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<p class="MsoNormal">Carson,<o:p></o:p></p>
<p class="MsoNormal"><o:p> </o:p></p>
<p class="MsoNormal">It was attached to the initial message (named ‘run05.mpi.o47346077’). It looks like a Perl issue with threads, though I don’t see why this would crash a cluster. The fact there is a log file would suggest it just ended the job.<o:p></o:p></p>
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<p class="MsoNormal">chris<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in"><b><span style="font-size:12.0pt;color:black">From:
</span></b><span style="font-size:12.0pt;color:black">maker-devel <maker-devel-bounces@yandell-lab.org> on behalf of Carson Holt <carsonhh@gmail.com><br>
<b>Date: </b>Monday, August 14, 2017 at 2:18 PM<br>
<b>To: </b>zl c <chzelin@gmail.com><br>
<b>Cc: </b>"maker-devel@yandell-lab.org" <maker-devel@yandell-lab.org><br>
<b>Subject: </b>Re: [maker-devel] maker MPI problem<o:p></o:p></span></p>
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<p class="MsoNormal" style="margin-left:.5in">This is rather vague —> “crashed the computer cluster”
<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in"><o:p> </o:p></p>
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<p class="MsoNormal" style="margin-left:.5in">Do you have a specific error?<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in"><o:p> </o:p></p>
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<p class="MsoNormal" style="margin-left:.5in">—Carson<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in">On Aug 14, 2017, at 12:59 PM, zl c <<a href="mailto:chzelin@gmail.com">chzelin@gmail.com</a>> wrote:<o:p></o:p></p>
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Hello,<o:p></o:p></p>
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I ran maker 3.0 with openmpi 2.0.2 and it crashed the computer cluster. I attached the log file. Could you help me to solve the problem?<o:p></o:p></p>
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CMD:<o:p></o:p></p>
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export LD_PRELOAD=/usr/local/OpenMPI/2.0.2/gcc-6.3.0/lib/libmpi.so<o:p></o:p></p>
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export OMPI_MCA_mpi_warn_on_fork=0<o:p></o:p></p>
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mpiexec -mca btl ^openib -n $SLURM_NTASKS maker -c 1 –base genome -g genome.fasta<o:p></o:p></p>
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Thanks,<o:p></o:p></p>
<p class="MsoNormal" style="mso-margin-top-alt:auto;mso-margin-bottom-alt:auto;margin-left:.5in">
Zelin Chen<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in">--------------------------------------------<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in">Zelin Chen [<a href="mailto:chzelin@gmail.com" target="_blank">chzelin@gmail.com</a>] Ph.D.<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in"><o:p> </o:p></p>
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<p class="MsoNormal" style="margin-left:.5in">NIH/NHGRI<o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in"><span style="font-size:9.0pt;font-family:"Verdana",sans-serif">Building 50, Room 5531<br>
50 SOUTH DR, MSC 8004 <br>
BETHESDA, MD 20892-8004</span><o:p></o:p></p>
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<p class="MsoNormal" style="margin-left:.5in"><run05.mpi.o47346077>_______________________________________________<br>
maker-devel mailing list<br>
<a href="mailto:maker-devel@box290.bluehost.com">maker-devel@box290.bluehost.com</a><br>
http://box290.bluehost.com/mailman/listinfo/maker-devel_yandell-lab.org<o:p></o:p></p>
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