[petsc-users] Problems running ex12.c
Matthew Knepley
knepley at gmail.com
Sun Mar 2 19:11:57 CST 2014
On Sun, Mar 2, 2014 at 6:54 PM, Miguel Angel Salazar de Troya <
salazardetroya at gmail.com> wrote:
> Hi everybody
>
> I am trying to run example ex12.c without much success. I specifically run
> it with the command options:
>
We need to start narrowing down differences, because it runs for me and our
nightly tests. So, first can
you confirm that you are using the latest 'next' branch?
Thanks,
Matt
> ./ex12 -run_type test -refinement_limit 0.0 -bc_type dirichlet
> -interpolate 0 -petscspace_order 1 -show_initial -dm_plex_print_fem 1
>
> And I get this output
>
> Local function:
> Vec Object: 1 MPI processes
> type: seq
> 0
> 1
> 1
> 2
> 1
> 2
> 2
> 3
> Initial guess
> Vec Object: 1 MPI processes
> type: seq
> L_2 Error: 0.625
> Residual:
> Vec Object: 1 MPI processes
> type: seq
> 0
> 0
> 0
> 0
> 0
> 0
> 0
> 0
> Initial Residual
> Vec Object: 1 MPI processes
> type: seq
> L_2 Residual: 0
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation,
> probably memory access out of range
> [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
> [0]PETSC ERROR: or see
> http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[0]PETSCERROR: or try
> http://valgrind.org on GNU/linux and Apple Mac OS X to find memory
> corruption errors
> [0]PETSC ERROR: likely location of problem given in stack below
> [0]PETSC ERROR: --------------------- Stack Frames
> ------------------------------------
> [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not
> available,
> [0]PETSC ERROR: INSTEAD the line number of the start of the function
> [0]PETSC ERROR: is given.
> [0]PETSC ERROR: [0] DMPlexComputeJacobianFEM line 867
> /home/salaza11/petsc/src/dm/impls/plex/plexfem.c
> [0]PETSC ERROR: [0] SNESComputeJacobian_DMLocal line 94
> /home/salaza11/petsc/src/snes/utils/dmlocalsnes.c
> [0]PETSC ERROR: [0] SNES user Jacobian function line 2244
> /home/salaza11/petsc/src/snes/interface/snes.c
> [0]PETSC ERROR: [0] SNESComputeJacobian line 2203
> /home/salaza11/petsc/src/snes/interface/snes.c
> [0]PETSC ERROR: --------------------- Error Message
> ------------------------------------
> [0]PETSC ERROR: Signal received!
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: Petsc Development GIT revision: v3.4.3-3453-g0a94005 GIT
> Date: 2014-03-02 13:12:04 -0600
> [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: ./ex12 on a linux-gnu-c-debug named maya by salaza11 Sun
> Mar 2 17:00:09 2014
> [0]PETSC ERROR: Libraries linked from
> /home/salaza11/petsc/linux-gnu-c-debug/lib
> [0]PETSC ERROR: Configure run at Sun Mar 2 16:46:51 2014
> [0]PETSC ERROR: Configure options --download-mpich
> --download-scientificpython --download-triangle --download-ctetgen
> --download-chaco --with-c2html=0
> [0]PETSC ERROR:
> ------------------------------------------------------------------------
> [0]PETSC ERROR: User provided function() line 0 in unknown file
> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
> [unset]: aborting job:
> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
>
>
> Probably my problems could be on my configuration. I attach the
> configure.log. I ran ./configure like this
>
> ./configure --download-mpich --download-scientificpython
> --download-triangle --download-ctetgen --download-chaco --with-c2html=0
>
> Thanks a lot in advance.
>
>
>
>
>
> On Tue, Jan 28, 2014 at 10:37 AM, Matthew Knepley <knepley at gmail.com>wrote:
>
>> On Tue, Jan 28, 2014 at 10:31 AM, Yaakoub El Khamra <yelkhamra at gmail.com>wrote:
>>
>>>
>>> If
>>> ./ex12 -run_type test -dim 3 -refinement_limit 0.0125
>>> -variable_coefficient field -interpolate 1 -petscspace_order 2
>>> -show_initial -dm_plex_print_fem
>>>
>>> is for serial, any chance we can get the options to run in parallel?
