It looks like configure is not finding the correct cc. It does not seem
hard to find.
06:37 master= /lustre/atlas/proj-shared/geo127/petsc$ cc --version
gcc (GCC) 6.3.0 20161221 (Cray Inc.)
Copyright (C) 2016 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
06:37 master= /lustre/atlas/proj-shared/geo127/petsc$ which cc
/opt/cray/craype/2.5.13/bin/cc
06:38 master= /lustre/atlas/proj-shared/geo127/petsc$ which gcc
/opt/gcc/6.3.0/bin/gcc
On Wed, Oct 31, 2018 at 6:34 AM Mark Adams <[email protected]
<mailto:[email protected]>> wrote:
On Wed, Oct 31, 2018 at 5:05 AM Karl Rupp <[email protected]
<mailto:[email protected]>> 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 <[email protected]
<mailto:[email protected]>
> <mailto:[email protected] <mailto:[email protected]>>> wrote:
>
> I get an error with --with-cuda=1
>
> On Tue, Oct 30, 2018 at 4:44 PM Smith, Barry F.
<[email protected] <mailto:[email protected]>
> <mailto:[email protected] <mailto:[email protected]>>>
wrote:
>
> --with-cudac=1 should be --with-cuda=1
>
>
>
> > On Oct 30, 2018, at 12:35 PM, Smith, Barry F. via
petsc-dev
> <[email protected] <mailto:[email protected]>
<mailto:[email protected] <mailto:[email protected]>>>
wrote:
> >
> >
> >
> >> On Oct 29, 2018, at 8:09 PM, Mark Adams
<[email protected] <mailto:[email protected]>
> <mailto:[email protected] <mailto:[email protected]>>> 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$
> >
>
