millironx/nf-configs
1
0
Fork 0
mirror of https://github.com/MillironX/nf-configs.git synced 2024-11-21 16:16:04 +00:00
Code Issues Releases Packages Activity

update wording

Browse source
This commit is contained in:
qlr900 2022-07-06 16:19:16 +02:00
parent d2b6b07de8
commit d19d6c0ae0
1 changed files with 2 additions and 2 deletions
Show stats Download patch file Download diff file Expand all files Collapse all files

4
docs/ku_sund_dangpu.md
View file

@ -21,13 +21,13 @@ export NXF_TEMP=/scratch/tmp
export NXF_SINGULARITY_CACHEDIR=/projects/dan1/people/${USER}/cache/singularity-images export NXF_SINGULARITY_CACHEDIR=/projects/dan1/people/${USER}/cache/singularity-images
``` ```
create nextflow directories if they dont exist: Create the user-specific nextflow directories if they don't exist yet:
``` ```
mkdir $NXF_SINGULARITY_CACHEDIR mkdir $NXF_SINGULARITY_CACHEDIR
mkdir $NXF_HOME mkdir $NXF_HOME
``` ```
Finally, download and test the pipeline of choice using the `-profile ku_sund_dangpu`. Note that normally you would run resource-intensive commands with slurm, but in case of nf-core pipelines you do not have to do this: we have pre-configured slurm as resource manager within the `ku_sund_dangpu profile`. Just make sure that the pipeline is run within a tmux session. Finally, download and test the pipeline of choice using the `-profile ku_sund_dangpu`. Note that normally you would run resource-intensive commands with slurm, but in case of nf-core pipelines you do not have to do this: we have pre-configured slurm to be the resource manager within the `ku_sund_dangpu profile`. Just make sure that the pipeline is run within a tmux session.
``` ```
nextflow run nf-core/rnaseq -profile test,ku_sund_dangpu nextflow run nf-core/rnaseq -profile test,ku_sund_dangpu