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 <mfad...@lbl.gov> wrote: > > > On Wed, Oct 31, 2018 at 5:05 AM Karl Rupp <r...@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 <mfad...@lbl.gov >> > <mailto:mfad...@lbl.gov>> wrote: >> > >> > I get an error with --with-cuda=1 >> > >> > On Tue, Oct 30, 2018 at 4:44 PM Smith, Barry F. <bsm...@mcs.anl.gov >> > <mailto:bsm...@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@mcs.anl.gov <mailto:petsc-dev@mcs.anl.gov>> wrote: >> > > >> > > >> > > >> > >> On Oct 29, 2018, at 8:09 PM, Mark Adams <mfad...@lbl.gov >> > <mailto:mfad...@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$ >> > > >> > >> >
