aaron 12e1f192c4 Fixed a bug in this code where it would eat reads that didn't start at the beginning of the provided interval. This should fix / help fix Kristian problem ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@453 348d0f76-0448-11de-a6fe-93d51630548a		2009-04-16 18:42:00 +00:00
..
dataSources	Fixed a bug in this code where it would eat reads that didn't start at the beginning of the provided interval. This should fix / help fix Kristian problem	2009-04-16 18:42:00 +00:00
executive	Added a bunch of changes to support the new MicroManager code	2009-04-15 18:29:38 +00:00
iterators	* fixed bug where the merged header was not being set on the read (although the read group was)	2009-04-16 12:53:07 +00:00
refdata	added isHom() and isHet() queries to the Genotype interface (with the obvious meaning)	2009-04-16 18:41:39 +00:00
traversals	Better debugging output with .debug	2009-04-15 19:09:18 +00:00
walkers	Slight code cleanup	2009-04-14 22:21:36 +00:00
GenomeAnalysisTK.java	Added a bunch of changes to support the new MicroManager code	2009-04-15 18:29:38 +00:00
LocusContext.java	Added lots of assertions to check for problems.	2009-04-14 00:55:19 +00:00
WalkerManager.java	Refactor common functionality out of WalkerManager and into JVMUtils and PathUtils. Add support for loading walkers from a jar.	2009-03-30 23:20:55 +00:00