Hi John,

This is fantastic, thanks for writing this.  I've committed the
Galaxy-side code in 5050:74048a9ab689, so the patch should no longer be
required.  I'll try to get something placed on the Cluster page in the
wiki, too.


John Chilton wrote:
> Hello,
>     We are looking at integrating some tools into Galaxy for a
> domain where many of the existing programs are Windows only. My
> desire is to write tool files and have the certain jobs run remotely
> on a Windows host (our Galaxy servers are Linux). It wasn't clear
> how to do this with the existing job runners since they all seem to
> require a shared file system and absolute file paths that are the
> same on the Galaxy server as they are on the remote execution hosts.
>     I developed a new job runner that allows for the remote
> execution of jobs that also rewrites paths and stages files as part
> of the job execution. There is a server application that needs to be
> running on the remote machine (*nix or Windows). This application is
> likely easier to setup/configure than SGE/PBS/etc... because it is a
> simple Python paste application, with just a few configuration
> options. There may be valid use cases for this approach for
> non-Windows applications as well - if you would like a lighter
> weight server component on the remote system, if shared file systems
> are impossible/impractical, etc....
>     The path rewrites are not going to cover every possible way an
> absolute path can sneak into the execution, so this is only useful
> for a subset of tools. But it does handle normal file inputs and
> outputs, config files, and scripts in the tool definition directory.
> I welcome input/advice on this approach or the implementation. If
> there is any way I can improve the code base to the point where it
> can be included in galaxy-central I would be more than happy to make
> the desired changes. If not, it is out there for people to use if
> they have a similar use case.
>     The server application as well as a patch to add the
> runner/client to a galaxy-central installation can be found at:
> https://bitbucket.org/jmchilton/lwr/src
> Thanks for your time,
> John
> ------------------------------------------------
> John Chilton
> Software Developer
> University of Minnesota Supercomputing Institute
> Office: 612-625-0917
> Cell: 612-226-9223
> E-Mail: chil...@msi.umn.edu
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