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IDProjectCategoryView StatusDate SubmittedLast Update
0013210ParaView(No Category)public2012-05-29 16:042016-08-12 09:59
ReporterSven Buijssen 
Assigned ToChris Harris 
PriorityhighSeverityminorReproducibilityhave not tried
StatusclosedResolutionmoved 
PlatformOSOS Version
Product Version3.14.1 
Target VersionFixed in Version 
Summary0013210: vtkExodusIIWriter segfaults while attempting to save wavelet source
DescriptionRefactoring of Exodus writer in mid May 2012 has introduced a regression into git/master:

Sources - Wavelet - Apply
File - Save Data - File name: foo.ex2 - Files of type: Exodus II file - Ok
Ok

=> segfault in vtkExodusIIWriter.cxx:1645-1646 due to attempted array out of bounds access as 'numElts' is 0:

    if (numNodes == 0)
      {
      numPoints = blockIter->second.EntityNodeOffsets[numElts - 1]
                + blockIter->second.EntityCounts[numElts - 1];
      }
TagsNo tags attached.
ProjectTBD
Topic Name0013210_parallel_exodus_fix
Typecrash
Attached Files

 Relationships

  Notes
(0028658)
Chris Harris (developer)
2012-05-30 09:51

 A fix for this has been pushed to VTK:

http://review.source.kitware.com/#/t/747/ [^]
(0028661)
Utkarsh Ayachit (administrator)
2012-06-01 14:41

 Merged in master, if applicable.
(0028875)
Alan Scott (manager)
2012-07-19 16:41

 Chris,
It dies remote server.
Linux, remote server, Master. I just followed your excellent directions below.
(0028876)
Alan Scott (manager)
2012-07-19 16:42

 Making it high priority, since if it doesn't work remote server, it doesn't work. Further, this is the main way we write out datasets.
(0028910)
Chris Harris (developer)
2012-07-24 16:19

 I am unable to recreate this problem. I can connect to a remote server and write out a file without a crash. Is the remote server running master?
(0028916)
Sven Buijssen (reporter)
2012-07-24 17:29

 Using a debug build of the git master branch on Linux x86_64, the segfault is gone when having connected to a single, separately started pvserver (both 'mpirun -np 1 /path/to/pvserver' and 'pvserver' work).

But having connected to a dual server, pvserver crashes while trying to save with:

% mpirun -np 2 /scratch/pv-git-build/bin/pvserver
Waiting for client...
Connection URL: cs://host:11111
Accepting connection(s): host:11111
Client connected.
Warning: In /scratch/pv.git/VTK/IO/Exodus/vtkExodusIIWriter.cxx, line 780
vtkPExodusIIWriter (0x1c9ed90): Attempting to proceed without metadata

Warning: In /scratch/pv.git/VTK/IO/Exodus/vtkExodusIIWriter.cxx, line 780
vtkPExodusIIWriter (0x18990d0): Attempting to proceed without metadata

[host:13327] *** Process received signal ***
[host:13327] Signal: Segmentation fault (11)
[host:13327] Signal code: Address not mapped (1)
[host:13327] Failing at address: 0xfffffffffffffffc
[host:13326] *** Process received signal ***
[host:13326] Signal: Segmentation fault (11)
[host:13326] Signal code: Address not mapped (1)
[host:13326] Failing at address: 0xfffffffffffffffc
[host:13327] [ 0] /lib/libpthread.so.0(+0xf8f0) [0x7f086c6338f0]
[host:13327] [ 1] /scratch/pv-git-build/lib/libvtkIOExodus-6.0.so.1(_ZN17vtkExodusIIWriter21WriteBlockInformationEv+0x19e) [0x7f087fed75ba]
[host:13327] [ 2] /scratch/pv-git-build/lib/libvtkIOExodus-6.0.so.1(_ZN17vtkExodusIIWriter9WriteDataEv+0xdce) [0x7f087fed0ce0]
[host:13327] [ 3] /scratch/pv-git-build/lib/libvtkIOExodus-6.0.so.1(_ZN17vtkExodusIIWriter11RequestDataEP14vtkInformationPP20vtkInformationVectorS3_+0xc5) [0x7f087fecfe7d]
[host:13327] [ 4] /scratch/pv-git-build/lib/libvtkIOExodus-6.0.so.1(_ZN17vtkExodusIIWriter14ProcessRequestEP14vtkInformationPP20vtkInformationVectorS3_+0x225) [0x7f087fecfc9d]
[host:13327] [ 5] /scratch/pv-git-build/lib/libvtkCommonExecutionModel-6.0.so.1(_ZN12vtkExecutive13CallAlgorithmEP14vtkInformationiPP20vtkInformationVectorS3_+0x8d) [0x7f086860b30b]
[...]

