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Martin Proks 2019-01-11 15:28:10 +01:00
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commit 7acd9cf7df
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9
conf/munin.config
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@ -10,11 +10,18 @@ process {
executor = 'local' executor = 'local'
} }
sngularity { singularity {
enabled = true enabled = true
autoMounts = true autoMounts = true
} }
// To use docker instead of singularity, use nextflow run -profile munin,docker
docker {
enabled = false
mountFlags = 'z'
fixOwnership = true
}
params { params {
saveReference = true saveReference = true

8
docs/munin.md
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@ -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. 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 ## 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. 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.