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36 lines
1.4 KiB
Markdown
36 lines
1.4 KiB
Markdown
# nf-core/configs: MUNIN Configuration
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All nf-core pipelines have been successfully configured for use on the MUNIN cluster.
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## Usage
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To use, run the pipeline with `-profile munin`.
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This will download and launch the [`munin.config`](../conf/munin.config) which has been pre-configured with a setup suitable for the MUNIN cluster.
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Example: `nextflow run -profile munin`
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### Singularity
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This is the default behavior of this configuration profile.
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Using this profile, if no singularity image are available, one will be downloaded from dockerhub, and converted to a Singularity image before execution of the pipeline.
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It is also possible to specify the singularity profile:
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Example: `nextflow run -profile munin,singularity`
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### Docker
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It is also possible to execute the pipeline using Docker.
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Using this profile, if no docker image are available, one will be downloaded from dockerhub before execution of the pipeline.
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Example: `nextflow run -profile munin,docker`
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## Below are non-mandatory information on iGenomes specific configuration
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A local copy of the iGenomes resource has been made available on the 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.
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You can do this by simply using the `--genome <GENOME_ID>` parameter.
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> NB: You will need an account to use the MUNIN cluster in order to run the pipeline. If in doubt contact @szilva.
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