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David Roazen 5e76c811b9 Build system round 2: finished preparing the packaging system for dual protected/lite releases 
* Targets to package and release lite/protected versions of the GATK/Queue
* Still TODO: -determine the actual directories where the protected releases should go
              -update the Bamboo release plan
              -fix a bug in the binary release test targets
 		2012-05-29 13:54:51 -04:00
..
R Add warning message about ratios in variantQCreport, give ratio for MAF > 10% 2012-04-25 12:22:32 -04:00
c At chartl's request, add the bwa aln -N and bwa aln -m parameters to the bindings. 2012-01-17 14:47:53 -05:00
chainFiles Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
doc Reorganized the codebase beneath top-level public and private directories, 2011-06-28 06:55:19 -04:00
java Updated hard limit MathUtils.MAXN number of samples from 11,000 to 50,000. 2012-05-29 11:18:22 -04:00
keys Public-key authorization scheme to restrict use of NO_ET 2012-03-06 00:09:43 -05:00
packages Build system round 2: finished preparing the packaging system for dual protected/lite releases 2012-05-29 13:54:51 -04:00
perl Update to the bindings for liftOverVCF.pl (to -V from -B) 2011-09-15 15:33:09 -04:00
scala Renamed NO_HEADER to the more accurate no_cmdline_in_header 2012-05-24 10:57:08 -04:00
testdata Bugfixes and code cleanup throughout so BCF2 passes VC -> BCF -> VC tests 2012-05-27 11:17:17 -04:00