massie/adam — pull request #7 by massie (2013-10-22 18:18:11+00:00)
Title: Use KryoSerializer with embedded Avro objects. New sorting/concat option...

...s. SAM support.

o Switch to KryoSerializer with registered handlers for serializing Avro objects
o Add option to sort all reads before writing ADAM/Parquet files
o Add option to concatenate all partitions into a single partition before saving
o Update the bam2adam command to work with both SAM and ADAM files
o Remove the AvroWrapper class as it's no longer needed
o Clean up Parquet commandline options