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<div class=Section1>
<p class=MsoNormal><span style='font-size:10.0pt;font-family:"Arial","sans-serif";
color:#1F497D'>I am new to PETSc. What MPI and What compiler ? If it is Intel
compiler, add –mcmodel=medium to the compile line and see that helps.<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:10.0pt;font-family:"Arial","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<p class=MsoNormal><span style='font-size:10.0pt;font-family:"Arial","sans-serif";
color:#1F497D'>Logan<o:p></o:p></span></p>
<p class=MsoNormal><span style='font-size:10.0pt;font-family:"Arial","sans-serif";
color:#1F497D'><o:p> </o:p></span></p>
<div>
<div style='border:none;border-top:solid #B5C4DF 1.0pt;padding:3.0pt 0in 0in 0in'>
<p class=MsoNormal><b><span style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'>From:</span></b><span
style='font-size:10.0pt;font-family:"Tahoma","sans-serif"'> petsc-users-bounces@mcs.anl.gov
[mailto:petsc-users-bounces@mcs.anl.gov] <b>On Behalf Of </b>Valerio Grazioso<br>
<b>Sent:</b> Thursday, June 17, 2010 11:20 PM<br>
<b>To:</b> petsc-users@mcs.anl.gov<br>
<b>Subject:</b> [petsc-users] Segmentation Violation in a very simple fortran
code<o:p></o:p></span></p>
</div>
</div>
<p class=MsoNormal><o:p> </o:p></p>
<p class=MsoNormal>Hi, I'm stuck with an implementation of a 3D Poisson solver
with PETSc in fortran90.<o:p></o:p></p>
<div>
<p class=MsoNormal>I was getting strange Segmentation Violation and after some
debugging I realized that the the problem was in the vector created with <o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal>DACreateGlobalVector() <o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal>So I've written a simple code:<o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:10.5pt;
font-family:"Menlo","serif"'>****************************************************************************</span></span><o:p></o:p></p>
</div>
<div>
<p class=MsoNormal><o:p> </o:p></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>program
PetscTest<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>implicit
none<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>Vec
q<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>PetscScalar
alpha<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>DA
da<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>PetscErrorCode
err<o:p></o:p></span></p>
</div>
<p style='margin:0in;margin-bottom:.0001pt;min-height: 16px'><span
style='font-size:10.5pt;font-family:"Menlo","serif"'>PetscInt
i3,i1<o:p></o:p></span></p>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>i3=4<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>i1=1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>call
DACreate3d(PETSC_COMM_WORLD,DA_NONPERIODIC,DA_STENCIL_STAR,i3,i3,i3,PETSC_DECIDE,PETSC_DECIDE,PETSC_DECIDE,i1,i1,
& <o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>
PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,PETSC_NULL_INTEGER,da,err)<o:p></o:p></span></p>
</div>
<p style='margin:0in;margin-bottom:.0001pt;min-height: 16px'><span
style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
<p style='margin:0in;margin-bottom:.0001pt;min-height: 16px'><span
style='font-size:10.5pt;font-family:"Menlo","serif"'>call
DACreateGlobalVector(da,q,err)<o:p></o:p></span></p>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>alpha=1.0<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>call
VecSet(q,alpha,err)<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>call
vecView(q,PETSC_VIEWER_STDOUT_WORLD)<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>call
VecDestroy(q,err);<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>call
PetscFinalize(PETSC_NULL_CHARACTER,err)<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>end
program <o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>****************************************************************************<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:13.5pt;
font-family:"Helvetica","sans-serif"'> And this is the output that i get
if I run the executable with </span></span><span style='font-size:10.5pt;
font-family:"Menlo","serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:13.5pt;
font-family:"Helvetica","sans-serif"'>mpirun -n 2 ./PetscTest -da_view</span></span><span
style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:10.5pt;
font-family:"Menlo","serif"'>****************************************************************************</span></span><span
style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>Processor
[0] M 4 N 4 P 4 m 1 n 1 p 2 w 1 s 1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>X
range of indices: 0 4, Y range of indices: 0 4, Z range of indices: 0 2<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>Processor
[1] M 4 N 4 P 4 m 1 n 1 p 2 w 1 s 1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>X
range of indices: 0 4, Y range of indices: 0 4, Z range of indices: 2 4<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>Process
[0]<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
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</div>
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<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>Process
[1]<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
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<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory
access out of range<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Try option -start_in_debugger or -on_error_attach_debugger<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: or see <a
href="http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[1]PETSC">http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[1]PETSC</a>
ERROR: or try <a href="http://valgrind.org">http://valgrind.org</a> on
GNU/linux and Apple Mac OS X to find memory corruption errors<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: likely location of problem given in stack below<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: --------------------- Stack Frames
------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: [0]PETSC ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>Note:
The EXACT line numbers in the stack are not available,<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: INSTEAD the line number of the start of the
