Pass Sample Names

In order to disambiguate VCF results that differ only in the sample names used as inputs, pass those names along from the commands when asking a result for its VCF result.
Gotcha. Obviously not ideal, but I don't see a way around it. I do think we should address the "badness" of that LOH tool (or even remove it entirely as it appears its been superseded), but that seems out of scope for this PR.