abacas
Link to section 'Introduction' of 'abacas' Introduction
Abacas is a tool for algorithm based automatic contiguation of assembled sequences.
For more information, please check its website: https://biocontainers.pro/tools/abacas and its home page: http://abacas.sourceforge.net.
Link to section 'Versions' of 'abacas' Versions
- 1.3.1
Link to section 'Commands' of 'abacas' Commands
- abacas.pl
- abacas.1.3.1.pl
Link to section 'Module' of 'abacas' Module
You can load the modules by:
module load biocontainers
module load abacas
Link to section 'Example job' of 'abacas' 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 Abacas on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=abacas
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers abacas
abacas.pl -r cmm.fasta -q Cm.contigs.fasta -p nucmer -o out_prefix