[petsc-dev] Errors when testing PETSc build on Windows
Hector E Barrios Molano
hectorb at utexas.edu
Thu Jun 18 11:57:45 CDT 2015
Hi Satish,
Now I'm getting this error. Why its trying to use "bfort"?
Thank you,
$ ./configure --with-cc='win32fe cl' --with-fc='win32fe ifort'
--prefix=/cygdrive/c/Installed/petsc/ --PETSC_ARCH=windows-intel
--with-parmetis-include=/cygdrive/c/Installed/parmetis/include
--with-parmetis-lib=/cygdrive/c/Installed/parmetis/lib/parmetis.lib
--with-metis-include=/cygdrive/c/Installed/parmetis/include
--with-metis-lib=/cygdrive/c/Installed/parmetis/lib/metis.lib
--with-mpi-include=[/cygdrive/c/Installed/msmpi/Include,/cygdrive/c/Installed/msmpi/Include/x64]
--with-mpi-lib=[/cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib,/cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib]
--with-blas-lapack-lib=[/cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_lp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib]
--with-scalapack-include=/cygdrive/c/Installed/mkl/include
--with-scalapack-lib=[/cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_lp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_lp64.lib]
===============================================================================
Configuring PETSc to compile on your system
===============================================================================
===============================================================================
*****WARNING:
PETSC_DIR appears to be a Git clone - but git is not found in
PATH********
===============================================================================
===============================================================================
Running
configure on SOWING; this may take several minutes
===============================================================================
===============================================================================
Running
make on SOWING; this may take several minutes
===============================================================================
===============================================================================
Running
make install on SOWING; this may take several minutes
===============================================================================
TESTING:
checkSharedLibrary from
config.packages.sowing(config/BuildSystem/config/package.py:625)
*******************************************************************************
UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log
for details):
-------------------------------------------------------------------------------
*******Error generating Fortran stubs: Error running bfort
cd /cygdrive/c/Installed/petsc-dev/petsc/include;
BFORT_CONFIG_PATH=/cygdrive/c/Installed/petsc-dev/petsc/lib/petsc/conf
/cygdrive/c/Installed/petsc-dev/petsc/windows-intel/bin/bfort -dir
/cygdrive/c/Installed/petsc-dev/petsc/include/ftn-auto -mnative -ansi
-nomsgs -noprofile -anyname -mapptr -mpi -mpi2 -ferr -ptrprefix Petsc
-ptr64 PETSC_USE_POINTER_CONVERSION -fcaps PETSC_HAVE_FORTRAN_CAPS
-fuscore PETSC_HAVE_FORTRAN_UNDERSCORE -f90mod_skip_header -f90modfile
f90module.f90 petsc.h petscao.h petscbag.h petscblaslapack.h
petscblaslapack_c.h petscblaslapack_caps.h petscblaslapack_stdcall.h
petscblaslapack_uscore.h petscbt.h petsccharacteristic.h petscctable.h
petsccusp.h petscdm.h petscdmcomposite.h petscdmda.h petscdmdatypes.h
petscdmmoab.h petscdmnetwork.h petscdmpatch.h petscdmplex.h
petscdmredundant.h petscdmshell.h petscdmsliced.h petscdmtypes.h
petscdraw.h petscdrawtypes.h petscds.h petscdstypes.h petscdt.h
petscerror.h petscfe.h petscfetypes.h petscfv.h petscfvtypes.h
petscis.h petscistypes.h petscksp.h petsclog.h petscmat.h
petscmatelemental.h petscmath.h petscmatlab.h petscoptions.h petscpc.h
petscpctypes.h petscpf.h petscsf.h petscsftypes.h petscsnes.h
petscsys.h petsctao.h petsctaolinesearch.h petsctime.h petscts.h
petscvalgrind.h petscvec.h petscversion.h petscviennacl.h
petscviewer.h petscviewerhdf5.h petscviewersaws.h petscviewertypes.h
petscwebclient.h
Testing path as file /cygdrive/c/Installed/petsc-dev/petsc/lib/petsc/conf
Testing file /cygdrive/c/Installed/petsc-dev/petsc/lib/petsc/conf/bfort-base.txt
Testing file /cygdrive/c/Installed/petsc-dev/petsc/include/bfort-base.txt
Testing path as file /cygdrive/c/Installed/petsc-dev/petsc/windows-intel/share
Testing file /cygdrive/c/Installed/petsc-dev/petsc/windows-intel/share/bfort-base.txt
Testing file /cygdrive/c/Installed/petsc-dev/petsc/include/bfort-base.txt
Unable to find bfort-base.txt config file in
/cygdrive/c/Installed/petsc-dev/petsc/windows-intel/share*******
*******************************************************************************
Hector
On Wed, Jun 17, 2015 at 5:16 PM, Satish Balay <balay at mcs.anl.gov> wrote:
> Hm - perhaps you have a different 'find' command in your path. What do you have for:
>
> which find
>
> Try:
>
> export PATH=/usr/bin:${PATH}
>
> and rerun configure
>
> We should look at replacing all shell code with python equivalent..
