Hi All
I'm receiving an error with mri_cvs_register from FS 5.1 on a 64-bit Mac 10.6.7 system and was hoping for some help. It's the same error with the 3 subjects I've tried it on, and occurs both before and after using the mri_cvs_register that was updated on Jun 10th. I'm including the last few lines of the log file.
Thanks
David
---------LOG----------
step = 12
===============
elt_vol= 15.0625
Constructing Delaunay tetrahedralization.
Delaunay seconds: 7.9e-05
Creating surface mesh.
Perturbing vertices.
Delaunizing segments.
Constraining facets.
Segment and facet seconds: 0.000686
Removing unwanted tetrahedra.
Hole seconds: 3.3e-05
Repairing mesh.
Repair seconds: 6.9e-05
Adding Steiner points to enforce quality.
Quality seconds: 4.27942
Smoothing mesh.
Smooth seconds: 0.299788
Writing nodes.
Writing elements.
Writing faces.
Output seconds: 0.036639
Total running seconds: 4.61682
Statistics:
Input points: 8
Input facets: 6
Input holes: 0
Input regions: 0
Mesh points: 81870
Mesh tetrahedra: 491585
Mesh faces: 995562
Mesh subfaces: 24784
Mesh subsegments: 530
Saving nodes to iteration.node
Saving elements to iteration.ele
Saving faces to iteration.face
mesh nodes = 81870 mesh elts = 491585
building index src
done building the list
count inserted = 0 elapsed = 0 seconds element count = 1
count inserted = 100000 elapsed = 0.302 seconds element count = 1128168
count inserted = 200000 elapsed = 0.496 seconds element count = 3256402
count inserted = 300000 elapsed = 0.411 seconds element count = 5222879
count inserted = 400000 elapsed = 0.343 seconds element count = 7039018
done building octree - total elements = 8705605
penalty_weight = 1000
setting bc 205.891 174.948 225.515 -> 0 0 0
instead 205.881 174.938 225.505 -> norm = 0.0173205
setting bc 205.891 174.948 27.6148 -> 0 0 0
instead 205.881 174.938 27.6248 -> norm = 0.0173205
setting bc 205.891 35.1985 225.515 -> 0 0 0
instead 205.881 35.2085 225.505 -> norm = 0.0173205
setting bc 205.891 35.1985 27.6148 -> 0 0 0
instead 205.881 35.2085 27.6248 -> norm = 0.0173205
setting bc 52.3002 174.948 225.515 -> 0 0 0
instead 52.3102 174.938 225.505 -> norm = 0.0173205
setting bc 52.3002 174.948 27.6148 -> 0 0 0
instead 52.3102 174.938 27.6248 -> norm = 0.0173205
setting bc 52.3002 35.1985 225.515 -> 0 0 0
instead 52.3102 35.2085 225.505 -> norm = 0.0173205
setting bc 52.3002 35.1985 27.6148 -> 0 0 0
instead 52.3102 35.2085 27.6248 -> norm = 0.0173205
computing statistics for the displacement application error
average norm of error in placement = 0.0173205
iterating
done with candidates
Active BCs = 92200
Total BCs = 548640
no-eqs = 245610
surf2vol(4634) malloc: *** mmap(size=295714816) failed (error code=12)
*** error: can't allocate region
*** set a breakpoint in malloc_error_break to debug
[0]PETSC ERROR: --------------------- Error Message ------------------------------------
[0]PETSC ERROR: Out of memory. This could be due to allocating
[0]PETSC ERROR: too large an object or bleeding by not properly
[0]PETSC ERROR: destroying unneeded objects.
[0]PETSC ERROR: Memory allocated 0 Memory used by process 0
[0]PETSC ERROR: Try running with -malloc_dump or -malloc_log for info.
[0]PETSC ERROR: Memory requested 295714444!
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 13, Thu May 15 17:29:26 CDT 2008 HG revision: 4466c6289a0922df26e20626fd4a0b4dd03c8124
[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: surf2vol on a darwin9.8 named Psytechs-Mac-Pro.local by dbrang Fri Jun 17 17:23:37 2011
[0]PETSC ERROR: Libraries linked from /usr/pubsw/packages/petsc/current/src/petsc-2.3.3-p13/lib/darwin9.8.0-c-opt
[0]PETSC ERROR: Configure run at Thu Feb 17 18:27:43 2011
[0]PETSC ERROR: Configure options --with-mpi-dir=/usr/pubsw/packages/petsc/current/src/mpilatestbuild/ --with-shared=0 --with-debugging=0 --with-fc=gfortran --with-cc=gcc
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: PetscMallocAlign() line 61 in src/sys/memory/mal.c
[0]PETSC ERROR: MatSeqAIJSetPreallocation_SeqAIJ() line 2818 in src/mat/impls/aij/seq/aij.c
[0]PETSC ERROR: MatCreateSeqAIJ() line 2703 in src/mat/impls/aij/seq/aij.c
[0]PETSC ERROR: TSolver::setup_matrix() line 658 in unknowndirectory/solver.h
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: Caught signal number 10 BUS: Bus Error, possibly illegal memory access
[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC ERROR: or try http://valgrind.org on linux or man libgmalloc on Apple 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: ------------------------------------------------------------------------
[0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 13, Thu May 15 17:29:26 CDT 2008 HG revision: 4466c6289a0922df26e20626fd4a0b4dd03c8124
[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: surf2vol on a darwin9.8 named Psytechs-Mac-Pro.local by dbrang Fri Jun 17 17:23:37 2011
[0]PETSC ERROR: Libraries linked from /usr/pubsw/packages/petsc/current/src/petsc-2.3.3-p13/lib/darwin9.8.0-c-opt
[0]PETSC ERROR: Configure run at Thu Feb 17 18:27:43 2011
[0]PETSC ERROR: Configure options --with-mpi-dir=/usr/pubsw/packages/petsc/current/src/mpilatestbuild/ --with-shared=0 --with-debugging=0 --with-fc=gfortran --with-cc=gcc
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
[unset]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0