Fork Sync: Update from parent repository #151
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* Setting temp-dir * Updating md5sum on sorted output vcf
* Adding error and prefixes * Passing tests * fix picard/markdupl * adding stub runs and stub tests * adorreplace groups stub naming check * pass tests --------- Co-authored-by: Joon-Klaps <joon.klaps@gmail.com>
* new module picard/scatterintervalsbyns * update annotsv to 3.3.6 * update installannotations * add prefix to bwa/index * add prefix to bwamem2/index * revert bwa output change
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