Auto-index BAM files - Githubissues

jonathonthill / MMAPPR2

Mutation Mapping Analysis Pipeline for Pooled RNA-Seq

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Auto-index BAM files #43

Closed kjohnsen closed 6 years ago

kjohnsen commented 6 years ago

This already works somewhat, but only at the time the param is created. If an already-created param references a BAM file without an index, for example, MMAPPR will crash.

kjohnsen commented 6 years ago

It would be annoying for the user to not know why the program crashes. We should at the very least output that the file(s) isn't/aren't indexed.