>
> Satish
>
> On Wed, 17 Jun 2015, Hector E Barrios Molano wrote:
>
>> Hi Satish,
>>
>> Taking out --with-sowing=0 gives me:
>>
>> $ ./configure --with-cc='win32fe cl' --with-fc='win32fe ifort'
>> --prefix=/cygdrive/c/Installed/petsc/ --PETSC_ARCH=windows-intel
>> --with-parmetis-include=/cygdrive/c/Installed/parmetis/include
>> --with-parmetis-lib=/cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> --with-metis-include=/cygdrive/c/Installed/parmetis/include
>> --with-metis-lib=/cygdrive/c/Installed/parmetis/lib/metis.lib
>> --with-mpi-include=[/cygdrive/c/Installed/msmpi/Include,/cygdrive/c/Installed/msmpi/Include/x64]
>> --with-mpi-lib=[/cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib,/cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib]
>> --with-blas-lapack-lib=[/cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_lp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib]
>> --with-scalapack-include=/cygdrive/c/Installed/mkl/include
>> --with-scalapack-lib=[/cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_lp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_lp64.lib]
>> ===============================================================================
>> Configuring PETSc to compile on your system
>> ===============================================================================
>> ===============================================================================
>>
>>
>> *****WARNING:
>> PETSC_DIR appears to be a Git clone - but git is not found in
>> PATH********
>>
>>
>> ===============================================================================
>>
>> ===============================================================================
>> Trying to
>> download http://ftp.mcs.anl.gov/pub/petsc/externalpackages/sowing-1.1.17-p1.tar.gz
>> for SOWING
>> ===============================================================================
>>
>> ===============================================================================
>> Trying to
>> download ftp://ftp.mcs.anl.gov/pub/petsc/externalpackages/sowing-1.1.17-p1.tar.gz
>> for SOWING
>> ===============================================================================
>>
>>
>>
>> *******************************************************************************
>> UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log
>> for details):
>> -------------------------------------------------------------------------------
>> Error changing permissions for sowing-1.1.17-p1 obtained from
>> /cygdrive/c/Installed/petsc-dev/petsc/windows-intel/externalpackages/_d_sowing-1.1.17-p1.tar.gz
>> : Could not execute "cd
>> /cygdrive/c/Installed/petsc-dev/petsc/windows-intel/externalpackages;
>> chmod -R a+r sowing-1.1.17-p1;find sowing-1.1.17-p1 -type d -name "*"
>> -exec chmod a+rx {} \;":
>> FIND: Parameter format not correct
>> Error changing permissions for sowing-1.1.17-p1 obtained from
>> /cygdrive/c/Installed/petsc-dev/petsc/windows-intel/externalpackages/_d_sowing-1.1.17-p1.tar.gz
>> : Could not execute "cd
>> /cygdrive/c/Installed/petsc-dev/petsc/windows-intel/externalpackages;
>> chmod -R a+r sowing-1.1.17-p1;find sowing-1.1.17-p1 -type d -name "*"
>> -exec chmod a+rx {} \;":
>> FIND: Parameter format not correct
>> *******************************************************************************
>>
>> On Wed, Jun 17, 2015 at 3:36 PM, Satish Balay <balay at mcs.anl.gov> wrote:
>> >> --with-sowing=0
>> >
>> > 1. make sure you have cygwin gcc/g++ installed.
