[REPLACE THIS WITH AN APPROPRIATE TITLE FOR YOUR DEBUGGING HELP REQUEST] #773
Comments
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It appears that your mesh labels do not match the label values in the .cfg
file. Here is says that cell 0 has label value 10 in your mesh, but this
value is not associated to a material in the .cfg file.
Thanks,
Matt
…On Tue, Sep 24, 2024 at 5:14 AM Evelyn0416 ***@***.***> wrote:
When I run step06.cfg in pylith 2.2.2, after creating the model via
trelisr, the error shows as below:
Fatal error. Calling MPI_Abort() to abort PyLith application.
Traceback (most recent call last):
File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/apps/PetscApplication.py",
line 74, in onComputeNodes
self.main(*args, **kwds)
File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/apps/PyLithApp.py",
line 126, in main
self.problem.verifyConfiguration()
File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/problems/TimeDependent.py",
line 104, in verifyConfiguration
Problem.verifyConfiguration(self)
File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/problems/Problem.py",
line 189, in verifyConfiguration
self.mesh().checkMaterialIds(idValues)
File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/topology/Mesh.py",
line 68, in checkMaterialIds
MeshOps_checkMaterialIds(self, materialIds)
RuntimeError: Material id '10' for cell '0' does not match the id of any
available materials or interfaces.
application called MPI_Abort(MPI_COMM_WORLD, -1) - process 0
/home/swjtu/pylith/1/bin/nemesis: mpirun: exit 255
/home/swjtu/pylith/1/bin/pylith: /home/swjtu/pylith/1/bin/nemesis: exit 1
So what should I do to solve this problem.
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--
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
https://www.cse.buffalo.edu/~knepley/ <http://www.cse.buffalo.edu/~knepley/>
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I am glad for your answer. Now a new question arises as follows: [0]PETSC ERROR: --------------------- Error Message -------------------------------------------------------------- Does it mean that something is wrong with the model somewhere, right? I don’t know how to solve it. Any suggestions or help will be greatly appreciated. |
|
On Wed, Sep 25, 2024 at 11:09 AM Evelyn0416 ***@***.***>
wrote:
It appears that your mesh labels do not match the label values in the .cfg
file. Here is says that cell 0 has label value 10 in your mesh, but this
value is not associated to a material in the .cfg file. Thanks, Matt
… <#m_556926534767188244_>
On Tue, Sep 24, 2024 at 5:14 AM Evelyn0416 *@*.***> wrote: When I run
step06.cfg in pylith 2.2.2, after creating the model via trelisr, the error
shows as below: Fatal error. Calling MPI_Abort() to abort PyLith
application. Traceback (most recent call last): File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/apps/PetscApplication.py",
line 74, in onComputeNodes self.main(*args, kwds) File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/apps/PyLithApp.py",
line 126, in main self.problem.verifyConfiguration() File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/problems/TimeDependent.py",
line 104, in verifyConfiguration Problem.verifyConfiguration(self) File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/problems/Problem.py",
line 189, in verifyConfiguration self.mesh().checkMaterialIds(idValues)
File
"/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/topology/Mesh.py",
line 68, in checkMaterialIds MeshOps_checkMaterialIds(self, materialIds)
RuntimeError: Material id '10' for cell '0' does not match the id of any
available materials or interfaces. application called
MPI_Abort(MPI_COMM_WORLD, -1) - process 0 /home/swjtu/pylith/1/bin/nemesis:
mpirun: exit 255 /home/swjtu/pylith/1/bin/pylith:
/home/swjtu/pylith/1/bin/nemesis: exit 1 So what should I do to solve this
problem. — Reply to this email directly, view it on GitHub <#773
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-- 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 https://www.cse.buffalo.edu/~knepley/
http://www.cse.buffalo.edu/~knepley/
I am glad for your answer. Now a new question arises as follows:
[0]PETSC ERROR: --------------------- Error Message
--------------------------------------------------------------
[0]PETSC ERROR: Petsc has generated inconsistent data
[0]PETSC ERROR: Point 1280838 not found in support of cone point 1753945
[0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html
for trouble shooting.
