droazen 80d547ae71 Fix for bug GSA-445: Sequence dictionary validation can be very slow with ... large numbers of contigs. SequenceDictionaryUtils.getCommonContigsByName() was running in O(n^2) time due to poor choice of data structure -- modified it to run in O(n) time. Also removed an unnecessary O(n log n) step at another stage in the sequence dictionary validation process. In tests with a 181,813-entry sequence dictionary, runtime improved from an average of 21.4 minutes to 45.1 seconds. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5604 348d0f76-0448-11de-a6fe-93d51630548a		2011-04-08 18:33:10 +00:00
..
config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src	Fix for bug GSA-445: Sequence dictionary validation can be very slow with	2011-04-08 18:33:10 +00:00
test	Updating to reflect my recent Tribble fix	2011-04-08 11:48:00 +00:00