depristo ce51ffb56e Oops, old local paths committed on accident. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5200 348d0f76-0448-11de-a6fe-93d51630548a		2011-02-04 23:35:56 +00:00
..
baq	Update Picard / sam-jdk at Tim's request.	2011-01-03 02:17:25 +00:00
bed	Update Picard / sam-jdk at Tim's request.	2011-01-03 02:17:25 +00:00
collections	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
fasta	Update Picard / sam-jdk at Tim's request.	2011-01-03 02:17:25 +00:00
genotype	Moving GLF code to archive	2011-01-15 22:42:42 +00:00
interval	More testng fallout: fixing another seemingly 'random' issue arising from an	2011-02-01 15:25:50 +00:00
pileup	Stop RBP.getPileupBySample() from throwing a NullPointerException if the	2010-11-23 05:17:06 +00:00
report	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
sam	Oops, old local paths committed on accident.	2011-02-04 23:35:56 +00:00
threading	Documentation and cleanup of the distributed GATK implementation. Detailed documentation -- given that Matt will be extending the system in the near future -- about how the locking and processing trackers work. Added error trapping to note that distributed, shared-memory parallelism isn't yet implemented, instead of just not working silently. General utility function for the analysis of distributedGATK operation in the analysis directory	2011-01-28 03:40:09 +00:00
BaseUtilsUnitTest.java	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
GenomeLocParserUnitTest.java	Convert GenomeLocParser into an instance variable. This change is required	2010-11-10 17:59:50 +00:00
GenomeLocSortedSetUnitTest.java	vastly improved progress meter that estimates % of work done and time until the job finishes and time remaining. Reordered GATK core initialization order -- intervals are created before the scheduler.	2011-01-12 17:32:27 +00:00
GenomeLocUnitTest.java	Getting back to '-L unmapped':	2010-12-14 18:24:18 +00:00
MathUtilsUnitTest.java	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
PathUtilsUnitTest.java	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
ReservoirDownsamplerUnitTest.java	Changing testing framework from junit -> testng, for its enhanced configurability.	2010-11-01 21:31:44 +00:00
UtilsUnitTest.java	Added the ability to test pipelines in dry or live mode via 'ant pipelinetest' and 'ant pipelinetest -Dpipeline.run=run'.	2010-11-22 22:59:42 +00:00