millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-11-22 08:29:54 +00:00
Code Issues Releases Packages Activity
nf-configs/docs/nuig.md
Barry digby 24a4119e43 memory test
2021-04-29 14:24:57 +01:00

1.4 KiB
Raw Blame History

nf-core/configs: National University of Ireland, Galway (Lugh) Configuration

All nf-core pipelines have been successfully configured for use on Lugh at the National University of Ireland, Galway.

To use, run the pipeline with -profile nuig. This will download and launch the nuig.config which has been pre-configured with a setup suitable for Lugh. Using this profile, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline.

Running nextflow on Lugh

Before running a pipeline you will need a working version of nextflow. Please follow the install instructions below:

  • Install Nextflow : here
  • Install Nextflow edge: download the latest source code from Nextflow GitHub releases. Unpack source code, compile using make, add nextflow to your $PATH when complete.

One quirk of Lugh that will produce errors unless addressed: Lugh is not configured to take memory parameters in pipelines. This means you will have to make a fork of the pipeline, comment out (//) all instances of memory in config files (nextflow.config, base.config, test.config ) AND do away with any instances of toGiga() in the pipeline.