Adding combineGVFs

ccebb5b5 · Peter van 't Hof · b7e531ee · ccebb5b5
Commit ccebb5b5 authored 7 years ago by Peter van 't Hof
--- a/gatk.wdl
+++ b/gatk.wdl
@@ -162,7 +162,7 @@ task CombineGVCFs {

    if [ ${length(gvcf_files)} -gt 1 ]; then
        java ${"-Dsamjdk.compression_level=" + compression_level} -Xmx4G -jar ${gatk_jar} \
-         GenotypeGVCFs \
+         CombineGVCFs \
         -R ${ref_fasta} \
         -O ${output_basename + ".vcf.gz"} \
         -V ${sep=' -V ' gvcf_files} \