function<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: is given.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: --------------------- Error Message ------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Signal received!<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Petsc Release Version 3.1.0, Patch 3, Fri Jun 4 15:34:52 CDT 2010<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: See docs/changes/index.html for recent updates.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: See docs/faq.html for hints about trouble shooting.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: See docs/index.html for manual pages.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: ./PetscTest on a linux-gnu named up0001 by hpc2231 Thu Jun 17 23:58:50
2010<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Libraries linked from
/home/hpc2231/lib/petsc-3.1-p3/linux-gnu-c-debug/lib<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Configure run at Thu Jun 17 23:00:54 2010<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: Configure options LIBS="-limf -lm" --download-hypre=1
--with-fortran-interfaces=1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[1]PETSC
ERROR: User provided function() line 0 in unknown directory unknown file<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Caught signal number 11 SEGV: Segmentation Violation, probably memory
access out of range<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Try option -start_in_debugger or -on_error_attach_debugger<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: or see <a
href="http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC">http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC</a>
ERROR: or try <a href="http://valgrind.org">http://valgrind.org</a> on
GNU/linux and Apple Mac OS X to find memory corruption errors<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR:
--------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>MPI_ABORT
was invoked on rank 1 in communicator MPI_COMM_WORLD <o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>with
errorcode 59.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>NOTE:
invoking MPI_ABORT causes Open MPI to kill all MPI processes.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>You
may or may not see output from other processes, depending on<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>exactly
when Open MPI kills them.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>--------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>likely
location of problem given in stack below<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: --------------------- Stack Frames
------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Note: The EXACT line numbers in the stack are not available,<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: INSTEAD the line number of the start of the
function<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: is given.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: --------------------- Error Message ------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Signal received!<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Petsc Release Version 3.1.0, Patch 3, Fri Jun 4 15:34:52 CDT 2010<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: See docs/changes/index.html for recent updates.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: See docs/faq.html for hints about trouble shooting.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: See docs/index.html for manual pages.<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: ./PetscTest on a linux-gnu named up0001 by hpc2231 Thu Jun 17 23:58:50
2010<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Libraries linked from /home/hpc2231/lib/petsc-3.1-p3/linux-gnu-c-debug/lib<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Configure run at Thu Jun 17 23:00:54 2010<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: Configure options LIBS="-limf -lm" --download-hypre=1
--with-fortran-interfaces=1<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: ------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[0]PETSC
ERROR: User provided function() line 0 in unknown directory unknown file<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>--------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>mpirun
has exited due to process rank 1 with PID 10883 on<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>node
up0001 exiting without calling "finalize". This may<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>have
caused other processes in the application to be<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>terminated
by signals sent by mpirun (as reported here).<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>--------------------------------------------------------------------------<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[up0001:10881]
1 more process has sent help message help-mpi-api.txt / mpi-abort<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>[up0001:10881]
Set MCA parameter "orte_base_help_aggregate" to 0 to see all help /
error messages<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'>****************************************************************************<o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:13.5pt;
font-family:"Helvetica","sans-serif"'>If been looking trough the troubleshooting
and FAQ with no success and now I'm stuck ....</span></span><span
style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:13.5pt;
font-family:"Helvetica","sans-serif"'>Any ideas or suggestions </span></span><span
style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:13.5pt;
font-family:"Helvetica","sans-serif"'>Thanks</span></span><span
style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span class=apple-style-span><span style='font-size:13.5pt;
font-family:"Helvetica","sans-serif"'>Valerio </span></span><span
style='font-size:13.5pt;font-family:"Helvetica","sans-serif"'><o:p></o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal><span style='font-size:10.5pt;font-family:"Menlo","serif"'><o:p> </o:p></span></p>
</div>
<div>
<p class=MsoNormal> <o:p></o:p></p>
</div>
</div>
</body>
</html>