Fix to remove condition where chrM was automatically changed to chrMT, and so was failing with GRCh38 chrM SNPs
Description
Please include a summary of the change and which issue is fixed. Please also include relevant motivation and context. List any dependencies that are required for this change.
Type of change
[X] Bug fix (non-breaking change which fixes an issue)
How Has This Been Tested?
Updated qbasepileup tests
Are WDL Updates Required?
No
Checklist:
[X] My code follows the style guidelines of this project
[X] I have performed a self-review of my own code
[X] I have commented my code, particularly in hard-to-understand areas
[X] I have made corresponding changes to the documentation
[X] My changes generate no new warnings
[X] I have added tests that prove my fix is effective or that my feature works
[X] New and existing unit tests pass locally with my changes
Fix to remove condition where chrM was automatically changed to chrMT, and so was failing with GRCh38 chrM SNPs
Description
Please include a summary of the change and which issue is fixed. Please also include relevant motivation and context. List any dependencies that are required for this change.
Type of change
How Has This Been Tested?
Updated qbasepileup tests
Are WDL Updates Required?
No
Checklist: