#!/bin/bash
#$ -q rg-el6
#$ -N CUFFLINKS_Apc
#$ -e /users/rg/fcamara/Research/geneid_training/P.cucumerina/data/set1/cufflinksApc.log
#$ -o /users/rg/fcamara/Research/geneid_training/P.cucumerina/data/set1/cufflinksApc.log
#$ -pe smp 16
#$ -l  virtual_free=96G
#$ -l h_rt=64:00:00

. /etc/profile

. ~fcamara/.bashrcant

export DIR=/users/rg/fcamara/Research/geneid_training/P.cucumerina/data/set1

cd $DIR/results_Apc_new

cufflinks -o $DIR/results_Apc_new/ -p 16  $DIR/results_Apc_new/Pcucumerina_mapping4cufflinks_mapped_only.sam














