diff --git a/.dockstore.yml b/.dockstore.yml new file mode 100644 index 0000000..6ace04a --- /dev/null +++ b/.dockstore.yml @@ -0,0 +1,7 @@ +version: 1.2 +workflows: + - name: gatk4-rnaseq-germline-snps-indels + subclass: WDL + primaryDescriptorPath: /gatk4-rna-best-practices.wdl + testParameterFiles: + - /gatk4-rna-germline-variant-calling.inputs.json diff --git a/gatk4-rna-best-practices.wdl b/gatk4-rna-best-practices.wdl index 2027b05..68fd994 100644 --- a/gatk4-rna-best-practices.wdl +++ b/gatk4-rna-best-practices.wdl @@ -256,7 +256,7 @@ task gtfToCallingIntervals { command <<< - set -e + set -e Rscript --no-save -<<'RCODE' gtf = read.table("${gtf}", sep="\t")