Are you asking if I can submit jobs to sge with the galaxy user on the server — yes, I can, at least I can on the command line... On Jan 22, 2014, at 3:00 AM, Thomas Bellembois <thomas.bellembois@ens-lyon.fr<mailto:thomas.bellembois@ens-lyon.fr>> wrote: Hello, Can you run a job with qsub from your Galaxy server with your Galaxy user ? Thomas -- Thomas Bellembois, network and system administrator ENS-Lyon/IGFL - 46, Allée d'Italie 69364 LYON CEDEX 07 FRANCE +33 4 26 73 13 67 .The IGFL is a member of the "portail-labos" project (https://portail-labos.ens-lyon.fr/site/<https://urldefense.proofpoint.com/v1/url?u=https://portail-labos.ens-lyon.fr/site/&k=eEbcMSXJ22m%2Bwpc%2B3zaDpA%3D%3D%0A&r=%2FSzwK1QdKBgYgI1%2BE8ugS5x1w%2F01U44BllswL1jgZTE%3D%0A&m=OVBvm1iGyH5TK3Bdxa4xpEWEoq3Rz3VQmUC%2FuDZemsQ%3D%0A&s=abdb53f74c8d32d1acef7a9c10af11da935baebac585dc803da3aff54b7b123a>). .IGFL IT documentation: http://itdoc.igfl.ens-lyon.fr/itdoc<https://urldefense.proofpoint.com/v1/url?u=http://itdoc.igfl.ens-lyon.fr/itdoc&k=eEbcMSXJ22m%2Bwpc%2B3zaDpA%3D%3D%0A&r=%2FSzwK1QdKBgYgI1%2BE8ugS5x1w%2F01U44BllswL1jgZTE%3D%0A&m=OVBvm1iGyH5TK3Bdxa4xpEWEoq3Rz3VQmUC%2FuDZemsQ%3D%0A&s=9978e8d2a1f01560f249e5439efff9f047338fa4fab2a1be17e5499555f224a9> On 21/01/2014 22:16, Cantarel, Brandi L. wrote: Hi all, I have been trying to set up my galaxy instance to use SGE -- I created a job_conf.xml using the sample as a model and updated the galaxy user bashrc with the DRMAA_LIBRARY_PATH export DRMAA_LIBRARY_PATH=/home/sge/lib/lx26-amd64/libdrmaa.so But when I try to add data to a library I get the error: Unable to run job due to a misconfiguration of the Galaxy job running system. Please contact a site administrator. Not too comforting since I am the administrator. The error in the log says: galaxy.jobs.handler DEBUG 2014-01-21 14:57:39,478 (2) Dispatching to drmaa runner galaxy.jobs.handler ERROR 2014-01-21 14:57:39,479 put(): (2) Invalid job runner: drmaa What does that mean, Invalid job runner? Does this mean I have an error in my job_conf.xml? Here is my job_conf.xml <?xml version="1.0"?> <job_conf> <plugins workers="4"> <!-- "workers" is the number of threads for the runner's work queue. The default from <plugins> is used if not defined for a <plugin>. --> <plugin id="sge" type="runner" load="galaxy.jobs.runners.drmaa:DRMAAJobRunner"/> </plugins> <handlers default="handlers"> <!-- Additional job handlers - the id should match the name of a [server:<id>] in universe_wsgi.ini. --> <handler id="main" tags="handlers"/> </handlers> <destinations default="sge_default"> <!-- Destinations define details about remote resources and how jobs should be executed on those remote resources. --> <destination id="sge_default" runner="drmaa"/> <!-- Define parameters that are native to the job runner plugin. --> </destinations> </job_conf> Thanks for your help! ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Brandi Cantarel, PhD Bioinformatics Research Scientist Baylor Institute for Immunology Research Baylor Health Care System 214-820-9064 (office) ________________________________ This e-mail may contain confidential and/or privileged information. 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