#!/bin/bash -l

#SBATCH -A uppmax2025-2-293
#SBATCH -p core
#SBATCH -n 2
#SBATCH -c 10
#SBATCH -t 4-00:00:0
#SBATCH -J nf-core

module load bioinfo-tools
module load Nextflow/latest
# module load nf-core
# module load nf-core-pipelines

export NXF_HOME=$PWD
export SINGULARITY_CACHEDIR=${PWD}/SINGULARITY_CACHEDIR
export SINGULARITY_TMPDIR=${PWD}/SINGULARITY_TMPDIR
export NXF_SINGULARITY_CACHEDIR=${SINGULARITY_CACHEDIR}
mkdir -p SINGULARITY_CACHEDIR SINGULARITY_TMPDIR

# nextflow drop nf-core/rnaseq
nextflow run nf-core/rnaseq -r 3.18.0 -c scripts/params_DSM40517.config -profile uppmax --project uppmax2025-2-293