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update wording

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qlr900 2022-07-06 16:19:16 +02:00
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docs/ku_sund_dangpu.md
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@ -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