Devon Ryan

The maxVal is stored in the bigBed header. Could it be that it simply wasn't set for one of the files?

Can you make the file available to me? I can have a look then.

I don't know that I ever put in the logic in the `.entries()` function to have it fill in the chromosome bounds if nothing was supplied. I suppose that could...

`o.write("chr1\t{}\t{}\n".format(res[0], res[1]))` in that case as an example.

BigWig files themselves only support float values.

Sure, that's possible. Not sure when I'll get around to this, but it's certainly doable.

No, bedGraph has no strand column. If you explicitly need strand information you'll need a different format output (maybe one of the others produces that, I don't recall).

I suppose that'd doable, maybe a `--cytosine_report_stdout` option. No clue why the PE data says it has no overlaps, that's quite odd.

I suggest installing with conda if you can (this goes for most bioinfo software).

Yes, if you link to a library outside of the normal search path then you'll have to modify LD_LIBRARY_PATH. This is one of the advantages of using conda for installation...