diff --git a/conf/munin.config b/conf/munin.config index e31aa71..a24929e 100644 --- a/conf/munin.config +++ b/conf/munin.config @@ -10,11 +10,18 @@ process { executor = 'local' } -sngularity { +singularity { enabled = true autoMounts = true } +// To use docker instead of singularity, use nextflow run -profile munin,docker +docker { + enabled = false + mountFlags = 'z' + fixOwnership = true +} + params { saveReference = true diff --git a/docs/munin.md b/docs/munin.md index b03687d..bc617f7 100644 --- a/docs/munin.md +++ b/docs/munin.md @@ -4,6 +4,14 @@ All nf-core pipelines have been successfully configured for use on the MUNIN clu To use, run the pipeline with `-profile munin`. This will download and launch the [`munin.config`](../conf/munin.config) which has been pre-configured with a setup suitable for the MUNIN cluster. Using this profile, Nextflow will download singularity image with all of the required software before execution of the pipeline. +Example: `nextflow run -profile munin` + +## Docker + +It is also possible to execute pipeline using Docker. + +Example: `nextflow run -profile munin,docker` + ## Below are non-mandatory information on iGenomes specific configuration A local copy of the iGenomes resource has been made available on MUNIN cluster so you should be able to run the pipeline against any reference available in the `igenomes.config` specific to the nf-core pipeline.