>> > 2. configure PETSc without the above option [and rebuild the libraries]
>> >
>> > Satish
>> >
>> > On Wed, 17 Jun 2015, Hector E Barrios Molano wrote:
>> >
>> >> Hi Satish,
>> >>
>> >> Thank you! It solved some errors. However, I'm still having problems
>> >> with the Fortran test.
>> >>
>> >> $ make PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc
>> >> PETSC_ARCH=windows-intel test
>> >> Running test examples to verify correct installation
>> >> Using PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc and
>> >> PETSC_ARCH=windows-intel
>> >> C/C++ example src/snes/examples/tutorials/ex19 run successfully with 1
>> >> MPI process
>> >> C/C++ example src/snes/examples/tutorials/ex19 run successfully with 2
>> >> MPI processes
>> >> *******************Error detected during compile or link!*******************
>> >> See http://www.mcs.anl.gov/petsc/documentation/faq.html
>> >> /cygdrive/c/Installed/petsc-dev/petsc/src/snes/examples/tutorials ex5f
>> >> *********************************************************
>> >> /cygdrive/c/Installed/petsc-dev/petsc/bin/win32fe/win32fe ifort -c
>> >> -MT -Z7 -fpp -I/cygdrive/c/Installed/petsc-dev/petsc/include
>> >> -I/cygdrive/c/Installed/petsc-dev/petsc/windows-intel/include
>> >> -I/cygdrive/c/Installed/parmetis/include
>> >> -I/cygdrive/c/Installed/msmpi/Include
>> >> -I/cygdrive/c/Installed/msmpi/Include/x64 -o ex5f.o ex5f.F
>> >> /cygdrive/c/Installed/petsc-dev/petsc/bin/win32fe/win32fe ifort -MT
>> >> -Z7 -fpp -o ex5f ex5f.o
>> >> -L/cygdrive/c/Installed/petsc-dev/petsc/windows-intel/lib -lpetsc
>> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_lp64.lib
>> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_lp64.lib
>> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_lp64.lib
>> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib
>> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib
>> >> /cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> >> /cygdrive/c/Installed/parmetis/lib/metis.lib
>> >> /cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib
>> >> /cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib Gdi32.lib User32.lib
>> >> Advapi32.lib Kernel32.lib Ws2_32.lib
>> >> ex5f.obj : error LNK2019: unresolved external symbol SNESCREATE
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> DMCREATEGLOBALVECTOR referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol VECDUPLICATE
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol DMDAGETCORNERS
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> DMDAGETGHOSTCORNERS referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol SNESSETDM
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> SNESSETFROMOPTIONS referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> SNESGETITERATIONNUMBER referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol VECDESTROY
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol SNESDESTROY
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol DMDESTROY
>> >> referenced in function MAIN__
>> >> ex5f.obj : error LNK2019: unresolved external symbol MATSETVALUESLOCAL
>> >> referenced in function FORMJACOBIANLOCAL
>> >> ex5f.obj : error LNK2019: unresolved external symbol MATASSEMBLYBEGIN
>> >> referenced in function FORMJACOBIANLOCAL
>> >> ex5f.obj : error LNK2019: unresolved external symbol MATASSEMBLYEND
>> >> referenced in function FORMJACOBIANLOCAL
>> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\examples\TUTORI~1\ex5f.exe : fatal
>> >> error LNK1120: 14 unresolved externals
>> >> makefile:50: recipe for target 'ex5f' failed
>> >> make[3]: [ex5f] Error 96 (ignored)
>> >> /usr/bin/rm -f ex5f.o
>> >> Completed test examples
>> >> =========================================
>> >> Now to evaluate the computer systems you plan use - do:
>> >> make PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc
>> >> PETSC_ARCH=windows-intel streams NPMAX=<number of MPI processes you
>> >> intend to use>
>> >>
>> >> On Wed, Jun 17, 2015 at 3:01 PM, Satish Balay <balay at mcs.anl.gov> wrote:
>> >> > /cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_ilp64.lib
>> >> >
>> >> > This is the wrong version of MKL. You should look for lp64 variant [not ilp64]
>> >> >
>> >> > [you can just edit PETSC_DIR/PETSC_ARCH/lib/petsc/conf/petscvariables and make this
>> >> > change manually - and retry compiling the example]
>> >> >
>> >> > Satish
>> >> >
>> >> > On Wed, 17 Jun 2015, Hector E Barrios Molano wrote:
>> >> >
>> >> >> Hi PETSc Experts!
>> >> >>
>> >> >> I'm trying to build PETSc on a Windows machine, I got errors during
>> >> >> the test part. I downloaded petsc-dev from git.
>> >> >>
>> >> >>
>> >> >> This are my configuration command:
>> >> >>
>> >> >> $ ./configure --with-cc='win32fe cl' --with-fc='win32fe ifort'
>> >> >> --prefix=/cygdrive/c/Installed/petsc/ --PETSC_ARCH=windows-intel
>> >> >> --with-parmetis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-parmetis-lib=/cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> >> >> --with-metis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-metis-lib=/cygdrive/c/Installed/parmetis/lib/metis.lib
>> >> >> --with-mpi-include=[/cygdrive/c/Installed/msmpi/Include,/cygdrive/c/Installed/msmpi/Include/x64]
>> >> >> --with-mpi-lib=[/cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib,/cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib]
>> >> >> --with-blas-lapack-lib=[/cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib]
>> >> >> --with-scalapack-include=/cygdrive/c/Installed/mkl/include
>> >> >> --with-scalapack-lib=[/cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_ilp64.lib]
>> >> >> --with-sowing=0
>> >> >>
>> >> >>
>> >> >> I was able con configure and compile:
>> >> >>
>> >> >> make PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc
>> >> >> PETSC_ARCH=windows-intel all
>> >> >>
>> >> >> However, when testing I got these errors:
>> >> >>
>> >> >> $ make PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc
>> >> >> PETSC_ARCH=windows-intel test
>> >> >> Running test examples to verify correct installation
>> >> >> Using PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc and
>> >> >> PETSC_ARCH=windows-intel
>> >> >> Possible error running C/C++ src/snes/examples/tutorials/ex19 with 1 MPI process
>> >> >> See http://www.mcs.anl.gov/petsc/documentation/faq.html
>> >> >> lid velocity = 0.0016, prandtl # = 1, grashof # = 1
>> >> >> [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]PETSC ERROR: 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] VecNorm_Seq line 240
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\vec\vec\impls\seq\bvec2.c
>> >> >> [0]PETSC ERROR: [0] VecNorm line 228
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\vec\vec\INTERF~1\rvector.c
>> >> >> [0]PETSC ERROR: [0] SNESSolve_NEWTONLS line 150
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\impls\ls\ls.c
>> >> >> [0]PETSC ERROR: [0] SNESSolve line 3847
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\INTERF~1\snes.c
>> >> >> [0]PETSC ERROR: [0] main line 108
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\examples\TUTORI~1\ex19.c
>> >> >> [0]PETSC ERROR: --------------------- Error Message
>> >> >> --------------------------------------------------------------
>> >> >> [0]PETSC ERROR: Signal received
>> >> >> [0]PETSC ERROR: See
>> >> >> http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble
>> >> >> shooting.
