Hi Clinton, On Mon, Sep 7, 2015 at 2:23 AM, Clinton Chee <chee@altair.com> wrote:
Dear Galaxy devs / support,
I am trying to understand the following snippet from job_conf.xml (I want to use drmaa v1) ------------ <destination id="pbs_drmaa_orion" runner="drmaa" tags="merc"> <param id="destination">galaxy@merc</param> </destination> ------------
Based on someone's configuration above, I am trying to customize to my system.
I'm trying to understand where/how the parameters are associated? - tags?
Tags are identifiers used to map tools to destinations. You probably do not need to use them, but if you wanted to have a tool (or the default destination) send jobs to more than one destination (selected at random), tags are used for that. They can also be used for setting job concurrency limits.
- destination in param id? is this the queue? I also checked the DRMAA specification but cannot find any "destination" as a keyword.
I am not sure where this example came from but I don't believe it would work - the "destination" param works with the "pbs" runner, but the pbs runner only works with Torque, as far as I know. The drmaa runner expects params that conform to the DRMAA specification, the most common of which is `nativeSpecification`. If you wanted to set the destination for PBS Pro using the drmaa runner, the param would be: <param id="nativeSpecification">-q queue@server_name</param> - galaxy@merc? is merc pointing to the hostname, and galaxy the queue
name? (I know the instution's cluster is called "merc", but I don't know if the "merc" in the tag is for convenience or is being read as the hostname?
That format is a PBS destination identifier, so `galaxy` is the queue on the PBS server `merc`. Hope this helps, please let us know if this doesn't clear things up. --nate
I've looked through: https://wiki.galaxyproject.org/Admin/Config/Performance/ProductionServer https://wiki.galaxyproject.org/Admin/Config/Performance/Cluster https://wiki.galaxyproject.org/Admin/Config/Jobs - describes job_conf.xml
but cannot make sense, eg. for "tags" is says "Tags to which this destination belongs." Eg. "tags="longwalltime,bigcluster""
Do you have more detailed documention on configuration?
Thanks Clinton
-- ------------------------------ *PBS WorksTM named #1 software product!* HPCwire Reader’s Choice Awards 2014
* For more information on Altair’s award-winning HPC workload management suite, please visit pbsworks.com <http://pbsworks.com/> * ------------------------------ Clinton Chee (PhD) PBS Application Engineer Altair - Innovation Intelligence Mob: 61 (0)402 058 983 Email: chee@altair.com Skype: live:clinton.chee Twitter: @xtechnotes <https://twitter.com/xtechnotes>!function(d,s,id){var js,fjs=d.getElementsByTagName(s)[0],p=/^ http:/.test(d.location)?'http':'https';if(!d.getElementById(id)) {js=d.createElement(s);js.id=id;js.src=p+':// platform.twitter.com/widgets.js';fjs.parentNode.insertBefore <http://platform.twitter.com/widgets.js%27;fjs.parentNode.insertBefore>(js,fjs);}}(document, 'script', 'twitter-wjs'); PBSWorks: Facebook <https://www.facebook.com/pbsworks>| Google+ <https://plus.google.com/116621495421190215237>| Linkedin <http://www.linkedin.com/groups?gid=2112011> | Twitter <https://twitter.com/PBSWorks>| YouTube <http://www.youtube.com/thepbsworks> Australia Toll Free: 1800 174 396 Urgent / Emergency: pbs-support@india.altair.com
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/