The frontline support team will be slow on the forum because we are occupied with the GATK Workshop on March 21st and 22nd 2019. We will be back and more available to answer questions on the forum on March 25th 2019.
Tagged Files for CombineVariants in Queue?
The 3.2 CombineVariants Queue extension does not seem to pass through the TaggedFile information. I assume the extension generator is not recognizing the particular input type used by CombineVariants…
this.V = List(new TaggedFile("file1.vcf","file1"), new TaggedFile("file2.vcf","file2"))
in a Scala class that extends CombineVariants will produce:
-V file1.vcf -V file2.vcf
without the tags.