Missing eggs for DRMMA?
Hi all, I'm working on a test setup using an SGE cluster. During start of run.sh up I see: galaxy.jobs ERROR 2012-02-01 15:03:14,164 Job runner is not loadable: galaxy.jobs.runners.drmma Traceback (most recent call last): File "/data/galaxy/galaxy-central/lib/galaxy/jobs/__init__.py", line 1187, in _load_plugin module = __import__( module_name ) ImportError: No module named drmma According to this wiki page, Galaxy provides the DRMMA egg: http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster However, Galaxy is not downloading a DRMAA egg, in fact there are none here: http://eggs.g2.bx.psu.edu/DRMAA_python/ Is this a documentation problem? Or a just missing egg? Should I scramble it myself locally? Thanks, Peter
On Feb 1, 2012, at 10:14 AM, Peter Cock wrote:
Hi all,
I'm working on a test setup using an SGE cluster. During start of run.sh up I see:
galaxy.jobs ERROR 2012-02-01 15:03:14,164 Job runner is not loadable: galaxy.jobs.runners.drmma Traceback (most recent call last): File "/data/galaxy/galaxy-central/lib/galaxy/jobs/__init__.py", line 1187, in _load_plugin module = __import__( module_name ) ImportError: No module named drmma
According to this wiki page, Galaxy provides the DRMMA egg: http://wiki.g2.bx.psu.edu/Admin/Config/Performance/Cluster
However, Galaxy is not downloading a DRMAA egg, in fact there are none here: http://eggs.g2.bx.psu.edu/DRMAA_python/
Is this a documentation problem? Or a just missing egg? Should I scramble it myself locally?
Hi Peter, I'm guessing it's a typo in your config. 'drmaa' vs. 'drmma'. --nate
Thanks,
Peter ___________________________________________________________ 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:
On Wed, Feb 1, 2012 at 3:28 PM, Nate Coraor <nate@bx.psu.edu> wrote:
Hi Peter,
I'm guessing it's a typo in your config. 'drmaa' vs. 'drmma'.
--nate
Indeed, $ sudo -u galaxy ./run.sh Some eggs are out of date, attempting to fetch... Fetched http://eggs.g2.bx.psu.edu/drmaa/drmaa-0.4b3-py2.6.egg Fetch successful. ... And I was confused by finding this folder but http://eggs.g2.bx.psu.edu/DRMAA_python/ not spotting this one later in the listing, http://eggs.g2.bx.psu.edu/drmaa/ That seems to do it, cheers! Peter
On Feb 1, 2012, at 10:33 AM, Peter Cock wrote:
On Wed, Feb 1, 2012 at 3:28 PM, Nate Coraor <nate@bx.psu.edu> wrote:
Hi Peter,
I'm guessing it's a typo in your config. 'drmaa' vs. 'drmma'.
--nate
Indeed,
$ sudo -u galaxy ./run.sh Some eggs are out of date, attempting to fetch... Fetched http://eggs.g2.bx.psu.edu/drmaa/drmaa-0.4b3-py2.6.egg Fetch successful. ...
And I was confused by finding this folder but http://eggs.g2.bx.psu.edu/DRMAA_python/ not spotting this one later in the listing, http://eggs.g2.bx.psu.edu/drmaa/
The former is the old SGE-only C-extension DRMAA egg, not used any more but we leave all the eggs up in case someone pulls an old version of Galaxy for some reason. --nate
That seems to do it, cheers!
Peter
participants (2)
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Nate Coraor -
Peter Cock