[petsc-dev] testing on Titan

Fri Jun 29 09:12:57 CDT 2018

Thanks all, I knew this but its been a while since I've run on this file
setup.

On Fri, Jun 29, 2018 at 9:15 AM Seung-Hoe Ku <sku at pppl.gov> wrote:

> Try copying files to scratch file system.
> Home is not available when executive batch job. Probably interactive
> she'll too.
>
> On Fri, Jun 29, 2018 at 7:47 AM Mark Adams <mfadams at lbl.gov> wrote:
>
>> 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>
>>>
>>> --
> Sent from Iphone
>
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