Merge branches 'irwin-taxon_filter' and 'master' of github.com:broadinstitute/viral-ngs
Merge branches 'master' and 'irwin-taxon_filter' of github.com:broadinstitute/viral-ngs into irwin-taxon_filter
Merge branch 'master' into irwin-taxon_filter
DownloadPackage now uses relative path, defaults to build dir, has post_download_command, and handles .bz2. Removed DownloadScript.
Added tools for picard and samtools.
Include picard and samtools in testtools.
Merge remote-tracking branch 'origin/master'
Merge branch 'irwin-taxon_filter' into irwin-tool_enhancements
Merge branch 'master' into irwin-taxon_filter
Added /idi/sabeti-scratch/kandersen/bin/scripts/noBlastHits_v3.py and /idi/sabeti-scratch/kandersen/bin/scripts/mergeShuffledFastqSeqs.pl to scripts.
Added blast tool.
Baby steps towards implementing deplete_bmtagger.
Set __all__ to automatically contain all tools. Check return from os.system in post_download.
In tools/__init__.py, set __all__ to automatically contain all tools. Check return from os.system in post_download.
tweak to check
Merge pull request #16 from broadinstitute/irwin-tool_enhancements

Made changes to DownloadPackage and got rid of DownloadScript, handle bz2 compression in DownloadPackage, added post_download_command argument to DownloadPackage, a command that will be executed in the destination directory, created tools for samtools and picard.
basic install method for bwa
basic execute for bwa
create install methods before trying to append to is
separate subcommand into own argument