Khalid Shakir 677bea0abd Right aligning GATKReport numeric columns and updated MD5s in tests. ... PreQC parses file with spaces in sample names by using tabs only. PostQC allows passing the file names for the evals so that flanks can be evaled. BaseTest's network temp dir now adds the user name to the path so files aren't created in the root. HybridSelectionPipeline: - Updated to latest versions of reference data. - Refactored Picard parsing code replacing YAML.		2011-12-05 23:22:15 -05:00
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datasources	First pass of the asynchronous block loader.	2011-11-18 15:02:59 -05:00
executive	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
filters	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
iterators	GATKSAMRecord refactor	2011-11-03 15:43:26 -04:00
refdata	Merge with master	2011-11-19 09:56:06 -05:00
report	Right aligning GATKReport numeric columns and updated MD5s in tests.	2011-12-05 23:22:15 -05:00
samples	Fixed bad expected value in PedReaderUnitTest	2011-10-06 08:16:47 -07:00
traversals	First pass of the asynchronous block loader.	2011-11-18 15:02:59 -05:00
walkers	Right aligning GATKReport numeric columns and updated MD5s in tests.	2011-12-05 23:22:15 -05:00
EngineFeaturesIntegrationTest.java	Thanks to Mark for agreeing to transition from 'variants' back to 'variant'. I think I got them all but I've been jumping all around the code, so there might be a straggler or two.	2011-08-09 12:04:55 -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