Mark DePristo 8d9b0f1bd5 Restructure ActivityProfiler into root class ActivityProfile and derived class BandPassActivityProfile ... -- Required before I jump in an redo the entire activity profile so it's can be run imcrementally -- This restructuring makes the differences between the two functionalities clearer, as almost all of the functionality is in the base class. The only functionality provided by the BandPassActivityProfile is isolated to a finalizeProfile function overloaded from the base class. -- Renamed ActivityProfileResult to ActivityProfileState, as this is a clearer indication of its actual functionality. Almost all of the misc. walker changes are due to this name update -- Code cleanup and docs for TraverseActiveRegions -- Expanded unit tests for ActivityProfile and ActivityProfileState		2013-01-23 13:45:21 -05:00
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gatk	Restructure ActivityProfiler into root class ActivityProfile and derived class BandPassActivityProfile	2013-01-23 13:45:21 -05:00
utils	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
package-info.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00