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Subject: Re: [OMPI users] sge tight intregration leads to bad allocation
From: Eloi Gaudry (eloi.gaudry_at_[hidden])
Date: 2012-04-03 10:05:33


Hi Tom, I'm using orterun to launch the computation. Basically, I use the qsub from Sge to submit a run to our cluster. The booked resources will be read and used by orterun whe the job will be launched ( using tight-integration). I might be wrong, but this would mean that the issue observed is somehow different than the one you mentioned here. Regards, Eloi From: users-bounces_at_[hidden] [mailto:users-bounces_at_[hidden]] On Behalf Of Tom Bryan Sent: mardi 3 avril 2012 15:49 To: Open MPI Users Subject: Re: [OMPI users] sge tight intregration leads to bad allocation How are you launching the application? I had an app that did an Spawn_multiple with tight SGE integration, and there was a difference in behavior depending on whether or not an app was launched via mpiexec. I'm not sure whether it's the same issue as you're seeing, but Reuti describes the problem here: http://www.open-mpi.org/community/lists/users/2012/01/18348.php <http://www.open-mpi.org/community/lists/users/2012/01/18348.php> It will be resolved at some point, but I imagine that the fix will only go into new releases: http://www.open-mpi.org/community/lists/users/2012/02/18399.php <http://www.open-mpi.org/community/lists/users/2012/02/18399.php> In my case, the workaround was just to launch the app with mpiexec, and the allocation is handled correctly. ---Tom On 4/3/12 9:23 AM, "Eloi Gaudry" <eloi.gaudry_at_[hidden]> wrote: Hi, I've observed a strange behavior during rank allocation on a distributed run schedule and submitted using Sge (Son of Grid Egine 8.0.0d) and OpenMPI-1.4.4. Briefly, there is a one-slot difference between allocated rank/slot for Sge and OpenMPI. The issue here is that one node becomes oversubscribed at runtime. Here is the output of the allocation done for gridengine: ====================== ALLOCATED NODES ====================== Data for node: Name: barney Launch id: -1 Arch: ffc91200 State: 2 Num boards: 1 Num sockets/board: 2 Num cores/socket: 2 Daemon: [[22904,0],0] Daemon launched: True Num slots: 1 Slots in use: 0 Num slots allocated: 1 Max slots: 0 Username on node: NULL Num procs: 0 Next node_rank: 0 Data for node: Name: carl.fft Launch id: -1 Arch: 0 State: 2 Num boards: 1 Num sockets/board: 2 Num cores/socket: 2 Daemon: Not defined Daemon launched: False Num slots: 1 Slots in use: 0 Num slots allocated: 1 Max slots: 0 Username on node: NULL Num procs: 0 Next node_rank: 0 Data for node: Name: charlie.fft Launch id: -1 Arch: 0 State: 2 Num boards: 1 Num sockets/board: 2 Num cores/socket: 2 Daemon: Not defined Daemon launched: False Num slots: 2 Slots in use: 0 Num slots allocated: 2 Max slots: 0 Username on node: NULL Num procs: 0 Next node_rank: 0 And here is the allocation finally used: ================================================================= Map generated by mapping policy: 0200 Npernode: 0 Oversubscribe allowed: TRUE CPU Lists: FALSE Num new daemons: 2 New daemon starting vpid 1 Num nodes: 3 Data for node: Name: barney Launch id: -1 Arch: ffc91200 State: 2 Num boards: 1 Num sockets/board: 2 Num cores/socket: 2 Daemon: [[22904,0],0] Daemon launched: True Num slots: 1 Slots in use: 2 Num slots allocated: 1 Max slots: 0 Username on node: NULL Num procs: 2 Next node_rank: 2 Data for proc: [[22904,1],0] Pid: 0 Local rank: 0 Node rank: 0 State: 0 App_context: 0 Slot list: NULL Data for proc: [[22904,1],3] Pid: 0 Local rank: 1 Node rank: 1 State: 0 App_context: 0 Slot list: NULL Data for node: Name: carl.fft Launch id: -1 Arch: 0 State: 2 Num boards: 1 Num sockets/board: 2 Num cores/socket: 2 Daemon: [[22904,0],1] Daemon launched: False Num slots: 1 Slots in use: 1 Num slots allocated: 1 Max slots: 0 Username on node: NULL Num procs: 1 Next node_rank: 1 Data for proc: [[22904,1],1] Pid: 0 Local rank: 0 Node rank: 0 State: 0 App_context: 0 Slot list: NULL Data for node: Name: charlie.fft Launch id: -1 Arch: 0 State: 2 Num boards: 1 Num sockets/board: 2 Num cores/socket: 2 Daemon: [[22904,0],2] Daemon launched: False Num slots: 2 Slots in use: 1 Num slots allocated: 2 Max slots: 0 Username on node: NULL Num procs: 1 Next node_rank: 1 Data for proc: [[22904,1],2] Pid: 0 Local rank: 0 Node rank: 0 State: 0 App_context: 0 Slot list: NULL Has anyone already encounter the same behavior ? Is there a simple fix than not using the tight integration mode between Sge and OpenMPI ? Eloi -------------------------------- _______________________________________________ users mailing list users_at_[hidden] http://www.open-mpi.org/mailman/listinfo.cgi/users <http://www.open-mpi.org/mailman/listinfo.cgi/users>