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Eric Banks 69b8173535 Replace uses of NestedHashMap with NestedIntegerArray. 
* Removed from codebase NestedHashMap since it is unused and untested.
 * Integration tests change because the BQSR CSV is now sorted automatically.
 * Resolves GSA-732
 		2013-02-27 14:03:39 -05:00
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org/broadinstitute/sting Replace uses of NestedHashMap with NestedIntegerArray. 2013-02-27 14:03:39 -05:00