[GE users] errors and usage

Robert Fenwick robert.fenwick at irbbarcelona.org
Wed Nov 26 16:31:49 GMT 2008


Hi,

I am new to the list and have been trying for a day to set things up,
however I can not manage to get my head around the grid engine and how
it works. I havemanaged to compile my code on what I think is the head
node and now I want to run my job. The errors that I am getting are:

xecluster tests/sys32rep_0.01> more error
error: 1: can't open environment file: No such file or directory

[n025:28765] ERROR: A daemon on node n025 failed to start as expected.
[n025:28765] ERROR: There may be more information available from
[n025:28765] ERROR: the 'qstat -t' command on the Grid Engine tasks.
[n025:28765] ERROR: If the problem persists, please restart the
[n025:28765] ERROR: Grid Engine PE job
[n025:28765] ERROR: The daemon exited unexpectedly with status 1.
can't open environment file: No such file or directory
[n025:28765] ERROR: A daemon on node n028 failed to start as expected.
[n025:28765] ERROR: There may be more information available from
[n025:28765] ERROR: the 'qstat -t' command on the Grid Engine tasks.
[n025:28765] ERROR: If the problem persists, please restart the
[n025:28765] ERROR: Grid Engine PE job
[n025:28765] ERROR: The daemon exited unexpectedly with status 1.

and:

-catch_rsh /opt/sge/XEC/spool/n025/active_jobs/25176.1/pe_hostfile
n025
n025
n025
n025
n025
n025
n025
n025
n028
n028
n028
n028
n028
n028
n028
n028
Warning: no access to tty (Bad file descriptor).
Thus no job control in this shell.
[1] 28765

My input script looks like:

#!/bin/csh
#$ -N sys32rep_test
#$ -pe mpi 16
#$ -q lmb.q
#$ -cwd
#$ -i my.stdin
#$ -o test.out
#$ -e error

mpirun -np 32 ./charmm &


Any help or suggestions for further places to look would be most welcome.

Thank you in advance,


Bryn

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