Purdue University

Commands

• lastz
• lastz_32
• lastz_D

Module

You can load the modules by:

module load biocontainers
module load lastz

Example job

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 lastz on our clusters:

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

module --force purge
ml biocontainers lastz

lastz cmc_CFBP8216.fasta cmp_LPPA982.fasta \
     --notransition --step=20 --nogapped \
     --format=maf > cmc_vs_cmp.maf