ATAC-seq pipeline exit if no mitochondrial reads are duplicated

[cschmidl]

ATAC-seq pipeline exit if no mitochondrial reads are duplicated due to zero division error - see logfile:
File "/Users/christianschmidl/src/open_pipelines/pipelines/atacseq.py", line 359, in parse_duplicate_stats
prefix + "duplicate_percentage": (float(duplicates) / (single_ends + paired_ends * 2)) * 100}
ZeroDivisionError: float division by zero

[nsheff]

You should try pepatac -- I don't know that anyone is updating this ATAC-seq pipeline anymore... @afrendeiro ?

[afrendeiro]

Yes, I am maintaining it. But you can always try pepatac.

[nsheff]

oh cool. any interest in combining with pepatac?