Added tests for split_reads.
Merge branch 'master' into irwin-split
Restored read_utils.py, which was overwritten by merge with master for unknown reason.
Delete blank lines in test_read_utils.py
Created binaries/ and moved mvicuna there.
Merge pull request #36 from broadinstitute/irwin-split

Irwin split
Merge branch 'master' into irwin-binaries
Moved binaries, scripts, and build under tools.
Added source files for mvicuna.
Set tempdir in call to trimmomatic.
Issue #38. Stop redistributing maf-convert.py. Instead, during install run 2to3 on it and edit the result to make it run on 2.x and 3.x.
Download prinseq-lite.pl instead of redistributing it.
When running 2to3 on maf-convert, don't print diffs.
Merge pull request #42 from broadinstitute/irwin-fixes

misc directory rearrangements, make downloaders for a few more tools
Merge branch 'master' into dpark-depletion-pipeline
move scripts to tools/scripts