Dear list, I am benchmarking my system on a GPU cluster with 6 GPU’s and two quad core CPUs for each node. First I am wondering if there is any output which confirms how many CPUs and GPUs were used during the run? I find the output for GPUs in the log file but only for a single node. When I use multiple nodes why don’t the other nodes show up in the log file as hosts? For instance in this example I used two nodes and claimed 4 GPUs each but got this in my log file:
6 GPUs detected on host ngpu-a4-01: #0: NVIDIA GeForce GTX 580, compute cap.: 2.0, ECC: no, stat: compatible #1: NVIDIA GeForce GTX 580, compute cap.: 2.0, ECC: no, stat: compatible #2: NVIDIA GeForce GTX 580, compute cap.: 2.0, ECC: no, stat: compatible #3: NVIDIA GeForce GTX 580, compute cap.: 2.0, ECC: no, stat: compatible #4: NVIDIA GeForce GTX 580, compute cap.: 2.0, ECC: no, stat: compatible #5: NVIDIA GeForce GTX 580, compute cap.: 2.0, ECC: no, stat: compatible 4 GPUs auto-selected for this run. Mapping of GPUs to the 4 PP ranks in this node: #0, #1, #2, #3 ngpu-a4-02 is not shown here. Any idea? The job was submitted in the following way: qsub -q @test -lnodes=2:ppn=4 -lwalltime=1:00:00 gromacs_run_gpu and the gromacs_run_gpu file: #!/bin/csh # #PBS -o result_run10ns96-8.dat #PBS -j oe #PBS -W umask=022 #PBS -r n cd 8_gpu module add CUDA module load gromacs/5.0.1-gpu mpirun gmx_mpi mdrun -v -x -deffnm 10ns_rep1-8GPU Another question I had was how can I define the number of CPUs and check if they were really used? I can’t find any information about the number of CPUs in the log file. I would also like to try combinations like 4 CPUs + 1 GPU or 2 CPUs + 2 GPU. How do I set this up? Thank you very much for your help, Max -- Gromacs Users mailing list * Please search the archive at http://www.gromacs.org/Support/Mailing_Lists/GMX-Users_List before posting! * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists * For (un)subscribe requests visit https://maillist.sys.kth.se/mailman/listinfo/gromacs.org_gmx-users or send a mail to gmx-users-requ...@gromacs.org.
