While looking at the SGE website today, I found the
following howto:
"Parallel Environment Integration for SGE with LAM"
http://gridengine.sunsource.net/project/gridengine/howto/lam/SGE_LAM_Integration.html
-Ron
--- Keith <kfd_at_[hidden]> wrote:
> We have a cluster of Intel Xeon processors running
> RedHat 9. We decided
> to install LAM/MPI 7.0, with icc 7.1 as our compiler
> and Sun Grid Engine
> 5.3p3 as a batch scheduler. We chose icc over g++
> based on a 50% speed
> up for our single processor code.
>
> In hopes of helping others who might find themselves
> in a similar
> situation, we thought we would post the required
> steps:
>
> Compiling and installing LAM/MPI with icc
> I. Downloaded source code from:
>
> http://www.lam-mpi.org/7.0/download.php
>
> II. Used a script (bash) and instructions for
> setting icc environment
> variables written by Michael Sabielny (from LAM
> General User's Mailing
> List):
>
>
http://216.239.33.104/search?q=cache:Q0xfiyXzFJkJ:www.thinkingnerds.com/
>
lam/MailArchives/lam/msg06110.php+making+lam+with+the+intel+sabielny
>
<http://216.239.33.104/search?q=cache:Q0xfiyXzFJkJ:www.thinkingnerds.com
>
/lam/MailArchives/lam/msg06110.php+making+lam+with+the+intel+sabielny&hl
> =en&ie=UTF-8> &hl=en&ie=UTF-8
>
> intel.sh
>
> #
> export INTELHOME=/opt/intel/compiler70
> export PATH=$INTELHOME/ia32/bin:$PATH
> export
> LD_LIBRARY_PATH=$INTELHOME/ia32/lib:$LD_LIBRARY_PATH
> export MANPATH=$INTELHOME/man:$MANPATH
> #
> Added source <path>/intel.sh to /etc/profile
>
> III. Building the code yielded a few errors, which
> were avoided by doing
> the following
>
> (1) Error 'compilation aborted for registry c'
>
> Added:
> #define __WORDSIZE 32
>
> At line 30 of the header file:
>
>
/opt/intel/compiler70/ia32/substitute_headers/bits/types.h
>
> (2) Error "__SWORD_TYPE undefined"
>
> Added:
> # define__SWORD_TYPE int
>
> At line 25 of the file
> /usr/include/bits/statfs.h
>
> IV. Exported environment variables for the
> installation
>
> export CC=icc
> export CXX=icc
> export CXXFLAGS=-i_dynamic
> export CXXLDFLAGS=-i_dynamic
>
> V. Ran the configuration file using
> ./configure -prefix=/opt/intel/compiler70/lam
>
> VI. Followed instruction available at
> http://www.lam-mpi.org
> <http://www.lam-mpi.org/> to finish installation
>
> Integration of LAM/MPI and Sun Grid Engine
> I. Sun Grid Engine uses csh, so .cshrc and .login
> were edited with
> appropriate paths for LAM executables
>
> II. Configured parallel environment for LAM/MPI
> based on example
> configuration file provided in SGE
> (<sgeroot>/mpi/mpich.template) with
> the following settings
>
> pe_name mpi
> queue_list all
> slots 32
> user_lists NONE
> xuser_lists NONE
> start_proc_args /opt/sge/mpi/startmpi.sh
> $pe_hostfile
> stop_proc_args /opt/sge/mpi/stopmpi.sh
> allocation_rule $fill_up
> control_slaves FALSE
> job_is_first_task TRUE
>
> III. Edited function for creating an LAM/MPI
> hostfile based on SGE
> hostfile in <sgeroot>/mpi/startmpi.sh
>
> PeHostfile2MachineFile()
> {
> cat $1 | while
> read line; do
> # echo $line
> host=`echo
> $line|cut -f1 -d" "|cut
> -f1 -d"."`
> nslots=`echo
> $line|cut -f2 -d" "
> slotpref="np="
> i=1
> # while [ $i -le $nslots ]; do
> # add here code
> to map regular
> hostnames into ATM hostnames
> echo "$host
> $slotpref$nslots"
> # i=`expr $i + 1`
> # done
> done
> }
>
> IV. Edited sample job submission script
> <sgeroot>/mpi/mpi_cpi.sh to the
> following
>
> #
> echo "Got $NSLOTS slots."
> /opt/intel/compiler70/lam/bin/mpiexec -machinefile
> $TMPDIR/machines -n
> $NSLOTS <FILE>
> #
>
> where <FILE> is an mpiCC compiled executable file
>
>
>
> > _______________________________________________
> This list is archived at
> http://www.lam-mpi.org/MailArchives/lam/
>
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