Should be plenty for us - does your program consume a lot?
On Oct 14, 2011, at 12:25 PM, Ashwani Kumar Mishra wrote: > Hi Ralph, > fs.file-max = 100000 > is this ok or less? > > Best Regards, > Ashwani > > > On Fri, Oct 14, 2011 at 11:45 PM, Ralph Castain <r...@open-mpi.org> wrote: > Can't offer much about the qsub job. On the first one, what is your limit on > the number of file descriptors? Could be your sys admin has it too low. > > > On Oct 14, 2011, at 12:07 PM, Ashwani Kumar Mishra wrote: > >> Hello, >> When i try to run the following command i receive the following error when i >> try to submit this job on the cluster having 40 nodes with each node having >> 8 processor & 8 GB RAM: >> >> Both the command work well, as long as i use only upto 88 processors in the >> cluster, but the moment i allocate more than 88 processors it gives me the >> below 2 errors: >> >> I tried to set the ulimit to unlimited & setting mca parameter >> opal_set_max_sys_limits to 1 but still the problem wont go. >> >> >> $ mpirun=/opt/psc/ompi/bin/mpirun abyss-pe np=100 name=cattle k=50 n=10 >> in=s_1_1_sequence.txt >> >> /opt/mpi/openmpi/1.3.3/intel/ >> bin/mpirun -np 100 ABYSS-P -k50 -q3 --coverage-hist=coverage.hist -s >> cattle-bubbles.fa -o cattle-1.fa s_1_1_sequence.txt >> [coe:19807] [[62863,0],0] ORTE_ERROR_LOG: The system limit on number of >> pipes a process can open was reached in file base/iof_base_setup.c at line >> 107 >> [coe.:19807] [[62863,0],0] ORTE_ERROR_LOG: The system limit on number of >> pipes a process can open was reached in file odls_default_module.c at line >> 203 >> [coe.:19807] [[62863,0],0] ORTE_ERROR_LOG: The system limit on number of >> network connections a process can open was reached in file oob_tcp.c at line >> 447 >> -------------------------------------------------------------------------- >> Error: system limit exceeded on number of network connections that can be >> open >> >> This can be resolved by setting the mca parameter opal_set_max_sys_limits to >> 1, >> increasing your limit descriptor setting (using limit or ulimit commands), >> or asking the system administrator to increase the system limit. >> -------------------------------------------------------------------------- >> make: *** [cattle-1.fa] Error 1 >> >> >> >> >> When i submit the same job through qsub, i receive the following error: >> $ qsub -cwd -pe orte 100 -o qsub.out -e qsub.err -b y -N abyss `which >> mpirun` /home/genome/abyss/bin/ABYSS-P -k 50 s_1_1_sequence.txt -o av >> >> >> [compute-0-19.local][[28273,1] >> ,125][btl_tcp_endpoint.c:636:mca_btl_tcp_endpoint_complete_connect] >> connect() to 173.16.255.231 failed: Connection refused (111) >> [compute-0-19.local][[28273,1],127][btl_tcp_endpoint.c:636:mca_btl_tcp_endpoint_complete_connect] >> connect() to 173.16.255.231 failed: Connection refused (111) >> [compute-0-23.local][[28273,1],135][btl_tcp_endpoint.c:636:mca_btl_tcp_endpoint_complete_connect] >> connect() to 173.16.255.228 failed: Connection refused (111) >> [compute-0-23.local][[28273,1],133][btl_tcp_endpoint.c:636:mca_btl_tcp_endpoint_complete_connect] >> connect() to 173.16.255.228 failed: Connection refused (111) >> [compute-0-4.local][[28273,1],113][btl_tcp_endpoint.c:636:mca_btl_tcp_endpoint_complete_connect] >> connect() to 173.16.255.231 failed: Connection refused (111) >> >> >> >> Best Regards, >> Ashwani >> >> >> >> _______________________________________________ >> users mailing list >> us...@open-mpi.org >> http://www.open-mpi.org/mailman/listinfo.cgi/users > > > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users > > _______________________________________________ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users
