3 Commits (42acc968b16057ea3342c894133809b46f51dcd6)

Author	SHA1	Message	Date
hanna	8e36a07bea	Convert GenomeLocParser into an instance variable. This change is required ... for anything that needs to be simultaneously aware of multiple references, eg Queue's interval sharding code, liftover support, distributed GATK etc. GenomeLocParser instances must now be used to create/parse GenomeLocs. GenomeLocParser instances are available in walkers by calling either -getToolkit().getGenomeLocParser() or -refContext.getGenomeLocParser() This is an intermediate change; GenomeLocParser will eventually be merged with the reference, but we're not clear exactly how to do that yet. This will become clearer when contig aliasing is implemented. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4642 348d0f76-0448-11de-a6fe-93d51630548a	2010-11-10 17:59:50 +00:00
hanna	861ee3e37a	Changing testing framework from junit -> testng, for its enhanced configurability. ... Initial test to see how Bamboo will respond. More detailed email to follow. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4609 348d0f76-0448-11de-a6fe-93d51630548a	2010-11-01 21:31:44 +00:00
aaron	30178c05c5	providing a way to specify how you'd like -BTI combined with your -L options; set BTIMR to either UNION (default) or INTERSECTION. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3983 348d0f76-0448-11de-a6fe-93d51630548a	2010-08-09 14:00:52 +00:00