Unable to communicate with localhost((127.0.0.1)

, ,
1

Hi

I’m trying to get Galaxy to work with PBS. I’ve installed openpbs wit pbs/torque drmaa, configured the job_conf.xml like this:

<job_conf>
	<plugins workers="4">
                <plugin id="drmaa_default" type="runner" load="galaxy.jobs.runners.drmaa:DRMAAJobRunner"/>
		#<plugin id="pbs" type="runner" load="galaxy.jobs.runners.pbs:PBSJobRunner"/>
                <param id="drmaa_library_path">/usr/local/lib/libdrmaa.so.1</param>                 	
	</plugins>
        <destinations>
                <destination id="pbs_default" runner="drmaa_default"/>
        </destinations>
</job_conf>

and in systemctl I get this:

Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: galaxy.tours._impl INFO 2023-01-18 09:21:08,518 [pN:main.job-handlers.1,p:199275,w:0,m:1,tN:MainThread] Loaded tour 'core.history'
Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: galaxy.tours._impl INFO 2023-01-18 09:21:08,528 [pN:main.job-handlers.1,p:199275,w:0,m:1,tN:MainThread] Loaded tour 'core.scratchbook'
Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: galaxy.jobs.manager DEBUG 2023-01-18 09:21:08,532 [pN:main.job-handlers.1,p:199275,w:0,m:1,tN:MainThread] Initializing job handler
Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: galaxy.jobs INFO 2023-01-18 09:21:08,532 [pN:main.job-handlers.1,p:199275,w:0,m:1,tN:MainThread] Handler 'main.job-handlers.1' will load all configured r>
Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: galaxy.jobs.runners.state_handler_factory DEBUG 2023-01-18 09:21:08,534 [pN:main.job-handlers.1,p:199275,w:0,m:1,tN:MainThread] Loaded 'failure' state ha>
Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: pulsar.managers.util.drmaa DEBUG 2023-01-18 09:21:08,540 [pN:main.job-handlers.1,p:199275,w:0,m:1,tN:MainThread] Initializing DRMAA session from thread M>
Jan 18 09:21:08 front-d012e754-8b70-11ed-8061-0242ac110002.novalocal uwsgi[199275]: Unable to communicate with localhost(127.0.0.1)

What seems to be the problem? UI is working and running, but the jobs dont even start they just wait.

Thank you

2

Is that # sign on line 4 of your config a typo?

1 Like
3

Sorry it was a typo yes. Problem was resolved. We’ve had wrong libs installed(from Torque).
Solution was to reinstall pbs-drmaa from sourceforge after installing openpbs-devel.
Now everything works and jobs run on the node.