..
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
Rewrite of GATKBAMIndex to avoid mmaps causing false reports of heavy memory
2011-04-12 23:49:58 +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
report
Added a utility method to retrieve the contig lengths for WG chunking.
2011-04-20 19:22:21 +00:00
traversals
Fix requested by Lee Lichtenstein: first check to see whether it's time for
2011-04-20 03:22:48 +00:00
walkers
My fixes to Tribble yesterday revealed that some of the test VCFs for integration tests were actually malformed. Also, Guillermo updated the b37 dbSNP VCF and that broke some tests. Should be good for now.
2011-04-17 03:39:11 +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
8619f49d20