[GE users] out of memory?
davide.cittaro at ifom-ieo-campus.it
Mon Feb 12 14:38:23 GMT 2007
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Hi, I'm trying to debug a program I used to run in grid engine. It
programmatically goes out of memory but, since it runs for days and
days, it is hard to me to understand what's going on.
BTW, the queue which it is running in has no memory (or other
according to qacct the process doesn't use that much memory:
$ qacct -j 308
qsub_time Tue Jan 30 16:28:22 2007
start_time Tue Jan 30 16:28:26 2007
end_time Mon Feb 12 04:30:54 2007
and the machine has 4 Gb RAM + 7.5 Gb swap that never get filled...
The dmesg says
Out of Memory: Killed process 18873 (mfinder).
According to what I wrote, can I exclude that running in grid engine,
somehow, influenced the memory available to that job? I know it
sounds weird, but I have to exclude everything before complaining
with the program author... :-)
HPC and Bioinformatics Systems @ Informatics Core
IFOM - Istituto FIRC di Oncologia Molecolare
via adamello, 16
e-mail: davide.cittaro at ifom-ieo-campus.it
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