- Install nextflow and Docker. Check with
nextflow run helloand
docker imagesto make sure both are functional.
- Download exemplar data. E.g.,
nextflow run labsyspharm/mcmicro/exemplar.nf --name exemplar-001 --path .to download to current directory.
- Run mcmicro on the exemplars. E.g.,
nextflow pull labsyspharm/mcmicrofollowed by
nextflow run labsyspharm/mcmicro --in exemplar-001to execute in current directory.
On an average workstation, it takes approximately 5-10 minutes to process exemplar-001 from start to finish. Exemplar-002 is substantially larger, and its processing takes 30-40 minutes on an average workstation.