[petsc-users] petsc make test error

[Matthew Knepley]

On Thu, Oct 4, 2012 at 4:29 PM, Mark Porter <porterma at lanl.gov> wrote:

>  I am having trouble with the make test once petsc configure and I have
> run make all.  The error is as follows:
>

1) If you don't care about Fortran, everything is fine

2) If you have configured with Fortran data types, then the simple Fortran
test does not work. I fixed
    this in the Python tests, but make is harder to deal with.

    Matt


> Running test examples to verify correct installation
> Using PETSC_DIR=/home/porterma/Applications/petsc-dev and
> PETSC_ARCH=linux-gnu-c-debug
> 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
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials ex5f
> ---------------------------------------------------------------------------
> /home/porterma/Applications/petsc-dev/linux-gnu-c-debug/bin/mpif90 -c
> -Wall -Wno-unused-variable -g
> -I/home/porterma/Applications/petsc-dev/include
> -I/home/porterma/Applications/petsc-dev/linux-gnu-c-debug/include    -o
> ex5f.o ex5f.F
> Warning: Nonconforming tab character in column 1 of line 3099
> Warning: Nonconforming tab character in column 1 of line 5574
> Warning: Nonconforming tab character in column 1 of line 7846
> Warning: Nonconforming tab character in column 1 of line 10114
> Warning: Nonconforming tab character in column 1 of line 12423
> /home/porterma/Applications/petsc-dev/linux-gnu-c-debug/bin/mpif90 -Wall
> -Wno-unused-variable -g  -o ex5f ex5f.o
> -L/home/porterma/Applications/petsc-dev/linux-gnu-c-debug/lib  -lpetsc
> -lpthread
> -Wl,-rpath,/home/porterma/Applications/petsc-dev/linux-gnu-c-debug/lib
> -lflapack -lfblas -lhdf5_fortran -lhdf5 -lhdf5hl_fortran -lhdf5_hl -lz
> -L/usr/lib/gcc/x86_64-redhat-linux6E/4.4.6 -lmpi_f90 -lmpi_f77 -lgfortran
> -lm -lm -lm -lm -lm -lm -lm -lm -lmpi_cxx -lstdc++ -lmpi_cxx -lstdc++ -ldl
> -lmpi -lrt -lnsl -lutil -lgcc_s -lpthread -ldl
> ex5f.o: In function `MAIN__':
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:94:
> undefined reference to `snescreate_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:112:
> undefined reference to `dmcreateglobalvector_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:113:
> undefined reference to `vecduplicate_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:124:
> undefined reference to `dmdagetcorners_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:126:
> undefined reference to `dmdagetghostcorners_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:145:
> undefined reference to `snessetdm_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:153:
> undefined reference to `snessetfromoptions_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:165:
> undefined reference to `snesgetiterationnumber_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:177:
> undefined reference to `vecdestroy_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:178:
> undefined reference to `vecdestroy_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:179:
> undefined reference to `snesdestroy_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:180:
> undefined reference to `dmdestroy_'
> ex5f.o: In function `forminitialguess_':
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:226:
> undefined reference to `dmgetlocalvector_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:239:
> undefined reference to `dmlocaltoglobalbegin_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:240:
> undefined reference to `dmlocaltoglobalend_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:241:
> undefined reference to `dmrestorelocalvector_'
> ex5f.o: In function `formjacobianlocal_':
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:462:
> undefined reference to `matsetvalueslocal_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:477:
> undefined reference to `matsetvalueslocal_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:481:
> undefined reference to `matassemblybegin_'
> /home/porterma/Applications/petsc-dev/src/snes/examples/tutorials/ex5f.F:482:
> undefined reference to `matassemblyend_'
> collect2: ld returned 1 exit status
> make[3]: [ex5f] Error 1 (ignored)
> /bin/rm -f ex5f.o
> Completed test examples
>
>
> Any suggestions would be helpful.
>
> Thanks.
> porter
>
>
>  --
> Mark L. Porter, Ph.D.
> Earth & Environmental Sciences (EES-14)
> Los Alamos National Laboratory
> work: 505.606.1971
> cell: 541.517.2761porterma at lanl.gov
>
>


-- 
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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