>> >> >> [0]PETSC ERROR: Petsc Development GIT revision: unknown GIT Date: unknown
>> >> >> [0]PETSC ERROR: ./ex19 on a windows-intel named HECTOR-PC by hector
>> >> >> Wed Jun 17 14:21:38 2015
>> >> >> [0]PETSC ERROR: Configure options --with-cc="win32fe cl"
>> >> >> --with-fc="win32fe ifort" --prefix=/cygdrive/c/Installed/petsc/
>> >> >> --PETSC_ARCH=windows-intel
>> >> >> --with-parmetis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-parmetis-lib=/cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> >> >> --with-metis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-metis-lib=/cygdrive/c/Installed/parmetis/lib/metis.lib
>> >> >> --with-mpi-include="[/cygdrive/c/Installed/msmpi/Include,/cygdrive/c/Installed/msmpi/Include/x64]"
>> >> >> --with-mpi-lib="[/cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib,/cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib]"
>> >> >> --with-blas-lapack-lib="[/cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib]"
>> >> >> --with-scalapack-include=/cygdrive/c/Installed/mkl/include
>> >> >> --with-scalapack-lib="[/cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_ilp64.lib]"
>> >> >> --with-sowing=0
>> >> >> [0]PETSC ERROR: #1 User provided function() line 0 in unknown file
>> >> >>
>> >> >> job aborted:
>> >> >> [ranks] message
>> >> >>
>> >> >> [0] application aborted
>> >> >> aborting MPI_COMM_WORLD (comm=0x44000000), error 59, comm rank 0
>> >> >>
>> >> >> ---- error analysis -----
>> >> >>
>> >> >> [0] on hector-PC
>> >> >> ./ex19 aborted the job. abort code 59
>> >> >>
>> >> >> ---- error analysis -----
>> >> >> Possible error running C/C++ src/snes/examples/tutorials/ex19 with 2
>> >> >> MPI processes
>> >> >> See http://www.mcs.anl.gov/petsc/documentation/faq.html
>> >> >> lid velocity = 0.0016, prandtl # = 1, grashof # = 1
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> ------------------------------------------------------------------------
>> >> >> ------------------------------------------------------------------------
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> Caught signal number 11 SEGV: Segmentation Violation, probably memory
>> >> >> access out of range
>> >> >> Caught signal number 11 SEGV: Segmentation Violation, probably memory
>> >> >> access out of range
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> Try option -start_in_debugger or -on_error_attach_debugger
>> >> >> Try option -start_in_debugger or -on_error_attach_debugger
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
>> >> >> or see http://www.mcs.anl.gov/petsc/documentation/faq.html#valgrind
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> or try http://valgrind.org on GNU/linux and Apple Mac OS X to find
>> >> >> memory corruption errors
>> >> >> or try http://valgrind.org on GNU/linux and Apple Mac OS X to find
>> >> >> memory corruption errors
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> likely location of problem given in stack below
>> >> >> likely location of problem given in stack below
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> --------------------- Stack Frames ------------------------------------
>> >> >> --------------------- Stack Frames ------------------------------------
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> Note: The EXACT line numbers in the stack are not available,
>> >> >> Note: The EXACT line numbers in the stack are not available,
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> INSTEAD the line number of the start of the function
>> >> >> INSTEAD the line number of the start of the function
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> is given.
>> >> >> is given.
