#!/bin/bash -l
#$ -P mullenl
#$ -N blast_split
#$ -j y
#$ -o blast_split2.qlog
#$ -m eas
#$ -M imurator@bu.edu
#$ -l h_rt=10:00:00
#$ -l mem_per_core=8G
#$ -pe omp 6
echo "=========================================================="
echo "Starting on : $(date)"
echo "Running on node : $(hostname)"
echo "Current directory : $(pwd)"
echo "Current job ID : $JOB_ID"
echo "Current job name : $JOB_NAME"
echo "Task index number : $SGE_TASK_ID"
echo "=========================================================="
# load any modules you might use
# do some work
module load blast
module load perl
splitfasta.pl 'Limenitis_copy.fasta' 3
mkdir sub1
mv subset1* sub1
mkdir sid_sub2
mv subset2* sub2
mkdir sid_sub3
mv subset3* sub3
# splitting the first 1/3d into 120, launching blast :
cd sub1
#renaming the 1/3d chunk file
mv subset1_transcriptome.fasta s1_transcriptome.fasta
splitfasta.pl s1_transcriptome.fasta 120

rm -f /projectnb/mullenl/muratore/*.seq
rm -rf /projectnb/mullenl/muratore/sub1

Line 1: error: invalid preprocessing directive #!
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 1: error: invalid preprocessing directive #$
Line 11: error: expected '=', ',', ';', 'asm' or '__attribute__' before string constant
Line 2: error: invalid preprocessing directive #load
Line 2: error: invalid preprocessing directive #do
Line 14: warning: character constant too long for its type
Line 2: error: invalid preprocessing directive #splitting
Line 1: error: invalid preprocessing directive #renaming
Line 33: error: unterminated comment