hanna 4995950d04 IndexedFastaSequenceFile is now in Picard; transitioning to that implementation. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3701 348d0f76-0448-11de-a6fe-93d51630548a		2010-07-01 04:40:31 +00:00
..
Accumulator.java	The copyright tag that I copied/pasted from a LaTeX document into IntelliJ had	2010-04-20 15:26:32 +00:00
ExceptionAwareThreadPool.java	adding a command line option, -etd (enable threaded debugging), that uses a custom thread pool class to catch exceptions thrown inside of a thread.	2010-05-27 21:57:56 +00:00
HierarchicalMicroScheduler.java	IndexedFastaSequenceFile is now in Picard; transitioning to that implementation.	2010-07-01 04:40:31 +00:00
HierarchicalMicroSchedulerMBean.java	Basic instrumentation support for the hierarchical microscheduler.x	2009-05-29 22:19:27 +00:00
LinearMicroScheduler.java	IndexedFastaSequenceFile is now in Picard; transitioning to that implementation.	2010-07-01 04:40:31 +00:00
MicroScheduler.java	IndexedFastaSequenceFile is now in Picard; transitioning to that implementation.	2010-07-01 04:40:31 +00:00
OutputMergeTask.java	General-purpose management of output streams.	2009-08-23 00:56:02 +00:00
ReduceTree.java	Sketch of hierarchical reduce process, with unit tests for some core classes. Requires breakout of inner classes, testing.	2009-04-29 20:26:16 +00:00
ShardTraverser.java	Support for detecting and automatically excluding reads reading into the adaptor sequence and, if desired, also only showing the first pair when two reads overlap in the fragment. Not enabled, an intermediate check in before updating and verifying the impact on locus walkers everywhere.	2010-05-30 18:00:12 +00:00
TreeReducer.java	Basic instrumentation support for the hierarchical microscheduler.x	2009-05-29 22:19:27 +00:00
WindowMaker.java	Switching over DownsamplingLocusIteratorByState -> LocusIteratorByState. Some operations	2010-06-21 02:11:42 +00:00
package-info.java	Turn javadoc comments for packages and classes into key/value pairs in a properties file. Embed the properties file	2009-12-04 20:08:41 +00:00