On Fri, Nov 16, 2012 at 10:00 AM, Nate Coraor <nate@bx.psu.edu> wrote:
On Nov 16, 2012, at 9:14 AM, greg wrote:
Are you running the upload tool on a cluster?
--nate
Well I have Galaxy set up to send it's jobs to SGE/qsub but I haven't verified that it's doing that yet. I wanted to upload a file to test on first. Here are the changes I made to universe_wsgi.ini after copying the sample:
port = 8080 host = 0.0.0.0 database_connection = mysql://user:password@devel10-db/galaxy database_engine_option_pool_size = 10 database_engine_option_max_overflow = 15 database_engine_option_pool_recycle = 7200 database_engine_option_strategy = threadlocal file_path = /home/galaxy new_file_path = /scratch/galaxy job_working_directory = /home/galaxy/job_working_directory cluster_files_directory = /home/galaxy/pbs log_level = INFO log_events = True log_actions = True use_remote_user = True remote_user_maildomain = mydomain.org require_login = True allow_user_creation = True allow_user_deletion = False allow_user_impersonation = True allow_user_dataset_purge = True new_user_dataset_access_role_default_private = True job_manager = main job_handlers = main default_job_handlers = main track_jobs_in_database = True enable_job_recovery = True set_metadata_externally = True cleanup_job = always start_job_runners = drmaa environment_setup_file = /usr/local/galaxy/job_environment_setup_file default_cluster_job_runner = drmaa://-V/ cluster_job_queue_workers = 3 #biomart = local:/// #encode_db1 = local:/// #hbvar = local:/// #microbial_import1 = local:/// #ucsc_table_direct1 = local:/// #ucsc_table_direct_archaea1 = local:/// #ucsc_table_direct_test1 = local:/// #upload1 = local:///
-Greg