Hi all,
I enabled DRMAA on my test Galaxy server installation and in the
server startup output I get the following strange "E #14ca [
1.10] * wait thread: <1002:Not enough memory.>" lines after
loading the job manager:
...
galaxy.jobs.runners.local INFO 2011-05-18 17:10:23,025 starting
workers
galaxy.jobs.runners.local DEBUG 2011-05-18 17:10:23,026 5 workers
ready
galaxy.jobs <http://galaxy.jobs> DEBUG 2011-05-18 17:10:23,026
Loaded job runner: galaxy.jobs.runners.local:LocalJobRunner
galaxy.jobs.runners.drmaa DEBUG 2011-05-18 17:10:23,130 3 workers
ready
galaxy.jobs <http://galaxy.jobs> DEBUG 2011-05-18 17:10:23,130
Loaded job runner: galaxy.jobs.runners.drmaa:DRMAAJobRunner
galaxy.jobs <http://galaxy.jobs> INFO 2011-05-18 17:10:23,131 job
manager started
E #14ca [ 0.00] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.02] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.05] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.07] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.10] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.12] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.15] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.17] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.20] * wait thread: <1002:Not enough memory.>
galaxy.jobs <http://galaxy.jobs> INFO 2011-05-18 17:10:23,373 job
stopper started
E #14ca [ 0.22] * wait thread: <1002:Not enough memory.>
galaxy.sample_tracking.external_service_types DEBUG 2011-05-18
17:10:23,383 Loaded external_service_type: Simple unknown
sequencer 1.0.0
galaxy.sample_tracking.external_service_types DEBUG 2011-05-18
17:10:23,386 Loaded external_service_type: Applied Biosystems
SOLiD 1.0.0
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,400 Enabling
'admin' controller, class: AdminGalaxy
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,402 Enabling
'async' controller, class: ASync
E #14ca [ 0.25] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.27] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,428 Enabling
'dataset' controller, class: DatasetInterface
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,432 Enabling
'error' controller, class: Error
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,436 Enabling
'external_service' controller, class: ExternalService
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,437 Enabling
'external_services' controller, class: ExternalServiceController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,439 Enabling
'forms' controller, class: Forms
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,441 Enabling
'history' controller, class: HistoryController
E #14ca [ 0.30] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,460 Enabling
'library' controller, class: Library
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,461 Enabling
'library_admin' controller, class: LibraryAdmin
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,462 Enabling
'library_common' controller, class: LibraryCommon
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,475 Enabling
'mobile' controller, class: Mobile
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,478 Enabling
'page' controller, class: PageController
E #14ca [ 0.32] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,482 Enabling
'request_type' controller, class: RequestType
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,483 Enabling
'requests' controller, class: Requests
E #14ca [ 0.35] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,508 Enabling
'requests_admin' controller, class: RequestsAdmin
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,509 Enabling
'requests_common' controller, class: RequestsCommon
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,511 Enabling
'root' controller, class: RootController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,514 Enabling
'tag' controller, class: TagsController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,519 Enabling
'tool_runner' controller, class: ToolRunner
E #14ca [ 0.37] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.40] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,558 Enabling
'tracks' controller, class: TracksController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,562 Enabling
'ucsc_proxy' controller, class: UCSCProxy
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,564 Enabling
'user' controller, class: User
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,567 Enabling
'visualization' controller, class: VisualizationController
E #14ca [ 0.42] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.45] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.47] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.50] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.53] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.55] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.58] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,747 Enabling
'workflow' controller, class: WorkflowController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,755 Enabling
'contents' API controller, class: ContentsController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,757 Enabling
'forms' API controller, class: FormDefinitionAPIController
E #14ca [ 0.60] * wait thread: <1002:Not enough memory.>
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,762 Enabling
'libraries' API controller, class: LibrariesController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,767 Enabling
'request_types' API controller, class: RequestTypeAPIController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,768 Enabling
'requests' API controller, class: RequestsAPIController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,770 Enabling
'roles' API controller, class: RoleAPIController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,772 Enabling
'samples' API controller, class: SamplesAPIController
galaxy.web.framework.base DEBUG 2011-05-18 17:10:23,773 Enabling
'users' API controller, class: UserAPIController
E #14ca [ 0.63] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.65] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.67] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.70] * wait thread: <1002:Not enough memory.>
galaxy.web.buildapp DEBUG 2011-05-18 17:10:23,862 Enabling
'httpexceptions' middleware
galaxy.web.buildapp DEBUG 2011-05-18 17:10:23,869 Enabling
'remote user' middleware
galaxy.web.buildapp DEBUG 2011-05-18 17:10:23,871 Enabling
'recursive' middleware
E #14ca [ 0.72] * wait thread: <1002:Not enough memory.>
galaxy.web.buildapp DEBUG 2011-05-18 17:10:23,882 Enabling 'print
debug' middleware
E #14ca [ 0.74] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.77] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.79] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.82] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.85] * wait thread: <1002:Not enough memory.>
/gpfshpc/home/lhermida/soft/galaxy/galaxy_dist/eggs/WebError-0.8a-py2.6.egg/weberror/exceptions/serial_number_generator.py:11:
DeprecationWarning: the md5 module is deprecated; use hashlib instead
import md5
E #14ca [ 0.87] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.90] * wait thread: <1002:Not enough memory.>
galaxy.web.buildapp DEBUG 2011-05-18 17:10:24,058 Enabling 'eval
exceptions' middleware
galaxy.web.buildapp DEBUG 2011-05-18 17:10:24,062 Enabling 'trans
logger' middleware
galaxy.web.buildapp DEBUG 2011-05-18 17:10:24,062 Enabling
'config' middleware
galaxy.web.buildapp DEBUG 2011-05-18 17:10:24,064 Enabling
'x-forwarded-host' middleware
Starting server in PID 5229.
serving on http://10.155.10.23:8082
E #14ca [ 0.92] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.95] * wait thread: <1002:Not enough memory.>
E #14ca [ 0.97] * wait thread: <1002:Not enough memory.>
...
Do I need to increase some kind of running memory somewhere or is
it another problem?
thanks,
Leandro
___________________________________________________________
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:
http://lists.bx.psu.edu/