Thanks Eugene - killall works fine where I can login to the nodes running the computations, but with the pbs case, I can't do that interactively. Submitting another batch job with killall in it also won't work, because the nodes report to the queue scheduler that they're busy and the scheduler won't put the killall batch job on those nodes/cpus.
----------------------------- David A. Horita, Ph.D. Department of Biochemistry Wake Forest University School of Medicine Winston-Salem, NC 27157-1016 Tel: 336 713-4194 Fax: 336 716-7671 email: dhorita at wfubmc.edu web: http://www1.wfubmc.edu/biochem/faculty/Horita.htm -----Original Message----- From: DeRose, Eugene (NIH/NIEHS) [C] [mailto:[email protected]] Sent: Tuesday, January 25, 2011 3:00 PM To: David A. Horita Subject: Re: [Xplor-nih] stopping python pbs jobs Hi David killall xplor works on our 8 node machine, but I am using the -smp option since all the nodes are on a single machine. Hope everything is going well with you. Eugene Eugene DeRose, Ph.D. NIEHS NMR Laboratory Manager Contractor to NIEHS/DIR National Institute of Environmental Health Sciences Research Triangle Park, NC 27709 919.541.1981 voice derose at niehs.nih.gov On 1/25/11 2:37 PM, "David A. Horita" <dhorita at wfubmc.edu> wrote: Hi, I'm running the dock.py script using Torque PBS and xplor -parallel -machines machinefile -py dock.py All runs fine, but I can't figure out how to kill the job - qdel will kill the controlling process, but the various calculation jobs keep running and don't report to xpbsmon and are invisible in qstat. This hasn't been an issue with the non-python scripts, but is there a way to enforce job ending? Thanks, David ----------------------------- David A. Horita, Ph.D. Department of Biochemistry Wake Forest University School of Medicine Winston-Salem, NC 27157-1016 Tel: 336 713-4194 Fax: 336 716-7671 email: dhorita at wfubmc.edu web: http://www1.wfubmc.edu/biochem/faculty/Horita.htm <http://www1.wfubmc.edu/biochem/faculty/Horita.htm/><http://www1.wfubmc.edu/biochem/faculty/Horita.htm/>
