Hi Barry, I accidentally found out what triggers the problem with log_summary. If I specify log_summary from command line, it works as expected. If instead I open and load an options file with -log_summary in it, the output is incomplete. I am actually concerned about using options files now because this weird behavior could affect the correct loading of other options as well.
Michele On Fri, 2015-06-05 at 21:34 -0500, Barry Smith wrote: > [NID 04001] 2015-06-04 19:07:24 Apid 25022256: initiated application > termination > Application 25022256 exit signals: Killed > Application 25022256 resources: utime ~271s, stime ~15107s, Rss ~188536, > inblocks ~5078831, outblocks ~12517984 > > Usually this kind of message indicates that either the OS or the batch > system killed the process for some reason: often because it ran out of time > or maybe memory. > > Can you run in batch with a request for more time? Do smaller jobs run > through ok? > > If utime means user time and stime means system time then this is very > bad, the system time is HUGE relative to the user time. > > Barry > > > > > > On Jun 5, 2015, at 9:22 PM, Michele Rosso <[email protected]> wrote: > > > > Hi, > > > > I am checking the performances of my code via -log_summary, but the output > > is incomplete (please see attached) file. > > I configured petsc with the following options: > > > > if __name__ == '__main__': > > import sys > > import os > > sys.path.insert(0, os.path.abspath('config')) > > import configure > > configure_options = [ > > '--with-batch=1 ', > > '--known-mpi-shared=0 ', > > '--known-mpi-shared-libraries=0', > > '--known-memcmp-ok ', > > '--with-blas-lapack-lib=-L/opt/acml/5.3.1/gfortran64/lib -lacml', > > '--COPTFLAGS=-march=bdver1 -fopenmp -O3 -ffast-math -fPIC ', > > '--FOPTFLAGS=-march=bdver1 -fopenmp -O3 -ffast-math -fPIC ', > > '--CXXOPTFLAGS=-march=bdver1 -fopenmp -O3 -ffast-math -fPIC ', > > '--with-x=0 ', > > '--with-debugging=0', > > '--with-clib-autodetect=0 ', > > '--with-cxxlib-autodetect=0 ', > > '--with-fortranlib-autodetect=0 ', > > '--with-shared-libraries=0 ', > > '--with-mpi-compilers=1 ', > > '--with-cc=cc ', > > '--with-cxx=CC ', > > '--with-fc=ftn ', > > # '--with-64-bit-indices', > > '--download-hypre=1', > > '--download-blacs=1 ', > > '--download-scalapack=1 ', > > '--download-superlu_dist=1 ', > > '--download-metis=1 ', > > '--download-parmetis=1 ', > > ] > > configure.petsc_configure(configure_options) > > > > Any idea about this issue? > > Thanks, > > > > Michele > > > > > > > > > > <log_summary> >
