> > [0]PETSC ERROR:
> ------------------------------------------------------------------------
> > [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
> probably memory access out of range
> > [0]PETSC ERROR: Try option -start_in_debugger or
> -on_error_attach_debugger
> > [0]PETSC ERROR: or see
> http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
> > [0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple Mac
> OS X to find memory corruption errors
> > [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link,
> and run
> > [0]PETSC ERROR: to get more information on the crash.
> > [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> > [0]PETSC ERROR: Signal received
> > [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
> for trouble shooting.
> > [0]PETSC ERROR: Petsc Release Version 3.5.3, Jan, 31, 2015
> > [0]PETSC ERROR:
> /scratch1/scratchdirs/mhassan/dSLEPc/d540/../eigenSolverSS on a sandybridge
> named nid00281 by mhassan Tue Jul 19 02:54
> > :00 2016
> > [0]PETSC ERROR: Configure options --known-mpi-int64_t=0
> --known-bits-per-byte=8 --known-sdot-returns-double=0
> --known-snrm2-returns-do
> > uble=0 --known-level1-dcache-assoc=0 --known-level1-dcache-linesize=32
> --known-level1-dcache-size=32768 --known-memcmp-ok=1 --known-mp
> > i-c-double-complex=1 --known-mpi-long-double=1
> --known-mpi-shared-libraries=0 --known-sizeof-MPI_Comm=4
> --known-sizeof-MPI_Fint=4 --kn
> > own-sizeof-char=1 --known-sizeof-double=8 --known-sizeof-float=4
> --known-sizeof-int=4 --known-sizeof-long-long=8 --known-sizeof-long=8
> >  --known-sizeof-short=2 --known-sizeof-size_t=8 --known-sizeof-void-p=8
> --with-ar=ar --with-batch=1 --with-cc=cc --with-clib-autodetec
> > t=0 --with-cxx=CC --with-cxxlib-autodetect=0 --with-debugging=0
> --with-dependencies=0 --with-fc=ftn --with-fortran-datatypes=0 --with-
> > fortran-interfaces=0 --with-fortranlib-autodetect=0 --with-ranlib=ranlib
> --with-scalar-type=real --with-shared-ld=ar --with-etags=0 --
> > with-dependencies=0 --with-dependencies=0
> --with-mpi-dir=/opt/cray/mpt/7.0.0/gni/mpich2-intel/140 --with-superlu=1
> --with-superlu-incl
> > ude=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/include
> --with-superlu-lib=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/lib/libsuperlu.a
> > --with-superlu_dist=1
> --with-superlu_dist-include=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/include
> --with-superlu_dist-lib=/opt/cray
> > /tpsl/1.4.4/INTEL/140/sandybridge/lib/libsuperlu_dist.a
> --with-parmetis=1
> --with-parmetis-include=/opt/cray/tpsl/1.4.4/INTEL/140/sandy
> > bridge/include
> --with-parmetis-lib=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/lib/libparmetis.a
> --with-metis=1 --with-metis-include=/o
> > pt/cray/tpsl/1.4.4/INTEL/140/sandybridge/include
> --with-metis-lib=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/lib/libmetis.a
> --with-pts
> > cotch=1
> --with-ptscotch-include=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/include
> --with-ptscotch-lib="-L/opt/cray/tpsl/1.4.4/INTEL/1
> > 40/sandybridge/lib -lptscotch -lscotch -lptscotcherr -lscotcherr"
> --with-scalapack=1 --with-scalapack-include=/opt/cray/libsci/13.0.3/
> > INTEL/140/x86_64/include
> --with-scalapack-lib="-L/opt/cray/libsci/13.0.3/INTEL/140/x86_64/lib
> -lsci_intel_mpi_mp -lsci_intel_mp" --wit
> > h-mumps=1
> --with-mumps-include=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/include
> --with-mumps-lib="-L/opt/cray/tpsl/1.4.4/INTEL/140/s
> > andybridge/lib -lcmumps -ldmumps -lesmumps -lsmumps -lzmumps
> -lmumps_common -lptesmumps -lpord" --CFLAGS="-xavx -openmp -O3 " --CXXFLA
> > GS="-xavx -openmp -O3  " --FFLAGS="-xavx -openmp -O3  " --LIBS=-lstdc++
> --CXX_LINKER_FLAGS= --PETSC_ARCH=sandybridge --prefix=/opt/cra
> > y/petsc/3.5.3.0/real/INTEL/140/sandybridge --with-hypre=1
> --with-hypre-include=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/include --wi
> > th-hypre-lib=/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/lib/libHYPRE.a
> --with-sundials=1 --with-sundials-include=/opt/cray/tpsl/1.4.4/
> > INTEL/140/sandybridge/include
> --with-sundials-lib="-L/opt/cray/tpsl/1.4.4/INTEL/140/sandybridge/lib
> -lsundials_cvode -lsundials_cvodes
> >  -lsundials_ida -lsundials_idas -lsundials_kinsol
> -lsundials_nvecparallel -lsundials_nvecserial"
> > [0]PETSC ERROR: #1 User provided function() line 0 in  unknown file
> > Rank 0 [Tue Jul 19 02:54:04 2016] [c1-0c1s6n1] application called
> MPI_Abort(MPI_COMM_WORLD, 59) - process 0
> > srun: error: nid00281: task 0: Aborted
> > srun: Terminating job step 1330433.0
> > slurmstepd: *** STEP 1330433.0 ON nid00281 CANCELLED AT
> 2016-07-19T02:54:04 ***
> > srun: Job step aborted: Waiting up to 32 seconds for job step to finish.
> > srun: error: nid00281: tasks 1-17: Killed
> > srun: error: nid00282: tasks 18-35: Killed
> >
> >
> >
> > I ran the same code in my pc with 8 processor. It had no issues. But
> when I tried in a different machine, I am getting this. Any idea? Can I use
> Superlu_dist instead of MUMPS? I got INFOG(1)=-22 error from MUMPS in
> another run.
> >
> >
> >
> > Thanks,
> >
> >
> >
> > M Hassan
> >
> >
> >
> >
> > --
> > 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
>
>
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