hanna 199b43fcf2 Reduce by interval alterations to interface with new sharding system. This checkin with be followed by a ... simplification of some of the locus traversal code. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2886 348d0f76-0448-11de-a6fe-93d51630548a		2010-02-25 00:16:50 +00:00
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annotator	- Fixed output for beagle header	2010-01-21 21:25:56 +00:00
concordance	Check for division by 0 in annotations	2010-01-07 19:27:15 +00:00
fasta	moved hard-coded file paths to the oneKGLocation, validationDataLocation, and seqLocation variables setup in the BaseTest.	2009-12-29 07:40:48 +00:00
filters	VariantFiltration now accepts any number of --name --filter expressions, and annotates the VCF file with each name that matches. Very useful	2010-01-29 12:13:08 +00:00
genotyper	adding code to deal with the off-spec situation where our minimum likelihood is above the GLF max of 255.	2010-02-22 22:27:39 +00:00
indels	Killed the old cleaner code. Bye bye.	2010-02-22 20:49:58 +00:00
recalibration	Removing debug statement. oops.	2010-02-19 15:26:22 +00:00
varianteval	Reverting	2010-02-05 15:57:09 +00:00
DepthOfCoverageIntegrationTest.java	moved hard-coded file paths to the oneKGLocation, validationDataLocation, and seqLocation variables setup in the BaseTest.	2009-12-29 07:40:48 +00:00
PileupWalkerIntegrationTest.java	Now that we changed how deletions are represented, got to update MD5...	2009-12-30 22:00:58 +00:00
PrintReadsWalkerTest.java	Reduce by interval alterations to interface with new sharding system. This checkin with be followed by a	2010-02-25 00:16:50 +00:00