ebanks 040fdfee61 Cleaned up the interface to VCFRecord. It's now possible (and easy) to create records and then write them with a VCFWriter. ... I've updated HapMap2VCF to use the new interface; Chris agreed to take care of Sequenom2VCF. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2558 348d0f76-0448-11de-a6fe-93d51630548a		2010-01-11 21:42:12 +00:00
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alignment	Support for ad-hoc reference sequences. Also reenabled BWA/Java integration test, which was commented out	2010-01-02 20:19:14 +00:00
gatk	Annotator in general should be able to annotate monomorphic or tri-allelic sites.	2010-01-11 19:52:18 +00:00
playground/gatk/walkers	Cleaned up the interface to VCFRecord. It's now possible (and easy) to create records and then write them with a VCFWriter.	2010-01-11 21:42:12 +00:00
utils	Cleaned up the interface to VCFRecord. It's now possible (and easy) to create records and then write them with a VCFWriter.	2010-01-11 21:42:12 +00:00
BaseTest.java	moved hard-coded file paths to the oneKGLocation, validationDataLocation, and seqLocation variables setup in the BaseTest.	2009-12-29 07:40:48 +00:00
TrivialInstrumenter.java	fixed a bunch of comments and license headers.	2009-06-10 14:10:46 +00:00
WalkerTest.java	Added the capability to allow expressions in an integration test command (i.e. -filter 'foo') by escaping them in the command.	2009-11-24 02:34:48 +00:00