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aawineco
Junior Member

USA
31 Posts
Posted - May 01 2009 :  2:48:51 PM  Show Profile  Reply with Quote
I keep getting the below error message. I cannot seem to figure out why this is happening. Earlier I ran a script, and it worked, so I don't think this has much to do with my profile. Any thoughts?

[winecoff@head AgEmoReg.02]$ qsub -v EXPERIMENT=AgEmoReg.02 PPI.sh 48044 1
qsub: Unknown option

qsub: Unknown option

petty
BIAC Staff

USA
453 Posts
Posted - May 01 2009 :  3:31:43 PM  Show Profile  Reply with Quote
looks like some things (qsub options) at the top of your script were cut off ...
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aawineco
Junior Member

USA
31 Posts
Posted - May 01 2009 :  3:58:12 PM  Show Profile  Reply with Quote
these are both in my script

SUBJ=$1
RUN=$2

Is that what you mean?
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petty
BIAC Staff

USA
453 Posts
Posted - May 01 2009 :  4:03:46 PM  Show Profile  Reply with Quote
no .. i mean things in the Global directive sections, etc ... any thing that looks commented out like (#$ -M) is actually feeding options to qsub.

try taking the sample script and putting you code back in there ... the sample has basic things that qsub is expecting.
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