On Tue, Aug 28, 2012 at 4:49 PM, Chris Eldred <chris.eldred at gmail.com>wrote:
> I am getting a segmentation fault when calling PetscSectionCreate. The > error is: > [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: likely location of problem given in stack below > [0]PETSC ERROR: --------------------- Stack Frames > ------------------------------------ > [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not > available, > [0]PETSC ERROR: INSTEAD the line number of the start of the function > [0]PETSC ERROR: is given. > [0]PETSC ERROR: [0] PetscTrMallocDefault line 183 > /home/user/Desktop/LIBRARIES/petsc-dev/src/sys/memory/mtr.c > [0]PETSC ERROR: [0] PetscSectionCreate line 37 > /home/user/Desktop/LIBRARIES/petsc-dev/src/vec/vec/impls/seq/vsection.c > [0]PETSC ERROR: --------------------- Error Message > ------------------------------------ > [0]PETSC ERROR: Signal received! > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: Petsc Development HG revision: > b6fe82991deee4a0d3f9a20654bc7750a6b1fe0f HG Date: Mon Aug 27 13:17:10 > 2012 -0500 > [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: ./test on a arch-linu named Puget-101334 by user Tue > Aug 28 15:47:36 2012 > [0]PETSC ERROR: Libraries linked from > /home/user/Desktop/LIBRARIES/petsc-dev/arch-linux2-cxx-debug/lib > [0]PETSC ERROR: Configure run at Mon Aug 27 12:55:14 2012 > [0]PETSC ERROR: Configure options --download-boost --download-chaco > --download-ctetgen --download-f-blas-lapack --download-fiat > --download-generator --download-metis --download-ml --download-mpich > --download-parmetis --download-scientificpython --download-triangle > --with-clanguage=cxx --with-dynamic-loading --with-shared-libraries > --with-sieve PETSC_ARCH=arch-linux2-cxx-debug > [0]PETSC ERROR: > ------------------------------------------------------------------------ > [0]PETSC ERROR: User provided function() line 0 in unknown directory > unknown file > application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0 > [unset]: aborting job: > application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0 > > The relevant code section is: > >From a recent petsc-users reply: Okay, there was a bug in the Fortran stub generation for this type. I have pushed a fix for this. In order to get these to rebuild, you need to rm $PETSC_DIR/$PETSC_ARCH/bin/bfort rm -rf $PETSC_DIR/externalpackages/sowing* cd $PETSC_DIR cd externalpackages hg clone http://petsc.cs.iit.edu/petsc/externalpackages/sowing-1.1.16/ ./$PETSC_ARCH/conf/reconfigure-$PETSC_ARCH.py Then you can run src/vec/vec/examples/tests/ex40f90.F Thanks Matt > call PetscSectionCreate(PETSC_COMM_WORLD, section, ierr) > CHKERRQ(ierr) > > call PetscSectionSetChart(section, 0, 11, ierr) > CHKERRQ(ierr) > do p=0,10 > call PetscSectionSetDof(section, p, 3, ierr) > CHKERRQ(ierr) > end do > call PetscSectionSetUp(section, ierr) > CHKERRQ(ierr) > > call PetscSectionView(section, PETSC_VIEWER_STDOUT_WORLD, ierr) > CHKERRQ(ierr) > > call PetscSectionDestroy(section, ierr) > CHKERRQ(ierr) > > Ideas? > > -- > Chris Eldred > DOE Computational Science Graduate Fellow > Graduate Student, Atmospheric Science, Colorado State University > B.S. Applied Computational Physics, Carnegie Mellon University, 2009 > chris.eldred at gmail.com > -- 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/20120828/3d8b2d92/attachment-0001.html>