Vcf work concordance and genotype

[nealsid]

This PR has some utility classes for concordance as well as working with ADAMGenotypes. It is a superset of the other PRs and only the last commit needs to be reviewed for this one.
Thanks,
Neal

[AmplabJenkins]

All automated tests passed.
Refer to this link for build results: https://amplab.cs.berkeley.edu/jenkins/job/ADAM-prb/173/

[tdanford]

It seems like some of the commits share the same name -- @nealsid how is this PR related to #147 ?

[nealsid]

I created this branch off of the branch for #147, which is why it shares commits. But once PR #147 is merged, this PR will only contain 363c25a

[fnothaft]

#147 is only waiting on @tdanford's suggestions before merging, correct? Just want to make sure it isn't sitting out ready to merge with nothing else pending.

[fnothaft]

Looks good here, I commented on 363c25a. One general overall comment is that I'd like to see more scaladoc, but that's just a nit.

[AmplabJenkins]

All automated tests passed.
Refer to this link for build results: https://amplab.cs.berkeley.edu/jenkins/job/ADAM-prb/179/

[AmplabJenkins]

All automated tests passed.
Refer to this link for build results: https://amplab.cs.berkeley.edu/jenkins/job/ADAM-prb/180/

[fnothaft]

Thanks @nealsid! Merged.