expose --skipMarkDupes and --plotOnlyNonDuplicates in WDL #925
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This PR exposes
--skipMarkDupes
in the WDL taskplot_coverage
withintasks_reports.wdl
to address #924. It also exposes--plotOnlyNonDuplicates
forreports.py::plot_coverage
, which is only used when duplicate marking is not skipped. By default, duplicates are marked and rendered on the coverage plots created by theplot_coverage
task withintasks_reports.wdl
.