[galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread greg
I'm trying to install Galaxy on our SGE cluster (using the Unified method). I installed galaxy-dist, and now I'm on this section: drmaa egg The drmaa egg is provided by Galaxy, but you must tell it where your resource manager's DRMAA library is located, and this is done with the

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread Scott McManus
Have you installed SGE on the same machine? If so, then you should be able to do a locate libdrmaa.so, which should point to SGE's DRMAA library. For example, on a machine that I use, I see this: $ locate libdrmaa.so /usr/lib/libdrmaa.so /usr/lib/libdrmaa.so.1.0 $ ls /usr/lib/libdrmaa*

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread Scott McManus
I forgot to add my value of DRMAA_LIBRARY_PATH. Note that I just need DRMAA_LIBRARY_PATH to point to the library being used. So in the example below, I had this: echo $DRMAA_LIBRARY_PATH /usr/lib/libdrmaa.so -Scott - Original Message - Have you installed SGE on the same

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread greg
Thanks Scott. I did turn up: /sge/8.0.1p4/lib/lx-amd64/libdrmaa.so.1.0 I guess that would be it. For a followup question ,how do I make the DRMAA_LIBRARY_PATH variable permanent on the machine? -Greg On Mon, Nov 5, 2012 at 3:03 PM, Scott McManus scottmcma...@gatech.eduwrote: I forgot to

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread greg
And am I correct in the thinking that only the machine hosting the galaxy web interface and submitting jobs needs the export DRMAA_LIBRARY_PATH= variable? The normal nodes running jobs don't need this, right? Thanks, -Greg On Mon, Nov 5, 2012 at 3:12 PM, greg margeem...@gmail.com wrote:

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread Nate Coraor
On Nov 5, 2012, at 3:15 PM, greg wrote: And am I correct in the thinking that only the machine hosting the galaxy web interface and submitting jobs needs the export DRMAA_LIBRARY_PATH= variable? The normal nodes running jobs don't need this, right? Hi Greg, That's correct. If you're

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread greg
Well, I want it to ultimately run under Apache. Does it still make sense to go in an init script? thanks again, Greg On Mon, Nov 5, 2012 at 3:23 PM, Nate Coraor n...@bx.psu.edu wrote: On Nov 5, 2012, at 3:15 PM, greg wrote: And am I correct in the thinking that only the machine hosting the

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread Nate Coraor
On Nov 5, 2012, at 3:26 PM, greg wrote: Well, I want it to ultimately run under Apache. Does it still make sense to go in an init script? thanks again, Yes, even when running behind Apache, you'll need an init script (or similar method) to start the Galaxy server. --nate Greg On

Re: [galaxy-user] Cluster Install - Trouble finding drmaa egg

2012-11-05 Thread Nate Coraor
On Nov 5, 2012, at 3:40 PM, greg wrote: Ok, that makes sense. Would you mind sharing how you set up your init script? What goes in it, where you place it? There are some sample init scripts in the contrib/ directory of the distribution. You should be able to place the export near the