conda

The conda directive defines the set of Conda packages required by each task. For example:

process hello {
    conda 'bwa=0.7.15'

    script:
    """
    your_command --here
    """
}

Nextflow automatically creates an environment for each unique set of Conda packages.

The name of the desired channel for a specific package can be specified using the standard Conda notation, e.g. bioconda::bwa=0.7.15. Multiple packages can be specified separating them with a blank space, e.g. bwa=0.7.15 fastqc=0.11.5.

The conda directive can also accept a Conda environment file path or the path of an existing Conda environment. See Conda for more information.