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-   -   maker weird thing (http://seqanswers.com/forums/showthread.php?t=28119)

yzzhang 03-06-2013 05:41 AM

maker weird thing
 
Hi, all.
Now I use maker pipeline to annotate my assembly. I have two computers, one has 8 cores, 96 G memory, another has 12 cores, 96 g memory. Because I want to run faster, I split my assembly to two parts and run maker on the two computers, one part has fewer but more longer scaffolds, the other part has more scaffolds with shorter length.I used mpich2 and run: mpiexec -n 8 (or 12) maker, I set the same parameters for maker, but I tried to run the part containing long scaffolds on the 8 cores computer. many scaffolds failed to be annotated, while run this part on the 12 cores computer, it worked good, and annotated successfully. I fell weird, any one knew why? Thanks a lot.
Best wishes,
yun

yzzhang 03-06-2013 05:49 AM

BTW, I saw the run log named run.log.child.0 for the failed scaffold said " DIED RANK 5:2:0:0
DIED COUNT 1"
but the same scaffold run on the 12 cores computer this scaffold was annotated successfully, the run.log.child.0 was empty. Any questions?


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