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Re^2: PBS not finding file.

by Jeri (Scribe)
on Sep 27, 2011 at 19:09 UTC ( #928149=note: print w/ replies, xml ) Need Help??


in reply to Re: PBS not finding file.
in thread PBS not finding file.

Your guess is correct! I had a hard time explaining that, yes, the argument should be passed from the qsub script, but it's not. I tried your code. It kills the script, as expected.


Comment on Re^2: PBS not finding file.
Re^3: PBS not finding file.
by Jeri (Scribe) on Sep 27, 2011 at 19:11 UTC
    Correction. The argument is not being passed from the qsub script, but should be.

      Let me use my crystal ball again... are you trying to run the "qsub script" from the first code sample and get it's output? If so, use backticks.

      my $PBS_ARRAYID = '123' ; my @output = `/usr/bin/perl /chongle/jeri/timecheck/MUSCLEHMM.pl $PBS_ +ARRAYID > /chongle/jeri/timecheck/output.$PBS_ARRAYID.txt 2> /chongle +/jeri/timecheck/error.$PBS_ARRAYID.txt` ;

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