Re: [OMPI users] problem using new OMPI1.4.1 vie SGE

have a version mismatch? > Connectivity failures can occur for a variety of reasons - this looks more > like you have some kind of network access issue. > > On Apr 26, 2010, at 9:39 AM, Matthew MacManes wrote: > > Hi Ralph, > > Thanks! Do you mean to pass '--enable-

Re: [OMPI users] problem using new OMPI1.4.1 vie SGE

ed OMPI 1.4.1 visible to all the > nodes? If not, then this won't work. > > If it is, then try configuring with --enable-mpirun-prefix-by-default, and > be sure you specify a prefix that points to your installation. > > > On Apr 26, 2010, at 9:08 AM, Matthew MacManes wrote

Re: [OMPI users] problem using new OMPI1.4.1 vie SGE

Hi Rangam, Thanks.. Just tried. Still the 'no route to host' issue.. Matt _____ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lacey Personal Web

[OMPI users] problem using new OMPI1.4.1 vie SGE

nnection to lifeline [[29053,0],0] lost TACC: Cleaning up after job: 1349843 TACC: Done. _________ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lacey Personal Website: http://macmanes.com/

[OMPI users] qsub/SGE and OpenMPI

s don't seem to have a great solution, and the authors of the program say its MPI-related... _____ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lac

Re: [OMPI users] mpi error?

perfect.. that is exactly what I wanted to know.. that is was an issue with the program- rather than an issue with openmpi.. Thanks, Jeff. Matt _ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab

Re: [OMPI users] mpi error?

run during cleanup) macmanes@macmanes:~/mrbayes$ _____ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lacey Personal Website: http://macmanes.com/ On Thu, Mar 11,

[OMPI users] mpi error?

_ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lacey Personal Website: http://macmanes.com/

Re: [OMPI users] Dual quad core Opteron hangs on Bcast.

of Delaware(302) 831-1880 (voice) > Newark, DE 19716 (302) 831-4511 (fax) > > ___ > users mailing list > us...@open-mpi.org > http://www.open-mpi.org/mailman/listinfo.cgi/users _ Matthew MacManes PhD Candidate Uni

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa)

://www.bcgsc.ca/platform/bioinfo/software/abyss Matt On Dec 15, 2009, at 11:55 AM, Eugene Loh wrote: > Matthew MacManes wrote: > >> On my system, mpirun -np 8 -mca btl_sm_num_fifos 7 is much slower (and >> appeared to hang after several thousand interations) than -mca btl ^sm &g

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa)

umber of > fifos used by the SM and avoid the hang that way. Unless you are really > strapped for memory I think that would be the best way to go. > > --td > > _______ > users mailing list > us...@open-mpi.org > http://www.o

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa)

;f" then "j" on "top" will add >>a column (labeled "P") that shows in which core each process is running. >>This will let you observe how the Linux scheduler is distributing >>the MPI load across the cores. >>Hopefully it is l

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa) RESOLVED FOR NOW

fferent > cores. > > *** > > It is very disconcerting when MPI processes hang. > You are not alone. > The reasons are not always obvious. > At least in your case there is no network involved or to troubleshoot. > > > ** > > I hope it helps, > > Gus

[OMPI users] OMPI 1.4: connectivity_c fails, ring_c and hello_c work

http://picasaweb.google.com/macmanes/DropBox?authkey=Gv1sRgCLKokNOVqo7BYw#5413382182027669394 Under what circumstances should this happen? I am using Ubuntu 9.10, kernel 2.6.31-16, Nehelem processors. Hyperthreading is enabled. Thanks! _ Matthew MacManes PhD Candidate Univers

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa)

way. > Problems may appear as you stress the system with more cores, etc. > But this is just a guess. > > ** > > I hope this helps, > > Gus Correa > - > Gustavo Correa > Lamont-Doherty Earth Observatory - Columbia University &

Re: [OMPI users] mpirun only works when -np <4

et valgrind to work... Thanks, Matt On Dec 9, 2009, at 2:37 AM, Ashley Pittman wrote: > On Tue, 2009-12-08 at 08:30 -0800, Matthew MacManes wrote: >> There are 8 physical cores, or 16 with hyperthreading enabled. > > That should be meaty enough. > >> 1st of all,

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa)

and to run /usr/local/bin/mpirun -np X ... This should uname -a gives me: Linux macmanes 2.6.31-16-generic #52-Ubuntu SMP Thu Dec 3 22:07:16 UTC 2006 x86_64 GNU/Linux Matt On Dec 8, 2009, at 8:50 PM, Gus Correa wrote: > Hi Matthew > > Please see comments/answers inline below. >

Re: [OMPI users] mpirun only works when -np <4 (Gus Correa)

Hi Gus, Thanks for your ideas.. I have a few questions, and will try to answer yours in hopes of solving this!! Should I worry about setting things like --num-cores --bind-to-cores? This, I think, gets at your questions about processor affinity.. Am I right? I could not exactly figure out th

[OMPI users] mpirun only works when -np <4

. Thanks. Matt _________ Matthew MacManes PhD Candidate University of California- Berkeley Museum of Vertebrate Zoology Phone: 510-495-5833 Lab Website: http://ib.berkeley.edu/labs/lacey Personal Website: http://macmanes.com/