upgrade adam to 0.9.1-SNAPSHOT and spark to 0.9.1 to fix cli errors
Merge pull request #43 from hammerlab/upgrades

Upgrade adam to 0.9.1-SNAPSHOT and Spark to 0.9.1
homozygous ref and alt were flipped in terms of writing/saving
Merge pull request #44 from hammerlab/reverse-site-calls

Homozygous ref and alt were flipped in terms of writing/saving
change snp caller interface to use rods exclusively
Merge pull request #45 from hammerlab/rod-clean

Change snp caller interface to use rods exclusively