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> [0] VecNorm_MPI line 57 C:\INSTAL~1\PETSC-~1\petsc\src\vec\vec\impls\mpi\pvec2.c
>> >> >> [1] VecNorm_MPI line 57 C:\INSTAL~1\PETSC-~1\petsc\src\vec\vec\impls\mpi\pvec2.c
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> [0] VecNorm line 228 C:\INSTAL~1\PETSC-~1\petsc\src\vec\vec\INTERF~1\rvector.c
>> >> >> [1] VecNorm line 228 C:\INSTAL~1\PETSC-~1\petsc\src\vec\vec\INTERF~1\rvector.c
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> [0] SNESSolve_NEWTONLS line 150
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\impls\ls\ls.c
>> >> >> [1] SNESSolve_NEWTONLS line 150
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\impls\ls\ls.c
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> [0] SNESSolve line 3847 C:\INSTAL~1\PETSC-~1\petsc\src\snes\INTERF~1\snes.c
>> >> >> [1] SNESSolve line 3847 C:\INSTAL~1\PETSC-~1\petsc\src\snes\INTERF~1\snes.c
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> [0] main line 108 C:\INSTAL~1\PETSC-~1\petsc\src\snes\examples\TUTORI~1\ex19.c
>> >> >> [1] main line 108 C:\INSTAL~1\PETSC-~1\petsc\src\snes\examples\TUTORI~1\ex19.c
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> --------------------- Error Message
>> >> >> --------------------------------------------------------------
>> >> >> --------------------- Error Message
>> >> >> --------------------------------------------------------------
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> Signal received
>> >> >> Signal received
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.
>> >> >> See http://www.mcs.anl.gov/petsc/documentation/faq.html for trouble shooting.
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> Petsc Development GIT revision: unknown GIT Date: unknown
>> >> >> Petsc Development GIT revision: unknown GIT Date: unknown
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> ./ex19 on a windows-intel named HECTOR-PC by hector Wed Jun 17 14:21:38 2015
>> >> >> ./ex19 on a windows-intel named HECTOR-PC by hector Wed Jun 17 14:21:38 2015
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> Configure options --with-cc="win32fe cl" --with-fc="win32fe ifort"
>> >> >> --prefix=/cygdrive/c/Installed/petsc/ --PETSC_ARCH=windows-intel
>> >> >> --with-parmetis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-parmetis-lib=/cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> >> >> --with-metis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-metis-lib=/cygdrive/c/Installed/parmetis/lib/metis.lib
>> >> >> --with-mpi-include="[/cygdrive/c/Installed/msmpi/Include,/cygdrive/c/Installed/msmpi/Include/x64]"
>> >> >> --with-mpi-lib="[/cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib,/cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib]"
>> >> >> --with-blas-lapack-lib="[/cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib]"
>> >> >> --with-scalapack-include=/cygdrive/c/Installed/mkl/include
>> >> >> --with-scalapack-lib="[/cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_ilp64.lib]"
>> >> >> --with-sowing=0
>> >> >> Configure options --with-cc="win32fe cl" --with-fc="win32fe ifort"
>> >> >> --prefix=/cygdrive/c/Installed/petsc/ --PETSC_ARCH=windows-intel
>> >> >> --with-parmetis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-parmetis-lib=/cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> >> >> --with-metis-include=/cygdrive/c/Installed/parmetis/include
>> >> >> --with-metis-lib=/cygdrive/c/Installed/parmetis/lib/metis.lib
>> >> >> --with-mpi-include="[/cygdrive/c/Installed/msmpi/Include,/cygdrive/c/Installed/msmpi/Include/x64]"
>> >> >> --with-mpi-lib="[/cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib,/cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib]"
>> >> >> --with-blas-lapack-lib="[/cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib]"
>> >> >> --with-scalapack-include=/cygdrive/c/Installed/mkl/include
>> >> >> --with-scalapack-lib="[/cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_ilp64.lib,/cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_ilp64.lib]"
>> >> >> --with-sowing=0
