[petsc-dev] Error running on Titan with GPUs & GNU
Mark Adams
mfadams at lbl.gov
Wed Oct 31 05:34:25 CDT 2018
On Wed, Oct 31, 2018 at 5:05 AM Karl Rupp <rupp at iue.tuwien.ac.at> wrote:
> Hi Mark,
>
> please comment or remove lines 83 and 84 in
> config/BuildSystem/config/packages/cuda.py
>
> Is there a compiler newer than GCC 4.3 available?
>
You mean 6.3?
06:33 ~$ module avail gcc
----------------------------------------------------- /opt/modulefiles
-----------------------------------------------------
gcc/4.8.1 gcc/4.9.3 gcc/6.1.0 gcc/6.3.0(default)
gcc/7.2.0
gcc/4.8.2 gcc/5.3.0 gcc/6.2.0 gcc/7.1.0
gcc/7.3.0
>
> Best regards,
> Karli
>
>
>
> On 10/31/18 8:15 AM, Mark Adams via petsc-dev wrote:
> > After loading a cuda module ...
> >
> > On Wed, Oct 31, 2018 at 2:58 AM Mark Adams <mfadams at lbl.gov
> > <mailto:mfadams at lbl.gov>> wrote:
> >
> > I get an error with --with-cuda=1
> >
> > On Tue, Oct 30, 2018 at 4:44 PM Smith, Barry F. <bsmith at mcs.anl.gov
> > <mailto:bsmith at mcs.anl.gov>> wrote:
> >
> > --with-cudac=1 should be --with-cuda=1
> >
> >
> >
> > > On Oct 30, 2018, at 12:35 PM, Smith, Barry F. via petsc-dev
> > <petsc-dev at mcs.anl.gov <mailto:petsc-dev at mcs.anl.gov>> wrote:
> > >
> > >
> > >
> > >> On Oct 29, 2018, at 8:09 PM, Mark Adams <mfadams at lbl.gov
> > <mailto:mfadams at lbl.gov>> wrote:
> > >>
> > >> And a debug build seems to work:
> > >
> > > Well ok.
> > >
> > > Are there newer versions of the Gnu compiler for this
> > system? Are there any other compilers on the system that would
> > likely be less buggy? IBM compilers? If this simple code
> > generates a gross error with optimization who's to say how many
> > more subtle bugs may be induced in the library by the buggy
> > optimizer (there may be none but IMHO probability says there
> > will be others).
> > >
> > > Is there any chance that valgrind runs on this machine;
> > you could run the optimized version through it and see what it
> says.
> > >
> > > Barry
> > >
> > >>
> > >> 21:04 1 master= /lustre/atlas/proj-shared/geo127/petsc$ make
> >
> PETSC_DIR=/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda
> > PETSC_ARCH="" test
> > >> Running test examples to verify correct installation
> > >> Using
> >
> PETSC_DIR=/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda
> > and PETSC_ARCH=
> > >> *******************Error detected during compile or
> > link!*******************
> > >> See http://www.mcs.anl.gov/petsc/documentation/faq.html
> > >>
> >
> /lustre/atlas/proj-shared/geo127/petsc/src/snes/examples/tutorials
> > ex19
> > >>
> >
> *********************************************************************************
> > >> cc -o ex19.o -c -g
> >
> -I/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/include
> `pwd`/ex19.c
> > >> cc -g -o ex19 ex19.o
> >
> -L/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib
> >
> -Wl,-rpath,/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib
> >
> -L/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib
> > -lpetsc -lHYPRE -lflapack -lfblas -lparmetis -lmetis -ldl
> > >>
> >
> /lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib/libpetsc.a(dlimpl.o):
> > In function `PetscDLOpen':
> > >>
> >
> /lustre/atlas1/geo127/proj-shared/petsc/src/sys/dll/dlimpl.c:108: warning:
> > Using 'dlopen' in statically linked applications requires at
> > runtime the shared libraries from the glibc version used for
> linking
> > >>
> >
> /lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib/libpetsc.a(send.o):
> > In function `PetscOpenSocket':
> > >>
> >
> /lustre/atlas1/geo127/proj-shared/petsc/src/sys/classes/viewer/impls/socket/send.c:108:
> > warning: Using 'gethostbyname' in statically linked applications
> > requires at runtime the shared libraries from the glibc version
> > used for linking
> > >> true ex19
> > >> rm 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
> > >> lid velocity = 0.0016, prandtl # = 1., grashof # = 1.
> > >> Number of SNES iterations = 2
> > >> Application 19081049 resources: utime ~1s, stime ~1s, Rss
> > ~17112, inblocks ~36504, outblocks ~111043
> > >> 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.
> > >> Number of SNES iterations = 2
> > >> Application 19081050 resources: utime ~1s, stime ~1s, Rss
> > ~19816, inblocks ~36527, outblocks ~111043
> > >> 5a6
> > >>> Application 19081051 resources: utime ~1s, stime ~0s, Rss
> > ~13864, inblocks ~36527, outblocks ~111043
> > >>
> >
> /lustre/atlas/proj-shared/geo127/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
> > >>
> >
> /lustre/atlas/proj-shared/geo127/petsc/src/snes/examples/tutorials
> > ex5f
> > >> *********************************************************
> > >> ftn -c -g
> >
> -I/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/include
> > -o ex5f.o ex5f.F90
> > >> ftn -g -o ex5f ex5f.o
> >
> -L/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib
> >
> -Wl,-rpath,/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib
> >
> -L/lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib
> > -lpetsc -lHYPRE -lflapack -lfblas -lparmetis -lmetis -ldl
> > >>
> >
> /lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib/libpetsc.a(dlimpl.o):
> > In function `PetscDLOpen':
> > >>
> >
> /lustre/atlas1/geo127/proj-shared/petsc/src/sys/dll/dlimpl.c:108: warning:
> > Using 'dlopen' in statically linked applications requires at
> > runtime the shared libraries from the glibc version used for
> linking
> > >>
> >
> /lustre/atlas/proj-shared/geo127/petsc_titan_dbg64idx_gnu_cuda/lib/libpetsc.a(send.o):
> > In function `PetscOpenSocket':
> > >>
> >
> /lustre/atlas1/geo127/proj-shared/petsc/src/sys/classes/viewer/impls/socket/send.c:108:
> > warning: Using 'gethostbyname' in statically linked applications
> > requires at runtime the shared libraries from the glibc version
> > used for linking
> > >> rm ex5f.o
> > >> Possible error running Fortran example
> > src/snes/examples/tutorials/ex5f with 1 MPI process
> > >> See http://www.mcs.anl.gov/petsc/documentation/faq.html
> > >> Number of SNES iterations = 4
> > >> Application 19081055 resources: utime ~1s, stime ~0s, Rss
> > ~12760, inblocks ~36800, outblocks ~111983
> > >> Completed test examples
> > >> 21:06 master= /lustre/atlas/proj-shared/geo127/petsc$
> > >
> >
>
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