[GE users] Program don't run correctly when submiting

jeromeverleyen jerome at ibt.unam.mx
Tue Jan 26 22:19:41 GMT 2010


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Dear all

I'm facing a really strange problem with a bioinformatic program. At 
first, i thought that was a problem from the program itself. When i 
submit a job like the following script, the program run into 
Segmentation fault:

----------------------
#!/bin/bash

#$ -N SOAP
#$ -l h_vmem=4G
#$ -j y
#$ -S /bin/sh


echo $HOSTNAME

/home/jerome/soap_1.11/soap.huge -d /home/jerome/SOAP/chr1.fasta .....
----------------------

But when i connect to the node with ssh, and run the same ultimate line 
of command, it complete! It seems to be the initial steps of SGE that 
generate this problem, but i can't figure out why.

The SGE version is GE 6.2u2_1, Rocks 5.2 version.

Can someone help me in this issue?

Regards

-- 
-- Jérôme
?a doit ?tre chouette de tout savoir comme ?a!
C'est dommage que ?a ne lui sert plus ? rien, ? papa,
puisqu'il ne va plus ? l'école.
  	(Histoires inédites du Petit Nicolas, Goscinny & Sempé)

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