Installation

Required

• Nextflow >=23.10

Runtime options

Option 1: local runtime dependencies

Install Perl dependencies used by scripts/annotate.pl plus Python plotting dependencies.

Option 2: containerized task execution (recommended)

Use Docker or Singularity profiles so each Nextflow process runs in the pipeline container.

Build container image locally

docker build -t grmap:dev .

Then run with:

nextflow run . -profile docker