[petsc-dev] testing on Titan

Fri Jun 29 06:46:51 CDT 2018

I can not even run a job here. This is from an interactive shell:

64-pgi ex19-batch1:~/petsc/src/snes/examples/tutorials> make
PETSC_DIR=/autofs/nccs-svm1_home1/adams/petsc PETSC_ARCH=arch-titan-dbg6
cc -o ex19.o -c -fast -mp   -I/autofs/nccs-svm1_home1/adams/petsc/include
-I/autofs/nccs-svm1_home1/adams/petsc/arch-titan-dbg64-pgi/include
-I/ccs/proj/env003/petscv3.9-dbg64-pgi/include    `pwd`/ex19.c
cc -fast -mp  -o ex19  ex19.o
-L/autofs/nccs-svm1_home1/adams/petsc/arch-titan-dbg64-pgi/lib
-Wl,-rpath,/ccs/proj/env003/petscv3.9-dbg64-pgi/lib
-L/ccs/proj/env003/petscv3.9-dbg64-pgi/lib -lpetsc -lHYPRE -lflapack
-lfblas -lparmetis -lmetis -lstdc++ -ldl
/autofs/nccs-svm1_home1/adams/petsc/arch-titan-dbg64-pgi/lib/libpetsc.a(dlimpl.o):
In function `PetscDLOpen':
/autofs/nccs-svm1_home1/adams/petsc/src/sys/dll/dlimpl.c:54: warning: Using
'dlopen' in statically linked applications requires at runtime the shared
libraries from the glibc version used for linking
/autofs/nccs-svm1_home1/adams/petsc/arch-titan-dbg64-pgi/lib/libpetsc.a(send.o):
In function `PetscOpenSocket':
/autofs/nccs-svm1_home1/adams/petsc/src/sys/classes/viewer/impls/socket/send.c:106:
warning: Using 'gethostbyname' in statically linked applications requires
at runtime the shared libraries from the glibc version used for linking
adams at titan-batch1:~/petsc/src/snes/examples/tutorials> aprun -n 1 ./ex19
[NID 02258] 2018-06-29 07:45:09 Exec ./ex19 failed: chdir
/autofs/nccs-svm1_home1/adams/petsc/src/snes/examples/tutorials No such
file or directory
adams at titan-batch1:~/petsc/src/snes/examples/tutorials>

Seung-Hoe runs here, maybe he can give me advice on what is wrong here.

On Thu, Jun 28, 2018 at 7:53 PM Smith, Barry F. <bsmith at mcs.anl.gov> wrote:

