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<div>The failed thread is usually just a symptom. There is something causing the thread to fail. Could you send me your STDERR. Often times there is a warning or error further up.</div>
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<div>Thanks,</div>
<div>Carson</div>
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<span style="font-weight:bold">From: </span>Ramón Fallon <<a href="mailto:ramonfallon@gmail.com">ramonfallon@gmail.com</a>><br>
<span style="font-weight:bold">Date: </span>Wednesday, 6 March, 2013 12:34 PM<br>
<span style="font-weight:bold">To: </span><<a href="mailto:maker-devel@yandell-lab.org">maker-devel@yandell-lab.org</a>><br>
<span style="font-weight:bold">Subject: </span>thread terminated, causing all processes to fail<br>
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Hi,
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<div>I'm using the maker_svn rev 995 version and hand-compiled MPICH2 on a single multicore machine.</div>
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<div>I've successfully run the dpp_contig.fasta (MPI/8 processes) example but am having trouble with larger contigs fasta files of my own, which are well formed.</div>
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<div>I've run into a problem whereby an mpiexec run of 8 processes will stop due to a perl-thread related problem which says</div>
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<div>FATAL: Thread terminated, causing all processes to fail</div>
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<div>this corresponds to line 924 in the maker executable (which is for the secondary/worker threads), and is the result of a test on !$thr OR'd with !$thr->is_running, so clearly one of these is failing. </div>
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<div>$thr itself is a threads->new(\&$node_thread, $gdbfile). Despite being a programmer, I've only recently started to look at the code and have not got the hang of the parallelisation setup here, though I gather the master must use threads to initially generate
the parallel instances which then use the message passing. Of course threads don't have message passing ability, so I guess something clever is going on and will take some time for me to understand. </div>
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<div>Clearly however, it has worked before on dpp_contigs, so it may be is something wrong with my datafile or the way I am carrying out the analysis.</div>
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<div>Any clues that can be put my way are welcome.</div>
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<div>Thank you!</div>
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