millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-12-31 11:42:12 -05:00
Code Issues Releases Packages Activity

Revert "changes to cbe module loading"

Browse source 
This reverts commit 7c1c4c7fa4.
This commit is contained in:
phue 2022-02-04 10:13:12 +01:00
parent 7c1c4c7fa4
commit b5ab4a8258
2 changed files with 3 additions and 3 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

4
conf/cbe.config
View file

@ -9,11 +9,11 @@ process {
executor = 'slurm'
queue = { task.memory <= 170.GB ? 'c' : 'm' }
clusterOptions = { task.time <= 8.h ? '--qos short': task.time <= 48.h ? '--qos medium' : '--qos long' }
module = ['build-env/.f2021', 'build-env/f2021', 'anaconda3/2021.11']
module = 'anaconda3/2019.10'
}
singularity {
// enabled = true
enabled = true
cacheDir = '/resources/containers'
}

2
docs/cbe.md
View file

@ -2,7 +2,7 @@
All nf-core pipelines have been successfully configured for use on the CLIP BATCH ENVIRONMENT (CBE) cluster at the Vienna BioCenter (VBC).
To use, run the pipeline with `-profile cbe`. This will download and launch the [`cbe.config`](../conf/cbe.config) which has been pre-configured with a setup suitable for the CBE cluster. This profile sets needed slurm environment. Additionally you need to add `sigularity`, `docker` or `conda` to the profile to be able to run the pipeline. If `-profile cbe,singularity` is given, a docker image containing all of the required software will be downloaded, and converted to a Singularity image before execution of the pipeline.
To use, run the pipeline with `-profile cbe`. This will download and launch the [`cbe.config`](../conf/cbe.config) which has been pre-configured with a setup suitable for the CBE cluster. 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.
Before running the pipeline you will need to load Nextflow using the environment module system on CBE. You can do this by issuing the commands below: