Commit 21fce7ae authored by Chouaref's avatar Chouaref
Browse files


parent 37c19175
#PBS -S /bin/bash
#PBS -lnodes=1:ppn=16
#PBS -lwalltime=0:45:00
# if the script does not finish in 8hrs, give more hours for calculations
# (up to 120:00:00 for 5 days)
#bowtie2 version 2.2.4
module load bowtie/2.2.4
#copy to scratch
cp "${HOME}"/genomes/S_lycopersicum_chromosomes.3.00.fa "${TMPDIR}"/
#build index from the reference genome
bowtie2-build S_lycopersicum_chromosomes.3.00.fa tomato_inx_3.00
# bowtie-build [reference fasta] [base name for index file]
mv "${TMPDIR}"/* "${HOME}"/genomes/
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