5 Commits (e293d65edeea09e6f56b4e5c7244c2b7fb99555e)

Author	SHA1	Message	Date
hanna	2c4de7b5c5	Switch TraverseByLoci over to new sharding system, and cleanup some code in passing read files along ... the pathway from command line to traversal engine. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@727 348d0f76-0448-11de-a6fe-93d51630548a	2009-05-15 21:02:12 +00:00
aaron	0215905bb6	Added an adapter class, that will adapt plain iterators and closeable iterators of SAMRecords into STingSAMIterators. Also unit tests. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@697 348d0f76-0448-11de-a6fe-93d51630548a	2009-05-14 15:17:32 +00:00
aaron	63403d32cd	Changes to the interface to the simple data source rippled out to a bunch of files. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@572 348d0f76-0448-11de-a6fe-93d51630548a	2009-04-30 20:35:56 +00:00
aaron	6db9127f90	Added changes to shattering, refactored SAMBAM into SAM ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@426 348d0f76-0448-11de-a6fe-93d51630548a	2009-04-15 13:52:56 +00:00
aaron	e6fb122d7d	Added some fixes and new iterator tests ... --This lin e, and those below, will be ignored-- A gatk/iterators AM gatk/iterators/BoundedReadIteratorTest.java M gatk/dataSources/simpleDataSources/SAMBAMDataSourceTest.java git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@420 348d0f76-0448-11de-a6fe-93d51630548a	2009-04-14 22:19:36 +00:00