ebanks 9b2fcc4711 Refactoring of the annotation system: ... 1. VA is now a ROD walker so it no longer requires reads (needs a little more testing) 2. Annotations can now represent multiple INFO fields (i.e. sets of key/value pairs) 3. The chromosome count annotations have been pulled out of UG and the VCF writer code and into VA where they belong. Fixed the headers too. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3513 348d0f76-0448-11de-a6fe-93d51630548a		2010-06-09 17:05:51 +00:00
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alignment	BaseUtils has more clear distinction between byte and char routines. All char routines are @Depreciated now. Please use bytes. Better organization of reverse(), now in Utils not BaseUtils.	2010-05-20 14:05:13 +00:00
analyzecovariates	The copyright tag that I copied/pasted from a LaTeX document into IntelliJ had	2010-04-20 15:26:32 +00:00
commandline	The copyright tag that I copied/pasted from a LaTeX document into IntelliJ had	2010-04-20 15:26:32 +00:00
gatk	Refactoring of the annotation system:	2010-06-09 17:05:51 +00:00
oneoffprojects	Refactoring of the annotation system:	2010-06-09 17:05:51 +00:00
playground	Refactoring of the annotation system:	2010-06-09 17:05:51 +00:00
utils	Refactoring of the annotation system:	2010-06-09 17:05:51 +00:00