Hi,
I am trying to get DRMAA runner working for my local galaxy cluster. However,
I am having hard time configuring it my system.
So far,
I have installed Torque 2.5.12 and it seems to work as expected.
I installed drmaa_1.0.17 and here is DRMAA_LIBRARY_PATH
galaxy_env)galaxy@GalaxyTest01[/home/galaxy/galaxy-dist]$ echo
$DRMAA_LIBRARY_PATH
/usr/local/lib/libdrmaa.so
My job.conf.xml
<?xml version="1.0"?>
<!-- A sample job config that explicitly configures job running the way it is
configured by default (if there is no explicit config). -->
<job_conf>
<plugins>
<plugin id="sge" type="runner"
load="galaxy.jobs.runners.drmaa:DRMAAJobRunner" workers="4"/>
</plugins>
<handlers default="handlers">
<handler id="main" tags="handlers"/>
</handlers>
<destinations default="sge_default">
<destination id="sge_default" runner="drmaa"/>
</destinations>
</job_conf>
This is the error I am getting when I start galaxy.
galaxy.jobs INFO 2014-04-21 15:37:30,730 Handler 'main' will load all
configured runner plugins
Traceback (most recent call last):
File "/home/galaxy/galaxy-dist/lib/galaxy/webapps/galaxy/buildapp.py", line
39, in app_factory
app = UniverseApplication( global_conf = global_conf, **kwargs )
File "/home/galaxy/galaxy-dist/lib/galaxy/app.py", line 130, in __init__
self.job_manager = manager.JobManager( self )
File "/home/galaxy/galaxy-dist/lib/galaxy/jobs/manager.py", line 31, in
__init__
self.job_handler = handler.JobHandler( app )
File "/home/galaxy/galaxy-dist/lib/galaxy/jobs/handler.py", line 30, in
__init__
self.dispatcher = DefaultJobDispatcher( app )
File "/home/galaxy/galaxy-dist/lib/galaxy/jobs/handler.py", line 568, in
__init__
self.job_runners = self.app.job_config.get_job_runner_plugins(
self.app.config.server_name )
File "/home/galaxy/galaxy-dist/lib/galaxy/jobs/__init__.py", line 489, in
get_job_runner_plugins
rval[id] = runner_class( self.app, runner[ 'workers' ], **runner.get(
'kwds', {} ) )
File "/home/galaxy/galaxy-dist/lib/galaxy/jobs/runners/drmaa.py", line 81, in
__init__
self.ds.initialize()
File "/home/galaxy/galaxy-dist/eggs/drmaa-0.6-py2.6.egg/drmaa/__init__.py",
line 274, in initialize
_w.init(contactString)
File "/home/galaxy/galaxy-dist/eggs/drmaa-0.6-py2.6.egg/drmaa/wrappers.py",
line 59, in init
return _lib.drmaa_init(contact, error_buffer, sizeof(error_buffer))
File "/home/galaxy/galaxy-dist/eggs/drmaa-0.6-py2.6.egg/drmaa/errors.py",
line 90, in error_check
raise _ERRORS[code-1]("code %s: %s" % (code, error_buffer.value))
DrmCommunicationException: code 2: (null)
Removing PID file paster.pid
I am not sure what is the issue here or how to go about resolving it. I will
really appreciate it if someone can tell me how to debug it?
Best regards
Hak
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