Dear Dave,

This was very useful. Thank you so much. Specifically, I am trying to integrate Galaxy with Condor, which supports DRMAA. Is there an existing Condor job runner implementation, or any useful code for submitting Galaxy jobs to Condor?

Thanks!
Oren

On 9/20/2011 12:21 PM, Dave Clements wrote:

Hi Oren,

This book chapter http://userwww.service.emory.edu/~eafgan/content/Galaxy_eScienceGateway.pdf, includes a high-level overview of Galaxy. (Note: that chapter will be copied to the wiki soon.)

There is some API documentation.
~/scripts/api/README,
~/scripts/api/workflow_
execute.py and
~/scripts/api/example_watch_folder.py in the distribution
http://wiki.g2.bx.psu.edu/News%20Briefs/2010_07_16#Initial_implementation_of_the_Galaxy_Web_API
http://wiki.g2.bx.psu.edu/News%20Briefs/2011_08_30#API
http://wiki.g2.bx.psu.edu/Events/GCC2011 (Galaxy Deployment and API presentation)
http://wiki.g2.bx.psu.edu/Admin/Sample%20Tracking/Next%20Gen
http://wiki.g2.bx.psu.edu/Events/GCC2011/Workflows%20and%20API

Sometime in the next week I'll compile all this into a single wiki page.

As far as I know there is no "How to write a runner for Galaxy" document. The closest we have is
http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster and
http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Web%20Application%20Scaling

Hope this helps,

Dave C.

On Mon, Sep 19, 2011 at 9:51 AM, Oren Livne <livne@uchicago.edu> wrote:

Dear All,

I am a software developer, new to Galaxy. Is there a detailed document about the Galaxy code architecture, API, what runners are, and how to write a runner?

I am especially interested in integrating Galaxy with an external scheduler software (I am aware of Galaxy's scheduling capabilities). I'd like to intercept Galaxy workflows and send their object model to my scheduler. I could not find this information on the Galaxy Wiki.

Thank you so much in advance,
Oren Livne
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