[0]PETSC ERROR: Petsc Release Version 3.10.2, Jul, 01, 2019
[0]PETSC ERROR:
/home/swjtu/pylith/pylith-2.2.2-linux-x86_64/bin/mpinemesis on a named
DESKTOP-CT7EFOQ by root Wed Sep 25 23:07:35 2024
[0]PETSC ERROR: Configure options --prefix=/home/brad/pylith-binary/dist
--with-c2html=0 --with-x=0 --with-clanguage=C --with-mpicompilers=1
--with-shared-libraries=1 --with-64-bit-points=1 --with-large-file-io=1
--download-chaco=1 --download-ml=1 --download-f2cblaslapack=1
--with-hwloc=0 --with-ssl=0 --with-x=0 --with-c2html=0 --with-lgrind=0
--with-hdf5=1 --with-hdf5-dir=/home/brad/pylith-binary/dist --with-zlib=1
--LIBS=-lz --with-debugging=0 --with-fc=0 CPPFLAGS="-I/home/brad/pylitFatal
error. Calling MPI_Abort() to abort PyLith application.
h-binary/dist/include -I/home/brad/pylith-binary/dist/include "
LDFLAGS="-L/home/brad/pylith-binary/dist/lib
-L/home/brad/pylith-binary/dist/lib64 -L/home/brad/pylith-binary/dist/lib
-L/home/brad/pylith-binary/dist/lib64 " CFLAGS="-g -O2" CXXFLAGS="-g -O2
-DMPICH_IGNORE_CXX_SEEK" FCFLAGS=
PETSC_DIR=/home/brad/pylith-binary/build/petsc-pylith PETSC_ARCH=arch-pylith
[0]PETSC ERROR: #1 <#1>
DMPlexCheckSymmetry() line 6600 in
/home/brad/pylith-binary/build/petsc-pylith/src/dm/impls/plex/plex.c
[0]PETSC ERROR: #2 <#2>
static void pylith::topology::MeshOps::checkTopology(const
pylith::topology::Mesh&)() line 100 in
../../../pylith-2.2.2/libsrc/pylith/topology/MeshOps.cc
Traceback (most recent call last):
File
"/home/swjtu/pylith/pylith-2.2.2-linux-x86_64/lib/python2.7/site-packages/pylith/apps/PetscApplication.py",
line 74, in onComputeNodes
self.main(*args, **kwds)
File
"/home/swjtu/pylith/pylith-2.2.2-linux-x86_64/lib/python2.7/site-packages/
Does it mean that something is wrong with the model somewhere, right? I
don’t know how to solve it. Any suggestions or help will be greatly
appreciated.
Yes, the mesh is invalid. I am not sure how this happened. It should not be
possible to produce this kind of invalid mesh, but it
might mean that something about the fault specification is wrong. Can you
turn off all faults and retry?
Thanks,
Matt
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--
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
https://www.cse.buffalo.edu/~knepley/ <http://www.cse.buffalo.edu/~knepley/>
|
When I run step06.cfg in pylith 2.2.2, after creating the model via trelisr, the error shows as below:
Fatal error. Calling MPI_Abort() to abort PyLith application.
Traceback (most recent call last):
File "/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/apps/PetscApplication.py", line 74, in onComputeNodes
self.main(*args, **kwds)
File "/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/apps/PyLithApp.py", line 126, in main
self.problem.verifyConfiguration()
File "/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/problems/TimeDependent.py", line 104, in verifyConfiguration
Problem.verifyConfiguration(self)
File "/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/problems/Problem.py", line 189, in verifyConfiguration
self.mesh().checkMaterialIds(idValues)
File "/home/swjtu/pylith/1/lib/python2.7/site-packages/pylith/topology/Mesh.py", line 68, in checkMaterialIds
MeshOps_checkMaterialIds(self, materialIds)
RuntimeError: Material id '10' for cell '0' does not match the id of any available materials or interfaces.
application called MPI_Abort(MPI_COMM_WORLD, -1) - process 0
/home/swjtu/pylith/1/bin/nemesis: mpirun: exit 255
/home/swjtu/pylith/1/bin/pylith: /home/swjtu/pylith/1/bin/nemesis: exit 1
So what should I do to solve this problem.
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