diff --git a/example/input/runSnakefile.sh b/example/input/runSnakefile.sh index dc1f7baf1ffa7bddb9abfa967526dc9d8a3ee715..2c9566a90de4fadcc6dfcf52047e5cab0349e866 100755 --- a/example/input/runSnakefile.sh +++ b/example/input/runSnakefile.sh @@ -1,15 +1,5 @@ #!/bin/bash -# Cluster-specific settings, customized for the EMBL SLURM cluster. -# Important: !! Modifications here are only needed if NEITHER conda NOR Singularity is used (see below) !! -# !! Do not modify unless you know what you do!! -# !! Ignore the lines with comments below unless you have a different setup, ask Christian for advice - -# Unload all modules and load the necessary ones for the pipeline -# One exception might be R, which might have to be loaded depending on whether it is preloaded or not in the .profile or .bashrc -# module purge -# module load GCCcore ncurses BEDTools SAMtools R-bundle-Bioconductor/3.5-foss-2016b-R-3.4.0 Autoconf FastQC Trimmomatic snakemake MACS2 deepTools - ######################## # PATHS AND PARAMETERS # ######################## @@ -18,9 +8,7 @@ . "./params.sh" - - ######################## # RUN AUTOMATED SCRIPT # ######################## -. "/g/scb/zaugg/zaugg_shared/scripts/Christian/src/Snakemake/runSnakemakeWrapper.sh" +. "../src/wrapper/runSnakemakeWrapper.sh"