I found that there is a problem when pbs job terminate unexpectedly (job killed
manually / meet walltime),
but galaxy shows the job still working.
And there are some error messages from log file below.
galaxy.jobs.runners.pbs DEBUG 2013-09-10 18:15:57,841 (3811/762.localhost) PBS
job state changed from R to C
galaxy.jobs.runners.pbs ERROR 2013-09-10 18:15:57,841 (3811/762.localhost) PBS
job failed: Unknown error: -10
galaxy.jobs.runners ERROR 2013-09-10 18:15:57,841 (unknown) Unhandled exception
Traceback (most recent call last):
line 58, in run_next
line 560, in fail_job
AttributeError: 'AsynchronousJobState' object has no attribute 'stop_job'
It seems that galaxy had received job status from pbs, but pbs.py can't handle
Is there any solution to solve this problem?
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:
To search Galaxy mailing lists use the unified search at: