raxml.Hybrid.pbs

#!/bin/sh
#PBS -N RAxML
#PBS -m bea
#PBS -M YOU@ufl.edu	
#PBS -o raxml.$PBS_JOBID.log
#PBS -e raxml.$PBS_JOBID.err
#PBS -l nodes=1:ppn=20
#PBS -l pmem=500mb
#PBS -l walltime=00:10:00
#
# This job's working directory
cd $PBS_O_WORKDIR

# Load the raxml environment
module load gcc/4.7.2 openmpi/1.6.5 raxml/8.1.12
 
# The raxml command, modify as needed. Read the manual or use raxmlHPC-MPI-SSE3 -help to see options
# Note the use of the variable $PBS_NUM_PPN defined by the scheduler based on your resource request
mpiexec -bynode -np 5 raxmlHPC-HYBRID-SSE3 -f d -m GTRCAT -s your_data.phy -n output_name -p $RANDOM -b $RANDOM -N 500 -T 4