>>>
>>
>> Just use mpiexec -n <procs>
>>
>> Matt
>>
>>
>>>
>>> Regards
>>> Yaakoub El Khamra
>>>
>>>
>>> On Fri, Jan 17, 2014 at 11:29 AM, Matthew Knepley <knepley at gmail.com>wrote:
>>>
>>>> On Fri, Jan 17, 2014 at 11:06 AM, Jones,Martin Alexander <
>>>> MAJones2 at mdanderson.org> wrote:
>>>>
>>>>>
>>>>> ------------------------------
>>>>> *From:* Matthew Knepley [knepley at gmail.com]
>>>>> *Sent:* Friday, January 17, 2014 11:04 AM
>>>>> *To:* Jones,Martin Alexander
>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>
>>>>> On Fri, Jan 17, 2014 at 11:00 AM, Jones,Martin Alexander <
>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>
>>>>>> These examples all seem to run excepting the following command,
>>>>>>
>>>>>> ex12 -run_type test -dim 3 -refinement_limit 0.0125
>>>>>> -variable_coefficient field -interpolate 1 -petscspace_order 2
>>>>>> -show_initial -dm_plex_print_fem
>>>>>>
>>>>>> I get the following ouput:
>>>>>>
>>>>>> ./ex12 -run_type test -dim 3 -refinement_limit 0.0125
>>>>>> -variable_coefficient field -interpolate 1 -petscspace_order 2
>>>>>> -show_initial -dm_plex_print_fem
>>>>>> Local function:
>>>>>> ./ex12: symbol lookup error:
>>>>>> /opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_intel_thread.so: undefined
>>>>>> symbol: omp_get_num_procs
>>>>>>
>>>>>
>>>>> This is a build problem, but it should affect all the runs. Is this
>>>>> reproducible? Can you send configure.log? MKL is the worst. If this
>>>>> persists, I would just switch to --download-f-blas-lapack.
>>>>>
>>>>
>>>> Thanks. I have some advice on options
>>>>
>>>> --with-precision=single # I would not use this unless you are doing
>>>> something special, like CUDA
>>>> --with-clanguage=C++ # I would recommend switching to C, the build
>>>> is much faster
>>>> --with-mpi-dir=/usr --with-mpi4py=0
>>>> --with-shared-libraries --CFLAGS=-O0 --CXXFLAGS=-O0 --with-fc=0
>>>> --with-etags=1 # This is unnecessary
>>>>
>>>> --with-blas-lapack-lib="[/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_rt.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_intel_thread.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_core.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libiomp5.so]"
>>>> # Here is the problem, see below
>>>> --download-metis
>>>> --download-fiat=yes --download-generator --download-scientificpython
>>>> # Get rid of these, they are obsolete
>>>>
>>>> Your MKL needs another library for the OpenMP symbols. I would
>>>> recommend switching to --download-f2cblaslapack,
>>>> or you can try and find that library.
