Hello guys!
I’m impressed! You guys really thought of everything! This is amazing! I’ll try it and give you some news asap. I’m so impressed that I used too many exclamation points in this email!!!
Cordialement / Regards, Edgar Fernandez
De : Eric Rasche [mailto:esr@tamu.edu] Envoyé : January-22-15 3:05 PM À : Fernandez Edgar Cc : galaxy-dev@bx.psu.edu Objet : Re: [galaxy-dev] show stopper for my galaxy installation
The tool to fetch data isn't being run on your submit node but instead on the cluster, which is the problem.
It's a fairly easy to solve problem:
* In your job_conf you'll need to define a way to run jobs locally (either via local runner, or via a special queue dedicated to your submit node) * Then you'll need to specify that the upload tool is forced to that job runner. Something like this (untested, probably invalid xml... )
<plugins workers="4"> <plugin id="local" type="runner" load="galaxy.jobs.runners.local:LocalJobRunner" /> <!-- your torque runner here --> </plugins> <destinations default="cluster"> <destination id="local" runner="local"> <!-- your cluster dest here --> </destinations> <tools>
<!-- we force the upload tool to the local job runner, thereby bypassing the issue of internet access on the cluster nodes --> <tool id="upload1" destination="local" /> </tools>
Cheers, Eric
2015-01-22 13:51 GMT-06:00 Fernandez Edgar <edgar.fernandez@umontreal.camailto:edgar.fernandez@umontreal.ca>: Hello gents,
I started this new thread because I have a showstopper for my installation of galaxy. Here’s my situation:
1. I have a galaxy server that has internet access.
2. My galaxy server is also my torque server and my only torque submit node.
3. I have three torque compute nodes that DOESN’T have internet access.
Now, I’ve tried uploading a file (larger than 2Gb) via and URL and it fails. However, I’ve added my galaxy server as a compute node and re-tried to upload the same file and I made sure the job will run on that machine and it works.
Now, my compute nodes are in a network that is completely protected from the outside world. So no internet access.
What are my option in this case?
Cordialement / Regards,
Edgar Fernandez System Administrator (Linux) Direction Générale des Technologies de l'Information et de la Communication • Bur. : 1-514-343-6111 poste 16568
Université de Montréal PAVILLON ROGER-GAUDRY, bureau X-218
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