>
>   1) We need to get this PGI compiler into our regular testing. It doesn't
> like some Fortran code the other compilers are ok with
>
>    2) Mark,  likely you just need to submit the examples manually to run
> them. cd src/snes/examples/tutorials; make ex19  then use the batch system
> to submit the example
>
>    Barry
>
>
> > On Jun 28, 2018, at 5:35 PM, Mark Adams <mfadams at lbl.gov> wrote:
> >
> > I am trying to run on Titan and I am having problems running the tests.
> I get this output. It says it can not find a directory, but I do an ls in
> after the error and you can see that it is there.
> >
> > I've attached the logs.
> >
> > Any ideas?
> > Thanks,
> > Mark
> >
> > adams at titan-login6:~/petsc> make
> PETSC_DIR=/ccs/proj/env003/petscv3.9-opt64-pgi PETSC_ARCH="" test
> > Running test examples to verify correct installation
> > Using PETSC_DIR=/ccs/proj/env003/petscv3.9-opt64-pgi and PETSC_ARCH=
> > *******************Error detected during compile or
> link!*******************
> > See http://www.mcs.anl.gov/petsc/documentation/faq.html
> > /ccs/home/adams/petsc/src/snes/examples/tutorials ex19
> >
> *********************************************************************************
> > cc -o ex19.o -c -fast -mp
>  -I/ccs/proj/env003/petscv3.9-opt64-pgi/include
> -I/ccs/proj/env003/petscv3.9-opt64-pgi/include
> -I/ccs/proj/env003/petscv3.9-opt64-pgi/include    `pwd`/ex19.c
> > cc -fast -mp  -o ex19  ex19.o -L/ccs/proj/env003/petscv3.9-opt64-pgi/lib
> -Wl,-rpath,/ccs/proj/env003/petscv3.9-opt64-pgi/lib
> -L/ccs/proj/env003/petscv3.9-opt64-pgi/lib -lpetsc -lHYPRE -lflapack
> -lfblas -lparmetis -lmetis -lstdc++ -ldl
> > /ccs/proj/env003/petscv3.9-opt64-pgi/lib/libpetsc.a(dlimpl.o): In
> function `PetscDLOpen':
> > /autofs/nccs-svm1_home1/adams/petsc/src/sys/dll/dlimpl.c:53: warning:
> Using 'dlopen' in statically linked applications requires at runtime the
> shared libraries from the glibc version used for linking
> > /ccs/proj/env003/petscv3.9-opt64-pgi/lib/libpetsc.a(send.o): In function
> `PetscOpenSocket':
> >
> /autofs/nccs-svm1_home1/adams/petsc/src/sys/classes/viewer/impls/socket/send.c:101:
> warning: Using 'gethostbyname' in statically linked applications requires
> at runtime the shared libraries from the glibc version used for linking
> > /bin/rm -f ex19.o
> > Possible error running C/C++ src/snes/examples/tutorials/ex19 with 1 MPI
> process
> > See http://www.mcs.anl.gov/petsc/documentation/faq.html
> > [NID 18525] 2018-06-28 18:25:39 Exec ./ex19 failed: chdir
> /autofs/nccs-svm1_home1/adams/petsc/src/snes/examples/tutorials No such
> file or directory
> > Possible error running C/C++ src/snes/examples/tutorials/ex19 with 2 MPI
> processes
> > See http://www.mcs.anl.gov/petsc/documentation/faq.html
> > [NID 18525] 2018-06-28 18:25:46 Exec ./ex19 failed: chdir
> /autofs/nccs-svm1_home1/adams/petsc/src/snes/examples/tutorials No such
> file or directory
> > 1,5c1
> > < lid velocity = 0.0016, prandtl # = 1., grashof # = 1.
> > <   0 SNES Function norm 0.0406612
> > <   1 SNES Function norm 4.12227e-06
> > <   2 SNES Function norm 6.098e-11
> > < Number of SNES iterations = 2
> > ---
> > > [NID 18525] 2018-06-28 18:25:55 Exec ./ex19 failed: chdir
> /autofs/nccs-svm1_home1/adams/petsc/src/snes/examples/tutorials No such
> file or directory
> > /ccs/home/adams/petsc/src/snes/examples/tutorials
> > Possible problem with ex19_hypre, diffs above
> > =========================================
> > *******************Error detected during compile or
> link!*******************
> > See http://www.mcs.anl.gov/petsc/documentation/faq.html
> > /ccs/home/adams/petsc/src/snes/examples/tutorials ex5f
> > *********************************************************
> > ftn -c -fast  -mp   -I/ccs/proj/env003/petscv3.9-opt64-pgi/include
> -I/ccs/proj/env003/petscv3.9-opt64-pgi/include
> -I/ccs/proj/env003/petscv3.9-opt64-pgi/include    -o ex5f.o ex5f.F90
> > PGF90-S-0155-Could not resolve generic procedure dmdacreate2d (ex5f.F90:
> 120)
> > PGF90-S-0450-Argument number 2 to snesgetiterationnumber: kind mismatch
> (ex5f.F90: 180)
> >   0 inform,   0 warnings,   2 severes, 0 fatal for main
> > PGF90-S-0155-Could not resolve generic procedure matsetvalueslocal
> (ex5f.F90: 464)
> > PGF90-S-0155-Could not resolve generic procedure matsetvalueslocal
> (ex5f.F90: 477)
> >   0 inform,   0 warnings,   2 severes, 0 fatal for formjacobianlocal
> > gmake[3]: [ex5f.o] Error 2 (ignored)
> > ftn -fast  -mp  -o ex5f ex5f.o
> -L/ccs/proj/env003/petscv3.9-opt64-pgi/lib
> -Wl,-rpath,/ccs/proj/env003/petscv3.9-opt64-pgi/lib
> -L/ccs/proj/env003/petscv3.9-opt64-pgi/lib -lpetsc -lHYPRE -lflapack
> -lfblas -lparmetis -lmetis -lstdc++ -ldl
> > /usr/bin/ld: cannot find ex5f.o: No such file or directory
> > /usr/bin/sha1sum: ex5f: No such file or directory
> > gmake[3]: [ex5f] Error 2 (ignored)
> > /bin/rm -f ex5f.o
> > Completed test examples
> > adams at titan-login6:~/petsc> ll
> /autofs/nccs-svm1_home1/adams/petsc/src/snes/examples/tutorials
> > total 1864
> > -rw-rw-r-- 1 adams adams  11134 May  3 14:26 ex1.c
> > drwxr-xr-x 3 adams adams   4096 May  3 14:26 ex10d
> > -rw-rw-r-- 1 adams adams  92615 May  3 14:26 ex12.c
> > -rw-r--r-- 1 adams adams  19324 Jun 21 17:59 ex13.c
> > -rw-rw-r-- 1 adams adams  20550 May  3 14:26 ex14.c
> >
> > <make.log><configure.log>
>
>
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