>>>>
>>>> Thanks,
>>>>
>>>> Matt
>>>>
>>>>
>>>>> Thanks,
>>>>>
>>>>> Matt
>>>>>
>>>>>
>>>>>> ------------------------------
>>>>>> *From:* Matthew Knepley [knepley at gmail.com]
>>>>>> *Sent:* Thursday, January 16, 2014 6:35 PM
>>>>>> *To:* Jones,Martin Alexander
>>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>>
>>>>>> On Thu, Jan 16, 2014 at 5:43 PM, Jones,Martin Alexander <
>>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>>
>>>>>>> Hi, This is the next error message after configuring and building
>>>>>>> with the triangle package when trying to run ex12
>>>>>>>
>>>>>>
>>>>>> This is my fault for bad defaults. I will fix. Try running
>>>>>>
>>>>>> ./ex12 -run_type test -refinement_limit 0.0 -bc_type dirichlet
>>>>>> -interpolate 0 -petscspace_order 1 -show_initial -dm_plex_print_fem 1
>>>>>>
>>>>>> for a representative run. Then you could try 3D
>>>>>>
>>>>>> ex12 -run_type test -dim 3 -refinement_limit 0.0125
>>>>>> -variable_coefficient field -interpolate 1 -petscspace_order 2
>>>>>> -show_initial -dm_plex_print_fem
>>>>>>
>>>>>> or a full run
>>>>>>
>>>>>> ex12 -refinement_limit 0.01 -bc_type dirichlet -interpolate
>>>>>> -petscspace_order 1
>>>>>>
>>>>>> ex12 -refinement_limit 0.01 -bc_type dirichlet -interpolate
>>>>>> -petscspace_order 2
>>>>>>
>>>>>> Let me know if those work.
>>>>>>
>>>>>> Thanks,
>>>>>>
>>>>>> Matt
>>>>>>
>>>>>>
>>>>>>> ./ex12
>>>>>>> [0]PETSC ERROR:
>>>>>>> ------------------------------------------------------------------------
>>>>>>> [0]PETSC ERROR: Caught signal number 8 FPE: Floating Point
>>>>>>> Exception,probably divide by zero
>>>>>>> [0]PETSC ERROR: Try option -start_in_debugger or
>>>>>>> -on_error_attach_debugger
>>>>>>> [0]PETSC ERROR: or see
>>>>>>> http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind[0]PETSCERROR: or try
>>>>>>> http://valgrind.org on GNU/linux and Apple Mac OS X to find memory
>>>>>>> corruption errors
>>>>>>> [0]PETSC ERROR: likely location of problem given in stack below
>>>>>>> [0]PETSC ERROR: --------------------- Stack Frames
>>>>>>> ------------------------------------
>>>>>>> [0]PETSC ERROR: Note: The EXACT line numbers in the stack are not
>>>>>>> available,
>>>>>>> [0]PETSC ERROR: INSTEAD the line number of the start of the
>>>>>>> function
>>>>>>> [0]PETSC ERROR: is given.
>>>>>>> [0]PETSC ERROR: [0] DMPlexComputeResidualFEM line 531
>>>>>>> /home/mjonesa/PETSc/petsc/src/dm/impls/plex/plexfem.c
>>>>>>> [0]PETSC ERROR: [0] SNESComputeFunction_DMLocal line 63
>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/utils/dmlocalsnes.c
>>>>>>> [0]PETSC ERROR: [0] SNES user function line 2088
>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/interface/snes.c
>>>>>>> [0]PETSC ERROR: [0] SNESComputeFunction line 2076
>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/interface/snes.c
>>>>>>> [0]PETSC ERROR: [0] SNESSolve_NEWTONLS line 144
>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/impls/ls/ls.c
>>>>>>> [0]PETSC ERROR: [0] SNESSolve line 3765
>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/interface/snes.c
>>>>>>> [0]PETSC ERROR: --------------------- Error Message
>>>>>>> ------------------------------------
>>>>>>> [0]PETSC ERROR: Signal received!
