coverage_to_regions.py should take ref.fa.fai
coverage_to_regions.py should take ref.fa.fai

Freebayes-parallel's command-line help erroneously says that coverage_to_regions.py should take the ref.fa as input, when it really wants the fasta's index (i.e. ref.fa.fai as in the other examples).  The default command-line help for coverage_to_regions.py reads in part:
 ...   coverage_to_regions.py  fasta_index num_regions >regions.bed ...
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