hanna 2808fd4bbd Better support for required mutually exclusive options. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@199 348d0f76-0448-11de-a6fe-93d51630548a		2009-03-26 03:22:30 +00:00
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cmdLine	Better support for required mutually exclusive options.	2009-03-26 03:22:30 +00:00
FastaSequenceFile2.java	Push core / playground lower into the tree.	2009-03-23 23:19:54 +00:00
FileProgressTracker.java	Push core / playground lower into the tree.	2009-03-23 23:19:54 +00:00
GenomeLoc.java	High-performance interval list implement -- uses StringBuilder to avoid n^2 calculation. Can handle millions of locations quickly now	2009-03-25 02:17:48 +00:00
Pair.java	Push core / playground lower into the tree.	2009-03-23 23:19:54 +00:00
Predicate.java	Push core / playground lower into the tree.	2009-03-23 23:19:54 +00:00
PrimitivePair.java	Push core / playground lower into the tree.	2009-03-23 23:19:54 +00:00
RefHanger.java	Support for byInterval traversals for Jared. Do not use them.	2009-03-24 20:55:34 +00:00
Utils.java	Added xReadLines class to utils. It is a iterator<string> and iterable<string> so you can easily read all lines from a file. It's been used to simplify the code to process intervals, and will be used to add merging data support to the system...	2009-03-25 15:17:38 +00:00
xReadLines.java	Documentation and cleanup of xReadLines.	2009-03-25 15:36:21 +00:00