>>>>>>> [0]PETSC ERROR:
>>>>>>> ------------------------------------------------------------------------
>>>>>>> [0]PETSC ERROR: Petsc Development GIT revision: v3.4.3-2317-gcd0e7f7
>>>>>>> GIT Date: 2014-01-15 20:33:42 -0600
>>>>>>> [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: ./ex12 on a arch-linux2-cxx-debug named maeda by
>>>>>>> mjonesa Thu Jan 16 17:41:23 2014
>>>>>>> [0]PETSC ERROR: Libraries linked from /home/mjonesa/local/lib
>>>>>>> [0]PETSC ERROR: Configure run at Thu Jan 16 17:38:33 2014
>>>>>>> [0]PETSC ERROR: Configure options --prefix=/home/mjonesa/local
>>>>>>> --with-blas-lapack-lib="[/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_rt.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_intel_thread.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_core.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libiomp5.so]"
>>>>>>> --with-c2html=0 --with-clanguage=c++ PETSC_ARCH=arch-linux2-cxx-debug
>>>>>>> --download-triangle
>>>>>>> [0]PETSC ERROR:
>>>>>>> ------------------------------------------------------------------------
>>>>>>> [0]PETSC ERROR: User provided function() line 0 in unknown file
>>>>>>> application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
>>>>>>> ------------------------------
>>>>>>> *From:* Matthew Knepley [knepley at gmail.com]
>>>>>>> *Sent:* Thursday, January 16, 2014 4:37 PM
>>>>>>> *To:* Jones,Martin Alexander
>>>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>>>
>>>>>>> On Thu, Jan 16, 2014 at 4:33 PM, Jones,Martin Alexander <
>>>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>>>
>>>>>>>> Hi, I have downloaded and built the dev version you suggested. I
>>>>>>>> think I need the triangle package to run this particular case. Is there any
>>>>>>>> thing else that appears wrong in what I have done from the error messages
>>>>>>>> below:
>>>>>>>>
>>>>>>>
>>>>>>> Great! Its running. You can reconfigure like this:
>>>>>>>
>>>>>>> $PETSC_DIR/$PETSC_ARCH/conf/reconfigure-$PETSC_ARCH.py
>>>>>>> --download-triangle
>>>>>>>
>>>>>>> and then rebuild
>>>>>>>
>>>>>>> make
>>>>>>>
>>>>>>> and then rerun. You can load meshes, but its much easier to have
>>>>>>> triangle create them.
>>>>>>>
>>>>>>> Thanks for being patient,
>>>>>>>
>>>>>>> Matt
>>>>>>>
>>>>>>>
>>>>>>>> [0]PETSC ERROR: --------------------- Error Message
>>>>>>>> ------------------------------------
>>>>>>>> [0]PETSC ERROR: No support for this operation for this object type!
>>>>>>>> [0]PETSC ERROR: Mesh generation needs external package support.
>>>>>>>> Please reconfigure with --download-triangle.!
>>>>>>>> [0]PETSC ERROR:
>>>>>>>> ------------------------------------------------------------------------
>>>>>>>> [0]PETSC ERROR: Petsc Development GIT revision:
>>>>>>>> v3.4.3-2317-gcd0e7f7 GIT Date: 2014-01-15 20:33:42 -0600
>>>>>>>> [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: ./ex12 on a arch-linux2-cxx-debug named maeda by
>>>>>>>> mjonesa Thu Jan 16 16:28:20 2014
>>>>>>>> [0]PETSC ERROR: Libraries linked from /home/mjonesa/local/lib
>>>>>>>> [0]PETSC ERROR: Configure run at Thu Jan 16 16:25:53 2014
>>>>>>>> [0]PETSC ERROR: Configure options --prefix=/home/mjonesa/local
>>>>>>>> --with-clanguage=c++ --with-c2html=0
>>>>>>>> --with-blas-lapack-lib="[/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_rt.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_intel_thread.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libmkl_core.so,/opt/apps/EPD/epd-7.3-1-rh5-x86_64/lib/libiomp5.so]"
>>>>>>>> [0]PETSC ERROR:
>>>>>>>> ------------------------------------------------------------------------
>>>>>>>> [0]PETSC ERROR: DMPlexGenerate() line 4332 in