>> >> >> [0]PETSC ERROR:
>> >> >> [1]PETSC ERROR:
>> >> >> #1 User provided function() line 0 in unknown file
>> >> >> #1 User provided function() line 0 in unknown file
>> >> >>
>> >> >> job aborted:
>> >> >> [ranks] message
>> >> >>
>> >> >> [0] application aborted
>> >> >> aborting MPI_COMM_WORLD (comm=0x44000000), error 59, comm rank 0
>> >> >>
>> >> >> [1] application aborted
>> >> >> aborting MPI_COMM_WORLD (comm=0x44000000), error 59, comm rank 1
>> >> >>
>> >> >> ---- error analysis -----
>> >> >>
>> >> >> [0-1] on hector-PC
>> >> >> ./ex19 aborted the job. abort code 59
>> >> >>
>> >> >> ---- error analysis -----
>> >> >> *******************Error detected during compile or link!*******************
>> >> >> See http://www.mcs.anl.gov/petsc/documentation/faq.html
>> >> >> /cygdrive/c/Installed/petsc-dev/petsc/src/snes/examples/tutorials ex5f
>> >> >> *********************************************************
>> >> >> /cygdrive/c/Installed/petsc-dev/petsc/bin/win32fe/win32fe ifort -c
>> >> >> -MT -Z7 -fpp -I/cygdrive/c/Installed/petsc-dev/petsc/include
>> >> >> -I/cygdrive/c/Installed/petsc-dev/petsc/windows-intel/include
>> >> >> -I/cygdrive/c/Installed/parmetis/include
>> >> >> -I/cygdrive/c/Installed/msmpi/Include
>> >> >> -I/cygdrive/c/Installed/msmpi/Include/x64 -o ex5f.o ex5f.F
>> >> >> /cygdrive/c/Installed/petsc-dev/petsc/bin/win32fe/win32fe ifort -MT
>> >> >> -Z7 -fpp -o ex5f ex5f.o
>> >> >> -L/cygdrive/c/Installed/petsc-dev/petsc/windows-intel/lib -lpetsc
>> >> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_scalapack_ilp64.lib
>> >> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_blacs_msmpi_ilp64.lib
>> >> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_intel_ilp64.lib
>> >> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_core.lib
>> >> >> /cygdrive/c/Installed/mkl/lib/intel64/mkl_sequential.lib
>> >> >> /cygdrive/c/Installed/parmetis/lib/parmetis.lib
>> >> >> /cygdrive/c/Installed/parmetis/lib/metis.lib
>> >> >> /cygdrive/c/Installed/msmpi/Lib/x64/msmpi.lib
>> >> >> /cygdrive/c/Installed/msmpi/Lib/x64/msmpifec.lib Gdi32.lib User32.lib
>> >> >> Advapi32.lib Kernel32.lib Ws2_32.lib
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol SNESCREATE
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> >> DMCREATEGLOBALVECTOR referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol VECDUPLICATE
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol DMDAGETCORNERS
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> >> DMDAGETGHOSTCORNERS referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol SNESSETDM
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> >> SNESSETFROMOPTIONS referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol
>> >> >> SNESGETITERATIONNUMBER referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol VECDESTROY
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol SNESDESTROY
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol DMDESTROY
>> >> >> referenced in function MAIN__
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol MATSETVALUESLOCAL
>> >> >> referenced in function FORMJACOBIANLOCAL
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol MATASSEMBLYBEGIN
>> >> >> referenced in function FORMJACOBIANLOCAL
>> >> >> ex5f.obj : error LNK2019: unresolved external symbol MATASSEMBLYEND
>> >> >> referenced in function FORMJACOBIANLOCAL
>> >> >> C:\INSTAL~1\PETSC-~1\petsc\src\snes\examples\TUTORI~1\ex5f.exe : fatal
>> >> >> error LNK1120: 14 unresolved externals
>> >> >> makefile:50: recipe for target 'ex5f' failed
>> >> >> make[3]: [ex5f] Error 96 (ignored)
>> >> >> /usr/bin/rm -f ex5f.o
>> >> >> Completed test examples
>> >> >> =========================================
>> >> >> Now to evaluate the computer systems you plan use - do:
>> >> >> make PETSC_DIR=/cygdrive/c/Installed/petsc-dev/petsc
>> >> >> PETSC_ARCH=windows-intel streams NPMAX=<number of MPI processes you
>> >> >> intend to use>
>> >> >>
>> >> >>
>> >> >> Best Regards,
>> >> >>
>> >> >> Hector
>> >> >>
>> >> >
>> >>
>> >
>>
>
More information about the petsc-dev
mailing list