pangolin
Link to section 'Introduction' of 'pangolin' Introduction
Pangolin is a software package for assigning SARS-CoV-2 genome sequences to global lineages.
For more information, please check its website: https://biocontainers.pro/tools/pangolin and its home page on Github.
Link to section 'Versions' of 'pangolin' Versions
- 3.1.20
- 4.0.6
- 4.1.2
- 4.1.3
- 4.2
Link to section 'Commands' of 'pangolin' Commands
- pangolin
Link to section 'Module' of 'pangolin' Module
You can load the modules by:
module load biocontainers
module load pangolin
Link to section 'Example job' of 'pangolin' 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 Pangolin on our clusters:
#!/bin/bash
#SBATCH -A myallocation # Allocation name
#SBATCH -t 1:00:00
#SBATCH -N 1
#SBATCH -n 1
#SBATCH --job-name=pangolin
#SBATCH --mail-type=FAIL,BEGIN,END
#SBATCH --error=%x-%J-%u.err
#SBATCH --output=%x-%J-%u.out
module --force purge
ml biocontainers pangolin