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Merge pull request #175 from drpatelh/master

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Remove loading of specific Singularity version
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Harshil Patel 2020-08-03 11:46:21 +01:00 committed by GitHub
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2 changed files with 1 additions and 2 deletions
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1
conf/crick.config
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@ -11,7 +11,6 @@ singularity {
} }
process { process {
beforeScript = 'module load Singularity/2.6.0-foss-2016b'
executor = 'slurm' executor = 'slurm'
} }

2
docs/crick.md
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@ -10,7 +10,7 @@ Before running the pipeline you will need to load Nextflow and Singularity using
## Load Nextflow and Singularity environment modules ## Load Nextflow and Singularity environment modules
module purge module purge
module load Nextflow/19.10.0 module load Nextflow/19.10.0
module load Singularity/2.6.0-foss-2016b module load Singularity
``` ```
A local copy of the [AWS-iGenomes](https://github.com/ewels/AWS-iGenomes) resource has been made available on CAMP so you should be able to run the pipeline against any reference available in the `igenomes.config` specific to the nf-core pipeline. You can do this by simply using the `--genome <GENOME_ID>` parameter. Some of the more exotic genomes may not have been downloaded onto CAMP so have a look in the `igenomes_base` path specified in [`crick.config`](../conf/crick.config), and if your genome of interest isnt present please contact [BABS](mailto:bioinformatics@crick.ac.uk). A local copy of the [AWS-iGenomes](https://github.com/ewels/AWS-iGenomes) resource has been made available on CAMP so you should be able to run the pipeline against any reference available in the `igenomes.config` specific to the nf-core pipeline. You can do this by simply using the `--genome <GENOME_ID>` parameter. Some of the more exotic genomes may not have been downloaded onto CAMP so have a look in the `igenomes_base` path specified in [`crick.config`](../conf/crick.config), and if your genome of interest isnt present please contact [BABS](mailto:bioinformatics@crick.ac.uk).