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broadinstitute / gatk

Official code repository for GATK versions 4 and up
https://software.broadinstitute.org/gatk
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Add default tool annotations to generated doc #5577

Open cmnbroad opened 5 years ago

cmnbroad commented 5 years ago

The generated online doc currently doesn't include the names of the default annotations or annotation groups used by various tools. The values are already propagated from the annotation plugin to the freemarker map by Barclay; it should be easy to update the freemarker template to display these similar to the way we display default read filters.

cmnbroad commented 5 years ago

@bhanugandham Interested in taking this one on ? Its mostly presentation changes. It may be slightly more complicated than the read-filter one since there are separate args for annotations and annotation groups.