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gatk-3.8/java/test/org/broadinstitute/sting/gatk
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ebanks b6e7b5dace Updating to reflect my recent Tribble fix 
git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5601 348d0f76-0448-11de-a6fe-93d51630548a
 		2011-04-08 11:48:00 +00:00
..
arguments A significant refactoring of the ROD system, done largely to simplify the process of 2010-12-31 04:52:22 +00:00
contexts/variantcontext Remove the extra trailing tab at the end of the VCF ## header line. Unfortunately, this meant updating every freaking integration test. 2010-12-08 17:22:29 +00:00
datasources Under guidance from Matt added ability to use key-value tags with ROD binding command line arguments, so now one can say -B:hapmap,VCF,known=false,training=true,truth=true,prior=12.0 hapmap.vcf and get the tags in a walker. Look at ContrastiveRecalibrator for an example of how to use the new ReferenceOrderedDataSource.getTags(). Removed references to FDR in tranches since we are only using truth sensitivity. Finally fixed long standing bug where tranche filters weren't set appropriately. 2011-03-29 21:04:09 +00:00
executive Changing testing framework from junit -> testng, for its enhanced configurability. 2010-11-01 21:31:44 +00:00
filters Convert GenomeLocParser into an instance variable. This change is required 2010-11-10 17:59:50 +00:00
iterators More descriptive error when VerifyingSamIterator hits an inconsistent alignment. Also updated 2011-03-03 03:55:24 +00:00
refdata Oops...forgot to commit the changes that allow primitive VCF streaming. 2011-01-12 21:54:51 +00:00
traversals A few minor modifications masquerading as significant changes according to 2011-02-03 17:59:19 +00:00
walkers Updating to reflect my recent Tribble fix 2011-04-08 11:48:00 +00:00
CommandLineExecutableUnitTest.java Fix for bug GSA-441: BAM file list with blank lines gives a confusing error 2011-04-01 15:04:35 +00:00
GenomeAnalysisEngineUnitTest.java Small correction to the unit test code from my last commit. 2011-04-04 18:55:38 +00:00
WalkerManagerUnitTest.java Changing testing framework from junit -> testng, for its enhanced configurability. 2010-11-01 21:31:44 +00:00