>>>>>>>> /home/mjonesa/PETSc/petsc/src/dm/impls/plex/plex.c
>>>>>>>> [0]PETSC ERROR: DMPlexCreateBoxMesh() line 600 in
>>>>>>>> /home/mjonesa/PETSc/petsc/src/dm/impls/plex/plexcreate.c
>>>>>>>> [0]PETSC ERROR: CreateMesh() line 295 in
>>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/examples/tutorials/ex12.c
>>>>>>>> [0]PETSC ERROR: main() line 659 in
>>>>>>>> /home/mjonesa/PETSc/petsc/src/snes/examples/tutorials/ex12.c
>>>>>>>> application called MPI_Abort(MPI_COMM_WORLD, 56) - process 0
>>>>>>>> ------------------------------
>>>>>>>> *From:* Matthew Knepley [knepley at gmail.com]
>>>>>>>> *Sent:* Thursday, January 16, 2014 4:06 PM
>>>>>>>> *To:* Jones,Martin Alexander
>>>>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>>>>
>>>>>>>> On Thu, Jan 16, 2014 at 4:05 PM, Jones,Martin Alexander <
>>>>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>>>>
>>>>>>>>> Hi. I changed the ENV variable to the correct entry. when I type
>>>>>>>>> make ex12 I get this:
>>>>>>>>>
>>>>>>>>> mjonesa at maeda:~/PETSc/petsc-3.4.3/src/snes/examples/tutorials$
>>>>>>>>> make ex12
>>>>>>>>> g++ -o ex12.o -c -Wall -Wwrite-strings -Wno-strict-aliasing
>>>>>>>>> -Wno-unknown-pragmas -g -fPIC
>>>>>>>>> -I/home/mjonesa/PETSc/petsc-3.4.3/include
>>>>>>>>> -I/home/mjonesa/PETSc/petsc-3.4.3/arch-linux2-cxx-debug/include
>>>>>>>>> -I/home/mjonesa/PETSc/petsc-3.4.3/include/mpiuni
>>>>>>>>> -D__INSDIR__=src/snes/examples/tutorials/ ex12.c
>>>>>>>>> ex12.c:14:18: fatal error: ex12.h: No such file or directory
>>>>>>>>> compilation terminated.
>>>>>>>>> make: *** [ex12.o] Error 1
>>>>>>>>>
>>>>>>>>> Any help of yours is very much appreciated.
>>>>>>>>>
>>>>>>>>
>>>>>>>> Yes, this relates to my 3). This is not going to work for you
>>>>>>>> with the release. Please see the link I sent.
>>>>>>>>
>>>>>>>> Matt
>>>>>>>>
>>>>>>>>
>>>>>>>>> ------------------------------
>>>>>>>>> *From:* Matthew Knepley [knepley at gmail.com]
>>>>>>>>> *Sent:* Thursday, January 16, 2014 3:58 PM
>>>>>>>>> *To:* Jones,Martin Alexander
>>>>>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>>>>>
>>>>>>>>> On Thu, Jan 16, 2014 at 3:55 PM, Jones,Martin Alexander <
>>>>>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>>>>>
>>>>>>>>>> Thanks!
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>> You built with PETSC_ARCH=arch-linux2-cxx-debug
>>>>>>>>>
>>>>>>>>> Matt
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> ------------------------------
>>>>>>>>>> *From:* Matthew Knepley [knepley at gmail.com]
>>>>>>>>>> *Sent:* Thursday, January 16, 2014 3:31 PM
>>>>>>>>>> *To:* Jones,Martin Alexander
>>>>>>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>>>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>>>>>>
>>>>>>>>>> On Thu, Jan 16, 2014 at 3:11 PM, Jones,Martin Alexander <
>>>>>>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>>>>>>
>>>>>>>>>>> Now I went to the directory where ex12.c sits and just did a
>>>>>>>>>>> 'make ex12.c' with the following error if this helps? :
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> mjonesa at maeda:~/PETSc/petsc-3.4.3/src/snes/examples/tutorials$
>>>>>>>>>>> make ex12.c
>>>>>>>>>>>
>>>>>>>>>>> /home/mjonesa/PETSc/petsc-3.4.3/conf/variables:108:
>>>>>>>>>>> /home/mjonesa/PETSc/petsc-3.4.3/linux-gnu-cxx-debug/conf/petscvariables: No
>>>>>>>>>>> such file or directory
>>>>>>>>>>>
>>>>>>>>>>> /home/mjonesa/PETSc/petsc-3.4.3/conf/rules:962:
>>>>>>>>>>> /home/mjonesa/PETSc/petsc-3.4.3/linux-gnu-cxx-debug/conf/petscrules: No
>>>>>>>>>>> such file or directory
>>>>>>>>>>>
>>>>>>>>>>> make: *** No rule to make target
>>>>>>>>>>> `/home/mjonesa/PETSc/petsc-3.4.3/linux-gnu-cxx-debug/conf/petscrules'.
