Segway does not detect overlapping regions in --include-coords/--exclude-coords bedfile

hoffmangroup / segway

Application for semi-automated genomic annotation.

http://segway.hoffmanlab.org/

GNU General Public License v2.0

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Open EricR86 opened 8 years ago

EricR86 commented 8 years ago

Original report (BitBucket issue) by Rachel Chan (Bitbucket: rcwchan).

Ideally, segway should detect that there are overlapping regions in --include-coords or --exclude-coords bedfile and raise a warning or error.

EricR86 commented 8 years ago

Original comment by Michael Hoffman (Bitbucket: hoffman, GitHub: michaelmhoffman).

Let's make it an error for now, there is probably a baked-in assumption of non-overlapping regions in some of the code.