Guillermo del Angel e185632013 Exhaustive unit tests for Pool SNP genotype likelihoods: ... a) Add ability for ErrorModel to be specified by external log-probability vector for testing. b) For a given depth and ploidy(=2*samples/pool), create artificial high quality pileup testing from AC=0 to AC=ploidy, and test that pool GL's have expected content.Misc. refactorings and cleanups c) Misc. cleanups and beautification.		2012-04-30 14:29:46 -04:00
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datasources	Bug fix for: https://getsatisfaction.com/gsa/topics/problem_with_indelrealigner_and_l_unmapped	2012-04-27 09:58:38 -04:00
executive	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
filters	Taking care of bad cigars in the GATK	2012-03-20 14:32:57 -04:00
iterators	Removing extended event related unit tests	2012-04-02 14:40:36 -04:00
refdata	Merge with master	2011-11-19 09:56:06 -05:00
report	AggregateMetrics:	2012-04-17 11:45:32 -04:00
samples	Added function to get founders IDs in SampleDB	2012-04-25 12:49:36 -04:00
traversals	First pass of the asynchronous block loader.	2011-11-18 15:02:59 -05:00
walkers	Exhaustive unit tests for Pool SNP genotype likelihoods:	2012-04-30 14:29:46 -04:00
EngineFeaturesIntegrationTest.java	More extensive testing of type of error thrown in multi-threaded walker test	2012-04-13 09:23:33 -04:00
GenomeAnalysisEngineUnitTest.java	Allow processing of empty intervals, but warn user when this case is encountered.	2011-10-28 12:12:14 -04:00
WalkerManagerUnitTest.java	Moving more tools over to use the standard VC arg collection. Also, while I'm in there, I removed all of the empty references to @Requires given that it's no longer relevant.	2011-08-10 12:20:18 -04:00