jmerkin

Yes, that works as well. Default behavior is to chunk into relatively small files, though, so I think a simple check like this should be included so it doesn't die...

That looks like it returns the correct value, yes. I'd create a pull request for this myself, but honestly you don't want my c code polluting your codebase... On Tue,...

Just want to bring attention to this issue. Seems like a pretty standard request to want to do some of our own filtering on the variants used in the analysis.