#!/bin/bash
#
#$ -cwd
#$ -j y
#$ -P waxmanlab
#$ -m be
#$ -M kkarri@bu.edu
#$ -N GSE77729_Pb_SRA_fastq_v1.3
#$ -pe omp 8
#$ -l mem_per_core=2G
#$ -l h_rt=72:00:00
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 "=========================================================="

source ~/.bashrc
module load sratoolkit/2.8.0

fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157436.sra
fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157437.sra
fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157438.sra
fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157439.sra
fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157440.sra
fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157441.sra
fastq-dump --split-3 --skip-technical /net/waxman-server/mnt/data/waxmanlabvm_home/kkarri/CAR_Project_Data/GSE77729_PB/SRR3157442.sra
 

echo "Finished  .............. $(date)"