* The software for generating the MSA is called `mafft`. It is installed via its singularity image which can be found here: `/shares/amr.imm.uzh/bioinfo/singularity/mafft_7.505--hec16e2b_0.sif`.
`mafft` is a very convenient software which recognises if you want to align DNA or Proteins automatically.
`mafft` is a very convenient software which can recognise if you want to align DNA or proteins automatically.
* The command for `mafft` is as follows:
```sh
mafft input.fasta > output.fasta
```
* The input fasta file is the multi-fasta file you generated in the previous exercise.
*`mafft` is a very convenient software which recognises if you want to align DNA or Proteins automatically.
* Submit the job.
* Watch the state of the job using `squeue`.
* Explore the outplut files `[jobname].out` and `[jobname].err`
