[CIG-SHORT] PETSC ERROR: Faces should separate only two cells, not 4

Fri Mar 13 09:07:33 PDT 2015

Rosario,

It looks to me like you have a buried planar fault, and you are not 
marking the buried edges. See the section on migrating from version 1.9 
to 2.0 in the top-level README and section 6.4.2 of the PyLith manual. 
See also examples/2d/greensfns/reverse for how we mark buried edges (in 
this case a point) and examples/debugging (step02, corrected in 
correct/step02.cfg).

Regards,
Brad

On 03/13/2015 03:55 AM, Rosario Ruta wrote:
> Hi, i'm working with Alessandro Di Cunzolo, I've tested the v.2.1.0
> version, but the problem is not resolved.
> In attachment you'll find the files that I'm using.
>
> The error found is:
> [0]PETSC ERROR: Invalid argument
> [0]PETSC ERROR: Faces should separate only two cells, not 4
>
> Can you tell me what the problem is?
>
> 
>   mesh.tar
> <https://docs.google.com/file/d/0B_eGBsNTp8bcOE5GYk5fRVpQcjQ/edit?usp=drive_web>
> 
> Message: 1
> Date: Wed, 18 Feb 2015 12:53:59 +0100
> From: Alessandro Di Cunzolo <twinalexmax at hotmail.it>
> To: "cig-short at geodynamics.org" <cig-short at geodynamics.org>
> Subject: Re: [CIG-SHORT] Pylith problem: PETSC ERROR
> Message-ID: <DUB127-W8448F23BE4F8A1615C5D51D32C0 at phx.gbl>
> Content-Type: text/plain; charset="iso-8859-1"
>
> Ok, thanks
>
> Alessandro DC
>
> Date: Wed, 18 Feb 2015 05:47:23 -0600
> From: knepley at mcs.anl.gov
> To: cig-short at geodynamics.org
> Subject: Re: [CIG-SHORT] Pylith problem: PETSC ERROR
>
> On Wed, Feb 18, 2015 at 5:44 AM, Alessandro Di Cunzolo <
> twinalexmax at hotmail.it> wrote:
>
>
>
> Hi,
> Have you released the new version with the  fault orientation code fixed?
>
> We have approved the release candidate, so we hope the official release
> will happen by Friday.
>    Thanks,
>       Matt Regards,
>
> Alessandro DC
>
> From: twinalexmax at hotmail.it
> To: cig-short at geodynamics.org
> Date: Thu, 12 Feb 2015 16:51:38 +0100
> Subject: Re: [CIG-SHORT] Pylith problem: PETSC ERROR
>
>
>
>
> Thanks for the quick reply,
> Ok, i will wait your upgrade .
>
> Regards,
>
> Alessandro DC
>
> Date: Thu, 12 Feb 2015 09:38:45 -0600
> From: knepley at mcs.anl.gov
> To: cig-short at geodynamics.org
> Subject: Re: [CIG-SHORT] Pylith problem: PETSC ERROR
>
> On Thu, Feb 12, 2015 at 8:24 AM, Alessandro Di Cunzolo <
> twinalexmax at hotmail.it> wrote:
>
>
>
> Good morning,
> i work with Pylith and i am getting this error:
>
> I know this is never what you want to here, but we have recently fixed some
> bugs in the faultorientation code. We expect to make a release at the end
> of this week. Would it be feasiblefor you to test this upgrade when we
> release it?
>    Thanks,
>       Matt -------------------------
>
>   -- Initializing fault 'pPernicana'.
> [0]PETSC ERROR: --------------------- Error Message
> --------------------------------------------------------------
> [0]PETSC ERROR: Invalid argument
> [0]PETSC ERROR: Faces should separate only two cells, not 4
> [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html for
> trouble shooting.
> [0]PETSC ERROR: Petsc Development GIT revision: v3.4.4-4559-g852d360  GIT
> Date: 2014-05-19 15:04:32 -0500
> [0]PETSC ERROR: /opt/pylith-2.0.0/bin/mpinemesis on a arch-pylith-gcc-opt
> named yoda by adicunzolo Thu Feb 12 15:11:15 2015
> [0]PETSC ERROR: Configure options --prefix=/home/buildbot/
> install/pylith_centos_x86_64_binbot --download-fblaslapack=1
> --with-c2html=0 --CXXFLAGS=-DMPICH_IGNORE_CXX_SEEK --with-clanguage=C
> --with-mpicompilers=1 --with-debugging=0 --download-chaco=1 --download-ml=1
> --with-hdf5=1 --with-hdf5-dir=/home/buildbot/install/pylith_centos_x86_64_binbot
> --with-x=0 --with-ssl=0 --with-shared-libraries=1
> [0]PETSC ERROR: #1 DMPlexOrient() line 2400 in /home/buildbot/slave/build/
> pylith_centos_x86_64_binbot/PETSc/petsc-pylith/binaries/
> src/dm/impls/plex/plex.c
> [0]PETSC ERROR: #2 static void pylith::faults::CohesiveTopology::
> createFaultParallel(pylith::topology::Mesh*, const pylith::topology::Mesh&,
> int, const char*, bool)() line 197 in faults/CohesiveTopology.cc
> Fatal error. Calling MPI_Abort() to abort PyLith application.
> Traceback (most recent call last):
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/
> pylith/apps/PetscApplication.py", line 64, in onComputeNodes
>      self.main(*args, **kwds)
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/pylith/apps/PyLithApp.py",
> line 125, in main
>      self.problem.initialize()
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/
> pylith/problems/TimeDependent.py", line 119, in initialize
>      self.formulation.initialize(self.dimension, self.normalizer)
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/pylith/problems/Implicit.py",
> line 122, in initialize
>      self._initialize(dimension, normalizer)
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/
> pylith/problems/Formulation.py", line 470, in _initialize
>      integrator.initialize(totalTime, numTimeSteps, normalizer)
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/pylith/faults/FaultCohesiveKin.py",
> line 166, in initialize
>      FaultCohesive.initialize(self, totalTime, numTimeSteps, normalizer)
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/pylith/faults/Fault.py",
> line 170, in initialize
>      ModuleFault.initialize(self, self.mesh(), self.upDir)
>    File "/opt/pylith-2.0.0/lib/python2.7/site-packages/pylith/faults/faults.py",
> line 320, in initialize
>      def initialize(self, *args): return _faults.Fault_initialize(self,
> *args)
> RuntimeError: Error detected while in PETSc function.
> application called MPI_Abort(MPI_COMM_WORLD, -1) - process 0
> /opt/pylith-2.0.0/bin/nemesis: mpirun: exit 255
> /opt/pylith-2.0.0/bin/pylith: /opt/pylith-2.0.0/bin/nemesis: exit 1
>
> -----------------------------------------------
>
> Do you have any idea about the cause of this problem??
> Regards,
>
> Alessandro DC
>
>
>
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