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Pullseq

Introduction

Pullseq is an utility program for extracting sequences from a fasta/fastq file.

For more information, please check:

Versions

  • 1.0.2

Commands

  • pcre-config
  • pcregrep
  • pcretest
  • pullseq
  • seqdiff

Module

You can load the modules by:

module load biocontainers
module load pullseq

Example job

Warning

Using #!/bin/sh -l as shebang in the slurm job script will cause the failure of some biocontainer modules. Please use #!/bin/bash instead.

To run pullseq on our clusters:

#!/bin/bash
#SBATCH -A myallocation     # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=pullseq
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out

module --force purge
ml biocontainers pullseq