Hi Mark, ah, I was confused by the Python information at the beginning of configure.log. So it is picking up the correct compiler. Have you tried uncommenting the check for GNU? Best regards, Karli On 10/31/18 11:40 AM, Mark Adams wrote:
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$ > > >