The exit status=1 just means MPI is selected rather than FPI. Robert J. Bauer, Ph.D. Vice President, Pharmacometrics, R&D ICON Development Solutions 7740 Milestone Parkway Suite 150 Hanover, MD 21076 Tel: (215) 616-6428 Mob: (925) 286-0769 Email: robert.ba...@iconplc.com Web: www.iconplc.com<http://www.iconplc.com/>
________________________________ From: owner-nmus...@globomaxnm.com [mailto:owner-nmus...@globomaxnm.com] On Behalf Of Bill Knebel Sent: Friday, September 28, 2012 8:54 AM To: Elassaiss - Schaap, J (Jeroen) Cc: Nick Holford; nmusers Subject: Re: [NMusers] MPI on linux Exit status=1 Nick, There is also a run#.log file that shows the parallelization as it occurs. You can verify that the running is working as expected by looking at the file and seeing that parts of the data are being sent out to the nodes and back. We also use SGE with linux for parallel runs and have not had any major issues. Bill ~~~~~~~~~~~~~~~~~~~~~~~~ Bill Knebel, PharmD, PhD Principal Scientist II Metrum Research Group LLC 2 Tunxis Road, Suite 112 Tariffville, CT 06081 O: 860.735.7043<tel:860.735.7043> C: 860.930.1370<tel:860.930.1370> F: 860.760.6014<tel:860.760.6014> On Friday, September 28, 2012 at 7:41 AM, Elassaiss - Schaap, J (Jeroen) wrote: Hi Nick, We have a working nm7 parallel setup using MPI on linux over our SGE cluster. Based on your e-mail I found a match somewhere in the SGE stdout capture: CREATING MUMODEL ROUTINE... Recompiling certain components USING PARALLEL PROFILE mpihydra.pnm MPI TRANSFER TYPE SELECTED Exit status = 1 IN MPI Starting MPI version of nonmem execution ... And thereafter I had a decent parallel run. Does the system create subdirectories for each worker etc in your situation? You might also want to look for this kind of statement in nonmem's report: #PARA: PARAFILE=mpihydra.pnm, PROTOCOL=MPI, NODES= 16 Hope this helps, Jeroen J. Elassaiss-Schaap Senior Principal Scientist Phone: + 31 412 66 9320 MSD | PK, PD and Drug Metabolism | Clinical PK-PD Mail stop KR 4406 | PO Box 20, 5340 BH Oss, NL -----Original Message----- From: owner-nmus...@globomaxnm.com [mailto:owner-nmus...@globomaxnm.com] On Behalf Of Nick Holford Sent: Friday, September 28, 2012 10:25 To: nmusers Subject: [NMusers] MPI on linux Exit status=1 Hi, I'm trying to help our local grid computing guys to get NONMEM running with MPI on a Linux based grid. We have NONMEM running with a pnm file asking for 8 nodes but the actual run time is 10% longer than with a regular 'transfer' run. The only clue I can see to the problem is the "Exit status=1" after the "MPI TRANSFER TYPE SELECTED" message. The NONMEM runs appears to execute OK except for no evidence that MPI is operating. Can anybody tell me if this exit status is normal under Linux? If not what might it mean? Nick Recompiling certain components USING PARALLEL PROFILE wfn_mpi8.pnm MPI TRANSFER TYPE SELECTED Exit status = 1 IN MPI Starting MPI version of nonmem execution ... -- Nick Holford, Professor Clinical Pharmacology Dept Pharmacology & Clinical Pharmacology, Bldg 503 Room 302A University of Auckland,85 Park Rd,Private Bag 92019,Auckland,New Zealand tel:+64(9)923-6730 fax:+64(9)373-7090 mobile:+64(21)46 23 53 email: n.holf...@auckland.ac.nz<mailto:n.holf...@auckland.ac.nz> http://www.fmhs.auckland.ac.nz/sms/pharmacology/holford Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates Direct contact information for affiliates is available at http://www.merck.com/contact/contacts.html) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system. ICON plc made the following annotations. ------------------------------------------------------------------------------ This e-mail transmission may contain confidential or legally privileged information that is intended only for the individual or entity named in the e-mail address. If you are not the intended recipient, you are hereby notified that any disclosure, copying, distribution, or reliance upon the contents of this e-mail is strictly prohibited. If you have received this e-mail transmission in error, please reply to the sender, so that ICON plc can arrange for proper delivery, and then please delete the message. Thank You, ICON plc South County Business Park Leopardstown Dublin 18 Ireland Registered number: 145835
