#!/bin/bash -l
#
#$ -cwd
#$ -j y
#$ -P waxmanlab
#$ -m be
#$ -M varsha97@bu.edu
#$ -o slncky_chr1.qlog
#$ -N slncky_chr1
#$ -l mem_per_core=18G
#$ -pe omp 28
echo "=========================================================="
echo "Starting on       : $(date)"
echo "Running on node   : $(hostname)"
echo "Current job ID    : $JOB_ID"
echo "Current job name  : $JOB_NAME"
echo "Task index number : $TASK_ID"
echo "=========================================================="

module load python2/2.7.16

./slncky.v1.0 -c /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/slncky_19-8-19/annotations/annotations.config --bedtools /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/slncky_19-8-19/bedtoolsv2.17.0/bin --liftover /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/slncky_19-8-19 --lastz /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/slncky_19-8-19/lastz-distrib-1.04.00/bin --no_collapse /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/varsha/slncky_19-8-19/chr1.bed mm9 slncky_chr1
echo "Finished  .............. $(date)"