Support GATK .bai naming

OSU-SRLab / MANTIS

Microsatellite Analysis for Normal-Tumor InStability

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Support GATK .bai naming #33

Closed knightjimr closed 4 years ago

knightjimr commented 6 years ago

For a BAM file named "file.bam", the GATK pipeline typically generates an index file named "file.bai" (instead of "file.bam.bai"). Could the tool be updated to support that naming convention as well?

lozybean commented 4 years ago

plz check this PR to fix this issue: https://github.com/OSU-SRLab/MANTIS/pull/51