David Roazen b2e699169c Update GATK packaging settings to package arbitrary resources ... With the newly-added support for packaging arbitrary resources, the resources were getting packaged in a normal build but not when creating a standalone GATK jar. This corrects this oversight.		2012-11-28 15:26:05 -05:00
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R	Fix a nasty bug in reading GATK reports with a single line	2012-09-10 20:14:13 -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	…
doc	…
java	Reads are required to be sorted	2012-11-28 13:59:58 -05:00
keys	Public-key authorization scheme to restrict use of NO_ET	2012-03-06 00:09:43 -05:00
packages	Update GATK packaging settings to package arbitrary resources	2012-11-28 15:26:05 -05:00
perl	Split out contig names from Reference .fai file on white space (to support the GATK resource bundle's file human_g1k_v37.fasta.fai.gz, which does not use tab delimiters)	2012-06-07 16:56:32 -04:00
scala	Fixed fragment handling in DepthOfCoverage	2012-11-21 16:01:10 -05:00
testdata	Reverting move of BQSR tests to public, as per DR's email	2012-07-19 10:02:05 -04:00