conda

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

Usage

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.

Specify the channel for a package using the standard Conda notation, for example, bioconda::bwa=0.7.15. Specify multiple packages by separating them with a space, for example, bwa=0.7.15 fastqc=0.11.5.

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