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Chouaref
Snakemake_ChIP_seq_pipeline
Commits
21fce7ae
Commit
21fce7ae
authored
Aug 04, 2020
by
Chouaref
Browse files
Delete bowtie2_build_index_tomato_lisa_180718.sh
parent
37c19175
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scripts/bowtie2_build_index_tomato_lisa_180718.sh
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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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