Great, thanks, all installed and configuring. Humm, and I forgot to do PETSC_DIR=$PWD ...
On Thu, Dec 15, 2016 at 6:43 PM, Barry Smith <[email protected]> wrote: > > Mark, > > My records indicate you have accounts at MCS, at least we are paying > for them :-). You should be able to access them > with > > ssh [email protected] > > then > > ssh cg > > then > > cd /sandbox/ > mkdir adams > cd adams > git clone [email protected]:petsc/petsc.git > cd petsc > ./configure --download-mpich > > If you never set your ssh key to login then you need to do it at > accounts.mcs.anl.gov (note that you cannot ssh via a password you need to > set the ssh key). > > Barry > > > On Dec 15, 2016, at 5:32 PM, Mark Adams <[email protected]> wrote: > > > > OK, that was useful. I don't have access to a Linux machine right now. I > must have an uninitialized variable (that the compiler did not catch). > > Thanks, > > > > [0]PETSC ERROR: --------------------- Error Message > -------------------------------------------------------------- > > [0]PETSC ERROR: > > [0]PETSC ERROR: SNESSolve has not converged due to Nan or Inf norm > > [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/documentation/faq.html > for trouble shooting. > > [0]PETSC ERROR: Petsc Development GIT revision: v3.7.4-2475-g4fbd04f > GIT Date: 2016-12-11 10:34:33 -0500 > > [0]PETSC ERROR: /global/u2/m/madams/landaufem/Plex/./landaufem on a > arch-xc30-opt64-intel named nid00012 by madams Thu Dec 15 15:31:15 2016 > > [0]PETSC ERROR: Configure options COPTFLAGS="-fast -no-ipo -g" > CXXOPTFLAGS="-fast -no-ipo -g" FOPTFLAGS="-fast -no-ipo -g" > --download-hypre --download-parmetis --download-metis --download-p4est > --with-hdf5-dir=/opt/cray/hdf5-parallel/1.8.16/INTEL/15.0 --with-ssl=0 > --with-cc=cc --with-clib-autodetect=0 --with-cxx=CC > --with-cxxlib-autodetect=0 --with-debugging=0 --with-fc=ftn > --with-fortranlib-autodetect=0 --with-shared-libraries=0 --with-x=0 > --with-mpiexec=srun LIBS=-lstdc++ --with-64-bit-indices > PETSC_ARCH=arch-xc30-opt64-intel > > [0]PETSC ERROR: #1 SNESSolve_NEWTONLS() line 186 in > /global/u2/m/madams/petsc/src/snes/impls/ls/ls.c > > TSSolve failed > > 0 TS time steps, 528 cells, Nq=7 (3696 IPs), T=0. > > [0]PETSC ERROR: #2 SNESSolve() line 4128 in > /global/u2/m/madams/petsc/src/snes/interface/snes.c > > [0]PETSC ERROR: #3 TS_SNESSolve() line 189 in > /global/u2/m/madams/petsc/src/ts/impls/implicit/theta/theta.c > > > > > > On Thu, Dec 15, 2016 at 6:24 PM, Barry Smith <[email protected]> wrote: > > > > It is useful to run with valgrind, even on a completely different > machine, when you have errors because it will detect any memory corruption. > So currently I do my valgrind runs on a linux machine. > > > > Assuming the prefix is correct -snes_monitor should print an initial > residual norm before doing any solves so it is curious you got no output. > You can run with -snes_error_if_not_converged -ksp_error_if_not_converged > to try to get it to output as soon as a problem is detected. > > > > Barry > > > > > > > On Dec 15, 2016, at 4:56 PM, Mark Adams <[email protected]> wrote: > > > > > > I have a code that work on my Mac but it fails on both a Cray XC30 and > a KNL, unless the code is build with debug. I get this error message + > -info output. I am using -snes_monitor but get no output. This code was > working and I added a new feature. It does seem to fail when this new > feature is used. > > > > > > And, alas, I do not have a functioning valgrind right now. > > > > > > I will start toggling optimization flags but any thoughts would be > welcome. > > > > > > Mark > > > > > > [0] MatAssemblyEnd_SeqAIJ(): Matrix size: 4290 X 4290; storage space: > 0 unneeded,132612 used > > > [0] MatAssemblyEnd_SeqAIJ(): Number of mallocs during MatSetValues() > is 0 > > > [0] MatAssemblyEnd_SeqAIJ(): Maximum nonzeros in any row is 50 > > > [0] MatCheckCompressedRow(): Found the ratio (num_zerorows > 0)/(num_localrows 4290) < 0.6. Do not use CompressedRow routines. > > > [0] PetscCommDuplicate(): Using internal PETSc communicator 1140850689 > -2080374784 > > > [0] DMGetDMKSP(): Creating new DMKSP > > > [0] TSAdaptCheckStage(): Step=0, nonlinear solve failures 1 greater > than current TS allowed, stopping solve > > > [0]PETSC ERROR: --------------------- Error Message > -------------------------------------------------------------- > > > [0]PETSC ERROR: > > > [0]PETSC ERROR: TSStep has failed due to DIVERGED_NONLINEAR_SOLVE, > increase -ts_max_snes_failures or make negative to attempt recovery > > > [0]PETSC ERROR: See http://www.mcs.anl.gov/petsc/ > documentation/faq.html for trouble shooting. > > > [0]PETSC ERROR: Petsc Development GIT revision: unknown GIT Date: > unknown > > > [0]PETSC ERROR: /global/u2/m/madams/landaufem/Plex/./landaufem on a > arch-cori-knl-opt64-novector-intel named nid09355 by madams Thu Dec 15 > 14:25:00 2016 > > > [0]PETSC ERROR: TSSolve failed > > > 1 TS time steps, 512 cells, Nq=9 (4608 IPs), T=0. > > > Configure options COPTFLAGS=" -g -O1 -fp-model fast -qopt-report=5 > -hcpu=mic-knl -no-simd" CXXOPTFLAGS="-g -O1 -fp-model fast -qopt-report=5 > -hcpu=mic-knl -no-simd" FOPTFLAGS=" -g -O1 -fp-model fast -qopt-report=5 > -hcpu=mic-knl -no-simd" --download-metis=1 --download-parmetis=1 > --with-blas-lapack-dir=/usr/common/software/intel/ > compilers_and_libraries_2016.3.210/linux/mkl --with-cc=mpiicc > --with-cxx=mpiicpc --with-debugging=0 --with-fc=mpiifort > --with-mpiexec=srun --with-batch=0 --with-memalign=64 --with-64-bit-indices > PETSC_ARCH=arch-cori-knl-opt64-novector-intel --with-openmp=0 > --download-p4est=0 > > > [0]PETSC ERROR: #1 TSStep() line 3972 in /global/u2/m/madams/petsc/src/ > ts/interface/ts.c > > > [0]PETSC ERROR: #2 TSSolve() line 4218 in > /global/u2/m/madams/petsc/src/ts/interface/ts.c > > > > > > > > >
