Mark DePristo ccedd6ff4c Difference is now the general form -- used to be SummarizedDifference. The old Difference class is now a subclass of Difference that includes pointers to specific the master and test DiffElements. ... Added a size() function that calculates the number of elements tree from a DiffElement.		2011-07-12 15:20:28 -04:00
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R	Moving AnalyzeAnnotations into the archive because it has outlived its usefulness.	2011-07-02 10:39:53 -04:00
chainFiles	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
doc	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
java	Difference is now the general form -- used to be SummarizedDifference. The old Difference class is now a subclass of Difference that includes pointers to specific the master and test DiffElements.	2011-07-12 15:20:28 -04:00
packages	Removed TileCovariate as a dependency for AnalyzeCovariates.jar	2011-07-11 12:10:11 -04:00
perl	Moving these supported perl scripts to public	2011-07-01 17:26:25 -04:00
scala	When generating the QGraph, don't regenerate if there aren't scatter/gather jobs.	2011-07-11 19:17:58 -04:00
testdata	First working version of the DiffNode readers for VCF and BAM files. Unit tests confirm the readers are approximately working. Skeleton of a working DiffObjects walker that will be able to provide detailed information about how exactly two files of the same type differ, so long as the files are supported by the DiffNode structure.	2011-07-04 16:11:42 -04:00