Re: [OMPI users] Help: Firewall problems

On Fri, Nov 6, 2009 at 7:15 PM, Jeff Squyres wrote: > On Nov 6, 2009, at 5:49 AM, Lee Amy wrote: > >> Thanks. And actually I don't know if I need to disable iptables to run >> MPI programs properly. Obviously from your words Open MPI will use >> random ports so how

Re: [OMPI users] Help: Firewall problems

On Fri, Nov 6, 2009 at 2:39 AM, Jeff Squyres wrote: > On Nov 5, 2009, at 11:28 AM, Lee Amy wrote: > >> I remembered MPI does not count on TCP/IP but why default iptables >> will prevent the MPI programs from running? After I stop iptables then >> programs run well. I us

[OMPI users] Help: Firewall problems

Hi, I remembered MPI does not count on TCP/IP but why default iptables will prevent the MPI programs from running? After I stop iptables then programs run well. I use Ethernet as connection. Could anyone tell me tips about fix this problem? Thank you very much. Amy

Re: [OMPI users] Help: Infiniband interface hang

On Wed, Sep 2, 2009 at 2:06 PM, Lee Amy wrote: >> >> Hi, >> >> I encountered a very very confused problem when running IMB via two >> nodes by using IB. >> >> OS: RHEL 5.2 >> OFED Version: 1.4.1 >> MPI: OpenMPI 1.3.2 (OFED owned) >> >&g

[OMPI users] Help: Infiniband interface hang

Hi, I encountered a very very confused problem when running IMB via two nodes by using IB. OS: RHEL 5.2 OFED Version: 1.4.1 MPI: OpenMPI 1.3.2 (OFED owned) I run IMB-MPI1 provided by OFED OpenMPI tests. The command line is mpirun -np 2 --mca btl openib,self --host node1,node2 IMB-MPI1 After th

[OMPI users] Help: OFED Version problem

Hi, I have two machines with RHEL 5.2, then I installed OFED 1.4.1 driver on the first machine, the second machine is using OFED 1.3.1 by RHEL owned. My question is if the different version of OFED drivers will affect performance? Thanks. Eric Lee

[OMPI users] Help: orted: command not found.

Hi, I run some programs by using OpenMPI 1.3.3 and when I execute the command I encountered such following error messages. sh: orted: command not found -- A daemon (pid 6797) died unexpectedly with status 127 while attempting

[OMPI users] Help: How to accomplish processors affinity

HI, I read some howtos at OpenMPI official site but i still have some problems here. I build a Kerrighed Clusters with 4 nodes so they look like a big SMP machine. every node has 1 processor with dingle core. 1) Dose MPI programs could be running on such kinds of machine? If yes, could anyone sh

Re: [OMPI users] Help: Processors Binding

On Mon, Aug 3, 2009 at 6:13 PM, Lenny Verkhovsky wrote: > Hi, > you can find a lot of useful information under FAQ section > http://www.open-mpi.org/faq/ > http://www.open-mpi.org/faq/?category=tuning#paffinity-defs > Lenny. > On Mon, Aug 3, 2009 at 11:55 AM, Lee Amy wrote: &g

[OMPI users] Help: Processors Binding

Hi, Dose OpenMPI has the processors binding like command "taskset"? For example, I started 16 MPI processes then I want to bind them with specific processor. How to do that? Thank you very much. Best Regards, Amy

Re: [OMPI users] Help: HPL Compiled Problem

On Wed, Jul 22, 2009 at 4:41 PM, Daniël Mantione wrote: > > > On Wed, 22 Jul 2009, Lee Amy wrote: > >> Thanks. I have use your Makefile to recompile. However, I still >> encounter some odd problem. >> >> I have attached the make output and Makefile. > >

Re: [OMPI users] Help: HPL Compiled Problem

On Wed, Jul 22, 2009 at 2:53 PM, Daniël Mantione wrote: > > > On Wed, 22 Jul 2009, Lee Amy wrote: > >> Dear sir, >> >> Thank you very much. I have compiled HPL successfully. But when I >> start up xhpl program I encountered such problem. >> >> mpiru

Re: [OMPI users] Help: HPL Compiled Problem

On Wed, Jul 22, 2009 at 2:20 PM, Daniël Mantione wrote: > > > On Wed, 22 Jul 2009, Lee Amy wrote: > >> Hi, >> >> I'm going to compile HPL by using OpenMPI-1.2.4. Here's my >> Make.Linux_ATHLON_CBLAS file. > > GotoBLAS needs to be called as Fortr

[OMPI users] Help: HPL Compiled Problem

Hi, I'm going to compile HPL by using OpenMPI-1.2.4. Here's my Make.Linux_ATHLON_CBLAS file. # ## # # -- # - shell --

Re: [OMPI users] Help: HPL Compile Problems

picc > LINKFLAGS    = $(CCFLAGS) > # > ARCHIVER     = ar > ARFLAGS      = r > RANLIB       = echo > > The mpicc wrapper will take care of including the correct libraries. > > Regards, > Dorian > > > Lee Amy wrote: >> >> Hello, >> >> I

[OMPI users] Help: HPL Compile Problems

Hello, I use OpenMPI 1.3.2 and HPL-2.0 to measure clusters performance. However I encountered a problem when I compile the HPL. I don't know how to fill up the MPlib variable item because the default value is $(MPdir)/lib/libmpich.a. Obviously I have to choose a file from OpenMPI to replace it.

[OMPI users] Help: MPIBLAST Crash

Hello, I use Open MPI 1.2.5 to compile MPIBLAST 1.5, it runs well. When I run job by this following command: mpirun -np 21 -mca pls_rsh_agent rsh mpiblast -p blastn -d test.fa -i /usr/local/aaa.fa -o output It shows these error messages: ADIOI_GEN_DELETE (line 22): **io No such file or director

Re: [OMPI users] Help: Program Terminated

might want to look into that to find out where the SIGTERM is > coming from. The Microtar maintainers might have some better ideas. > > > On May 30, 2008, at 9:17 AM, Andreas Schäfer wrote: > > > On 12:28 Fri 30 May , Lee Amy wrote: > >> 2008/5/29 Andreas Schäfer

Re: [OMPI users] Help: Program Terminated

2008/5/29 Andreas Schäfer : > Hi Amy, > > On 16:10 Thu 29 May , Lee Amy wrote: > > MicroTar parallel version was terminated after 463 minutes with following > > error messages: > > > > [gnode5:31982

[OMPI users] Help: Program Terminated

Hello, I use a bioinformatics software called MicroTar to do some work. But it seems that it dosen't finish well. MicroTar parallel version was terminated after 463 minutes with following error messages: [gnode5:31982] [ 0] /lib64/tls/libpthread.so