On Tue, Aug 9, 2011 at 10:36 PM, Debao Shao <span dir="ltr"><<a href="mailto:Debao.Shao@brion.com">Debao.Shao@brion.com</a>></span> wrote:<br><div class="gmail_quote"><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
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<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Hi, Matt:
<u></u><u></u></span></font></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy"><u></u> <u></u></span></font></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy"><a href="http://www.mcs.anl.gov/petsc/petsc-as/miscellaneous/petscthreads.html" target="_blank">http://www.mcs.anl.gov/petsc/petsc-as/miscellaneous/petscthreads.html</a>
says “PETSc is </span></font><font size="1" color="red" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:red">not</span></font><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">
currently thread-safe”.<u></u><u></u></span></font></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">And, you said “PETSc allows threads”, I was confused, can you explain a little for me?</span></font></p>
</div></div></blockquote><div><br></div><div>You are not prevented from using threads, but PETSc data structures are not thread-safe (we do nothing</div><div>with threads). By allow, I meant you can do whatever you want, but we do not supported a threaded model.</div>
<div>Sorry it was not clear.</div><div><br></div><div> Matt</div><div> </div><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;"><div lang="ZH-CN" link="blue" vlink="blue">
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<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Thanks a lot.
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<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Debao
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<p class="MsoNormal"><b><font size="2" face="Tahoma"><span lang="EN-US" style="font-size:10.0pt;font-family:Tahoma;font-weight:bold">From:</span></font></b><font size="2" face="Tahoma"><span lang="EN-US" style="font-size:10.0pt;font-family:Tahoma"> <a href="mailto:petsc-users-bounces@mcs.anl.gov" target="_blank">petsc-users-bounces@mcs.anl.gov</a>
[mailto:<a href="mailto:petsc-users-bounces@mcs.anl.gov" target="_blank">petsc-users-bounces@mcs.anl.gov</a>] <b><span style="font-weight:bold">On Behalf Of
</span></b>Matthew Knepley<br>
<b><span style="font-weight:bold">Sent:</span></b> Saturday, August 06, 2011 11:19 AM</span></font></p><div><div><font size="2" face="Tahoma"></font></div><div class="h5"><font size="2" face="Tahoma"><br>
<b><span style="font-weight:bold">To:</span></b> PETSc users list<br>
<b><span style="font-weight:bold">Subject:</span></b> Re: [petsc-users] PETSC ERROR: Caught signal number 15 Terminate</font></div></div><span lang="EN-US"><u></u><u></u></span><p></p>
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<p class="MsoNormal"><font size="3" face="宋体"><span lang="EN-US" style="font-size:12.0pt">On Sat, Aug 6, 2011 at 1:34 AM, Debao Shao <<a href="mailto:Debao.Shao@brion.com" target="_blank">Debao.Shao@brion.com</a>> wrote:<u></u><u></u></span></font></p>
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<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Thanks a lot, Jed and Aron.
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<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy"> </span></font><span lang="EN-US"><u></u><u></u></span></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Do you have ideas for this problem?</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy"> </span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">But I encounter a new problem, the situation is:</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">1, the matrix is big, and can be partitioned to several blocks;</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">2, started several threads to handle each block of matrix;</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">3, integrated all block matrices together.</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:7.5pt"> </span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">Again, the program crashed with reporting:
</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">"</span></font><span lang="EN-US">[0]PETSC ERROR: Caught
<font color="red"><span style="color:red">signal number 11 SEGV</span></font>: Segmentation Violation, probably memory access out of range"<u></u><u></u></span></p>
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<p class="MsoNormal"><font size="3" face="宋体"><span lang="EN-US" style="font-size:12.0pt">Yes, PETSc allows threads, but one of your threads is illegally accessing memory. I suggest using valgrind to track this down.<u></u><u></u></span></font></p>
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<p class="MsoNormal"><font size="3" face="宋体"><span lang="EN-US" style="font-size:12.0pt"> Matt<u></u><u></u></span></font></p>
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<p style="layout-grid-mode:char"><span><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">My libpetsc.a is built with option "<font color="red"><span style="color:red">--with-mpi=0</span></font> --with-debugging=0 -with-log=0
-with-info=0".</span></font></span><span lang="EN-US"><u></u><u></u></span></p>
<p style="layout-grid-mode:char"><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">Will it support this type of multiple threads?</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy"> </span></font><span lang="EN-US"><u></u><u></u></span></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Thanks,</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p class="MsoNormal"><font size="1" color="navy" face="Arial"><span lang="EN-US" style="font-size:9.0pt;font-family:Arial;color:navy">Debao</span></font><span lang="EN-US"><u></u><u></u></span></p>
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<p class="MsoNormal"><b><font size="2" face="Tahoma"><span lang="EN-US" style="font-size:10.0pt;font-family:Tahoma;font-weight:bold">From:</span></font></b><font size="2" face="Tahoma"><span lang="EN-US" style="font-size:10.0pt;font-family:Tahoma">
<a href="mailto:petsc-users-bounces@mcs.anl.gov" target="_blank">petsc-users-bounces@mcs.anl.gov</a> [mailto:<a href="mailto:petsc-users-bounces@mcs.anl.gov" target="_blank">petsc-users-bounces@mcs.anl.gov</a>]
<b><span style="font-weight:bold">On Behalf Of </span></b>Jed Brown<br>
<b><span style="font-weight:bold">Sent:</span></b> Friday, August 05, 2011 9:26 PM<br>
<b><span style="font-weight:bold">To:</span></b> PETSc users list<br>
<b><span style="font-weight:bold">Subject:</span></b> Re: [petsc-users] PETSC ERROR: Caught signal number 15 Terminate</span></font><span lang="EN-US"><u></u><u></u></span></p>
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<p class="MsoNormal"><font size="3" face="宋体"><span lang="EN-US" style="font-size:12.0pt">On Fri, Aug 5, 2011 at 04:00, Debao Shao <<a href="mailto:Debao.Shao@brion.com" target="_blank">Debao.Shao@brion.com</a>>
wrote:<u></u><u></u></span></font></p>
<p><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">1, I put "PetscInitialize" at the beginning of main, and "PetscInitialize" registers a signal handler to capture "SIGTERM";</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">2, the problem ran in server side will send SIGTERM to kill all of clients after one stage is done.</span></font><span lang="EN-US"><u></u><u></u></span></p>
<p><font size="1" face="宋体"><span lang="EN-US" style="font-size:9.0pt">3, then, unfortunately, the signal "SIGTERM" is caught by the signal handler installed by "PetscInitialize", and caused to abort.</span></font><span lang="EN-US"><u></u><u></u></span></p>
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<p class="MsoNormal"><font size="3" face="宋体"><span lang="EN-US" style="font-size:12.0pt">You can remove the order dependence by running with -no_signal_handler or setting your own signal handler with:<u></u><u></u></span></font></p>
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<p class="MsoNormal"><font size="3" face="宋体"><span lang="EN-US" style="font-size:12.0pt"><a href="http://www.mcs.anl.gov/petsc/petsc-as/snapshots/petsc-dev/docs/manualpages/Sys/PetscPushSignalHandler.html" target="_blank">http://www.mcs.anl.gov/petsc/petsc-as/snapshots/petsc-dev/docs/manualpages/Sys/PetscPushSignalHandler.html</a>
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