[petsc-dev] Errors when testing PETSc build on Windows
Matthew Knepley
knepley at gmail.com
Thu Jun 18 12:06:10 CDT 2015
On Thu, Jun 18, 2015 at 11:57 AM, Hector E Barrios Molano <
hectorb at utexas.edu> wrote:
> Hi Satish,
>
> Now I'm getting this error. Why its trying to use "bfort"?
>
When using a clone, it tries to run 'bfort'. Are you trying to use a clone?
Thanks,
Matt
> 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
> >> >> >>
> >> >> >
> >> >>
> >> >
> >>
> >
>
--
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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