HyPhy message board - loadleveler

	Welcome, Guest. Please Login

Home

Help

HyPhy message board › HYPHY Package › HyPhy feedback › loadleveler

(Moderators: Sergei, Simon)

‹ Previous Topic | Next Topic ›

Pages: 1

Send Topic

loadleveler (Read 1624 times)

wayne

Global Moderator

Offline

I love YaBB 1G - SP1!

Posts: 57
San Diego, CA
Gender: male

loadleveler
Mar 5^th, 2008 at 8:29am

Hi Sergei, do you have an example loadleveler submission script that you use for mpi jobs? i'm asking since i seem to be running into troubles with ll that i didn't have with other schedulers. in particular, it seems like it treats the bash call to mpirun in the ll file and the HYPHYMPI exe as two separate processes. ll then crashes since more processes are initiated on a node than allowed by the class config. any help/suggestions would be much appreciated. cheers ./w

Assistant Project Scientist&&Antiviral Research Center&&Department of Pathology&&University of California, San Diego

WWW

IP Logged

Sergei

YaBB Administrator

Offline

Datamonkeys are forever...

Posts: 1658
UCSD
Gender: male

Re: loadleveler
Reply #1 - Mar 10^th, 2008 at 9:24am

Dear Wayne,

Here's an example script from running HyPhy on an AIX Blue-C cluster. I write all the run options into a text file and then redirect them into the instance of HyPhy.

Sergei

Code:

@ shell = /bin/ksh
#@ job_type = parallel
#@ job_name = 5State
#@ requirements = (Feature == "SMT")
#@ tasks_per_node = 32
#@ node = 1
#@ node_usage = not_shared
#@ network.MPI = csss,shared,IP
#@ wall_clock_limit = 96:00:00
#@ output = /hpc/home/sergei/Latest/HYPHY_Source/Pipelines/LL_GA_IN/OUT/WTBE_E_14.nex.out
#@ error  = /hpc/home/sergei/Latest/HYPHY_Source/Pipelines/LL_GA_IN/OUT/WTBE_E_14.nex.err
#@ queue
export MP_SHARED_MEMORY=yes
export LDR_CNTRL='MAXDATA=0x80000000'
poe /hpc/home/sergei/Latest/HYPHY_Source/HYPHYMPI BASEPATH=/hpc/home/sergei/Latest/HYPHY_Source/ USEPATH=/dev/null /hpc
/home/sergei/Latest/HYPHY_Source/TemplateBatchFiles/ModelSelectorCodon.bf < /hpc/home/sergei/Latest/HYPHY_Source/Pipelines/LL_GA_IN/WTBE_E_14.nex

Associate Professor
Division of Infectious Diseases
Division of Biomedical Informatics
School of Medicine
University of California San Diego

WWW

IP Logged

Pages: 1

Send Topic

‹ Previous Topic | Next Topic ›

« Home

‹ Board

Top of this page