[torqueusers] "cp command failed"

Zhiliang Hu zhu at iastate.edu
Wed Dec 12 21:57:59 MST 2007


Let me re-phrase this problem --

1- I can "qsub" to run a "hello" program,
2- I can run "mpiblast" with a script,
3- but when combine the two I encounter a weird problem:

> qsub -l nodes=6:ppn=2 mpiblast.sh
-- Where "mpiblast.sh" contains:
----------------
#!/bin/bash
/opt/openmpi.gcc/bin/mpirun /usr/local/bin/mpiblast -p blastn -i /home/zhu/tests/mpiblast/datain4 -d bta.genome.chr
----------------

Now it complains (in the torque output file xxxx.e96):

----------------------
cp command failed!
command: cp /raid/pub/ncbi/blast/mpidb/bta.genome.chr.007.nhr /scratch/tmp/bta.genome.chr.007.nhr
source = /raid/pub/ncbi/blast/mpidb/bta.genome.chr.007.nhr
dest = /scratch/tmp/bta.genome.chr.007.nhr
ret_value = 32512
----------------------

Any idea what could this be?

Thanks!
Zhiliang



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