When using Multi-Core via AutoMPI instead (Edit - Settings - General - Use Multi-Core), the server crashes while saving with a different error message:
% /scratch/pv-git-build/bin/paraview -dr
Process started
AutoMPI: SUCCESS: command is:
 "/scratch/openmpi/gcc4.4.3/1.4.3/bin/mpiexec" "-np" "2" "/scratch/pv-git-build/bin/pvserver" "--server-port=50577"
AutoMPI: starting process server
-------------- server output --------------
Waiting for client...
AutoMPI: server sucessfully started.
ERROR: In /scratch/pv.git/VTK/Parallel/Core/vtkSocketCommunicator.cxx, line 812
vtkSocketCommunicator (0x32db740): Could not receive tag. 188969
(0028921)
Chris Harris (developer)
2012-07-25 10:32

 Ok, so this is a problem with the parallel implementation. I can recreate this using the instruction above.
(0028923)
Chris Harris (developer)
2012-07-25 11:56

 This appear not to be a bug introduced by the refactoring for VTK modular. I ran the same test with 3.14 and see the same behavior.
(0028925)
Chris Harris (developer)
2012-07-25 13:37

 Also fails with 3.12
(0038220)
Kitware Robot (administrator)
2016-08-12 09:59

 Resolving issue as `moved`.

This issue tracker is no longer used. Further discussion of this issue may take place in the current ParaView Issues page linked in the banner at the top of this page.

 Issue History
Date Modified Username Field Change
2012-05-29 16:04 Sven Buijssen New Issue
2012-05-30 09:35 Chris Harris Assigned To => Chris Harris
2012-05-30 09:51 Chris Harris Note Added: 0028658
2012-05-31 08:35 Chris Harris Topic Name => 0013210_parallel_exodus_fix
2012-05-31 08:35 Chris Harris Status backlog => gatekeeper review
2012-06-01 14:40 Utkarsh Ayachit Fixed in Version => git-master
2012-06-01 14:41 Utkarsh Ayachit Status gatekeeper review => customer review
2012-06-01 14:41 Utkarsh Ayachit Note Added: 0028661
2012-07-19 16:41 Alan Scott Note Added: 0028875
2012-07-19 16:41 Alan Scott Status customer review => todo
2012-07-19 16:42 Alan Scott Note Added: 0028876
2012-07-19 16:42 Alan Scott Priority normal => high
2012-07-24 16:19 Chris Harris Note Added: 0028910
2012-07-24 17:29 Sven Buijssen Note Added: 0028916
2012-07-25 10:32 Chris Harris Note Added: 0028921
2012-07-25 11:56 Chris Harris Note Added: 0028923
2012-07-25 13:37 Chris Harris Note Added: 0028925
2012-10-29 17:04 Utkarsh Ayachit Fixed in Version git-master => 3.98.0
2016-08-12 09:59 Kitware Robot Note Added: 0038220
2016-08-12 09:59 Kitware Robot Status todo => closed
2016-08-12 09:59 Kitware Robot Fixed in Version 3.98.0 =>
2016-08-12 09:59 Kitware Robot Resolution open => moved

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