[Opaltoolkit-users] Opal DRMAA with Torque

[Peter S. <p.s...@uq...>]

Hi Opal Users,
 
I am  trying to get Opal working as part of the Meme Suite. I am trying
to use Opal to dispatch jobs to our cluster running Torque PBS using
DRMAA.
I believe that the Torque implementation of DRMAA differs from the SGE
implementation, especially concerning the return value of drmaa_wait().
With Torque this causes errors even with the Torque DRMAA build test
code (described in OGF DRMAA v 1.0 - PBS/Torque Experience).
I suspect that that the return value is preventing completion of the job
and am starting to look at hacking away at the Torque DRMAA source code.
One alternative that I see is to use Globus instead of DRMAA however
this would require an overhaul of the cluster infrastructure and strikes
me as a heavy handed approach. Another option would be to write a new
job interface using the Opal libs but ideally I would like to use the
native Opal DRMAA interface.
Does anyone have any experience getting Opal to dispatch jobs to PBS
Torque (We are using Maui as the scheduler) ?
Can anyone advise on how the DRMAA interface is implemented within Opal
(what parameters are passed to DRMAA and where they come from etc).
 
Regards,
 
Peter Scott
 
Peter Scott
Queensland Facility for Advanced Bioinformatics
Institute for Molecular Bioscience
Queensland Bioscience Precinct
University of Queensland
St Lucia QLD 4072