PBS queue and scrpath directory in elk.in

[Roger]

Dear All,
Is there any way to assign variable scrpath to bash environment variable $TMPDIR? When I run a calculation using PBS qsub the temporary variable $TMPDIR with a random name is created on the scratch. My home directory has a limited size so I would like to place all large files such as EVALFV.OUT and EVALSV.OUT in this temporary directory.
Thank you
Roger

[mfechner]

Dear Roger,

could you just use bash script to generate elk.in ? Something like you submit this
-->

!# slurm .... %everything of the jobscript

temppath=echo $TMPDIR

cat >> elk.in << EOF

scrpath
$temppath

EOF

mpirun -n XXX elk

Please note that this shows only the essential stuff and further more it assumes that a proper elk.in exists with all input requiered for the computation.

best regards
Michael

[Lars Nordström]

I have a similar setup of slurm and for me the following setup works:

In elk.in
scrpath
'./scratch/'

and in the script-file
ln -sf $TMPDIR scratch

Good luck!
/Lars

[Roger]

Dear mfechner & Lars,

Many thanks for the prompt reply. Right now, it works :)

Best
Roger