<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 TRANSITIONAL//EN">
<HTML>
<HEAD>
<META HTTP-EQUIV="Content-Type" CONTENT="text/html; CHARSET=UTF-8">
<META NAME="GENERATOR" CONTENT="GtkHTML/4.6.6">
</HEAD>
<BODY>
Hi Barry,<BR>
<BR>
I run a small test case like you suggested: this results in no error, but the problem with log_summary still persists.<BR>
Please find attached the output of log_summary.<BR>
<BR>
Thanks,<BR>
Michele<BR>
<BR>
On Fri, 2015-06-05 at 21:34 -0500, Barry Smith wrote:
<BLOCKQUOTE TYPE=CITE>
<PRE>
[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
<FONT COLOR="#737373">> On Jun 5, 2015, at 9:22 PM, Michele Rosso <<A HREF="mailto:mrosso@uci.edu">mrosso@uci.edu</A>> wrote:</FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> Hi,</FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> I am checking the performances of my code via -log_summary, but the output is incomplete (please see attached) file.</FONT>
<FONT COLOR="#737373">> I configured petsc with the following options:</FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> if __name__ == '__main__':</FONT>
<FONT COLOR="#737373">> import sys</FONT>
<FONT COLOR="#737373">> import os</FONT>
<FONT COLOR="#737373">> sys.path.insert(0, os.path.abspath('config'))</FONT>
<FONT COLOR="#737373">> import configure</FONT>
<FONT COLOR="#737373">> configure_options = [</FONT>
<FONT COLOR="#737373">> '--with-batch=1 ',</FONT>
<FONT COLOR="#737373">> '--known-mpi-shared=0 ',</FONT>
<FONT COLOR="#737373">> '--known-mpi-shared-libraries=0',</FONT>
<FONT COLOR="#737373">> '--known-memcmp-ok ',</FONT>
<FONT COLOR="#737373">> '--with-blas-lapack-lib=-L/opt/acml/5.3.1/gfortran64/lib -lacml',</FONT>
<FONT COLOR="#737373">> '--COPTFLAGS=-march=bdver1 -fopenmp -O3 -ffast-math -fPIC ',</FONT>
<FONT COLOR="#737373">> '--FOPTFLAGS=-march=bdver1 -fopenmp -O3 -ffast-math -fPIC ',</FONT>
<FONT COLOR="#737373">> '--CXXOPTFLAGS=-march=bdver1 -fopenmp -O3 -ffast-math -fPIC ',</FONT>
<FONT COLOR="#737373">> '--with-x=0 ',</FONT>
<FONT COLOR="#737373">> '--with-debugging=0',</FONT>
<FONT COLOR="#737373">> '--with-clib-autodetect=0 ',</FONT>
<FONT COLOR="#737373">> '--with-cxxlib-autodetect=0 ',</FONT>
<FONT COLOR="#737373">> '--with-fortranlib-autodetect=0 ',</FONT>
<FONT COLOR="#737373">> '--with-shared-libraries=0 ',</FONT>
<FONT COLOR="#737373">> '--with-mpi-compilers=1 ',</FONT>
<FONT COLOR="#737373">> '--with-cc=cc ',</FONT>
<FONT COLOR="#737373">> '--with-cxx=CC ',</FONT>
<FONT COLOR="#737373">> '--with-fc=ftn ',</FONT>
<FONT COLOR="#737373">> # '--with-64-bit-indices',</FONT>
<FONT COLOR="#737373">> '--download-hypre=1',</FONT>
<FONT COLOR="#737373">> '--download-blacs=1 ',</FONT>
<FONT COLOR="#737373">> '--download-scalapack=1 ',</FONT>
<FONT COLOR="#737373">> '--download-superlu_dist=1 ',</FONT>
<FONT COLOR="#737373">> '--download-metis=1 ',</FONT>
<FONT COLOR="#737373">> '--download-parmetis=1 ',</FONT>
<FONT COLOR="#737373">> ]</FONT>
<FONT COLOR="#737373">> configure.petsc_configure(configure_options)</FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> Any idea about this issue?</FONT>
<FONT COLOR="#737373">> Thanks,</FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> Michele</FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> </FONT>
<FONT COLOR="#737373">> <log_summary></FONT>
</PRE>
</BLOCKQUOTE>
<BR>
</BODY>
</HTML>