>>>>>>>>>>> Stop.
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> 1) You would type 'make ex12'
>>>>>>>>>>
>>>>>>>>>> 2) Either you PETSC_DIR (/home/mjonesa/PETSc/petsc-3.4.3) or
>>>>>>>>>> PETSC_ARCH (linux-gnu-cxx-debug) environment variables
>>>>>>>>>> do not match what you built. Please send configure.log and
>>>>>>>>>> make.log
>>>>>>>>>>
>>>>>>>>>> 3) Since it was only recently added, if you want to use the FEM
>>>>>>>>>> functionality, you must use the development version:
>>>>>>>>>>
>>>>>>>>>> http://www.mcs.anl.gov/petsc/developers/index.html
>>>>>>>>>>
>>>>>>>>>> Thanks,
>>>>>>>>>>
>>>>>>>>>> Matt
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> *From:* Matthew Knepley [mailto:knepley at gmail.com]
>>>>>>>>>>> *Sent:* Thursday, January 16, 2014 2:48 PM
>>>>>>>>>>> *To:* Jones,Martin Alexander
>>>>>>>>>>> *Cc:* petsc-users at mcs.anl.gov
>>>>>>>>>>> *Subject:* Re: [petsc-users] Problems running ex12.c
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> On Thu, Jan 16, 2014 at 2:35 PM, Jones,Martin Alexander <
>>>>>>>>>>> MAJones2 at mdanderson.org> wrote:
>>>>>>>>>>>
>>>>>>>>>>> Hello To Whom it Concerns,
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> I am trying to run the tutorial ex12.c by running 'bin/pythonscripts/PetscGenerateFEMQuadrature.py
>>>>>>>>>>> dim order dim 1 laplacian dim order dim 1 boundary
>>>>>>>>>>> src/snes/examples/tutorials/ex12.h'
>>>>>>>>>>> but getting the following error:
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> $ bin/pythonscripts/PetscGenerateFEMQuadrature.py dim order dim
>>>>>>>>>>> 1 laplacian dim order dim 1 boundary src/snes/examples/tutorials/ex12.h
>>>>>>>>>>> Traceback (most recent call last):
>>>>>>>>>>> File "bin/pythonscripts/PetscGenerateFEMQuadrature.py", line
>>>>>>>>>>> 15, in <module>
>>>>>>>>>>> from FIAT.reference_element import default_simplex
>>>>>>>>>>> ImportError: No module named FIAT.reference_element
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> I have removed the requirement of generating the header file
>>>>>>>>>>> (its now all handled in C). I thought
>>>>>>>>>>>
>>>>>>>>>>> I changed the documentation everywhere (including the latest
>>>>>>>>>>> tutorial slides). Can you try running
>>>>>>>>>>>
>>>>>>>>>>> with 'master' (or 'next'), and point me toward the old docs?
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> Thanks,
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> Matt
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> --
>>>>>>>>>>> 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
>>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> --
>>>>>>>>>> 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
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> --
>>>>>>>>> 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
>>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> 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
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> 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
>>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> 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
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> 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
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> 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
>>>>
>>>
>>>
>>
>>
>> --
>> 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
>>
>
>
>
> --
> *Miguel Angel Salazar de Troya*
> Graduate Research Assistant
> Department of Mechanical Science and Engineering
> University of Illinois at Urbana-Champaign
> (217) 550-2360
> salaza11 at illinois.edu
>
>
--
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
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