diff --git a/Adapting_new_script_for_computing_cluster.sh b/Adapting_new_script_for_computing_cluster.sh index 3f090c3..9ec79bb 100755 --- a/Adapting_new_script_for_computing_cluster.sh +++ b/Adapting_new_script_for_computing_cluster.sh @@ -1,6 +1,12 @@ #!/bin/bash # Performs alignment and filtering of CUT&Tag data +# FIXME: +# picard.jar should be available from some +# program directory. +# Downloaded from https://github.com/broadinstitute/picard/releases/tag/2.27.4 +PICARD=/project/RNAseq_Mdl_data/Konrad/August/picard.jar + # inputs fastq_dir=/project/RNAseq_Mdl_data/Konrad/August/fastq # Fastq directory