6 Commits (fecba2cae5a3f61563fbcfa72f42e077a0d5aee4)

Author	SHA1	Message	Date
aaron	109bef6c08	We're no longer in the read-dropping business. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@901 348d0f76-0448-11de-a6fe-93d51630548a	2009-06-04 22:37:51 +00:00
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