Michael McCowan c3a933ce84 Adaptations to accomodate Tribble API changes, comprising mostly of the following. ... * Refactoring implementations of readHeader(LineReader) -> readActualHeader(LineIterator), including nullary implementations where applicable. * Galvanizing fo generic types. * Test fixups, mostly to pass around LineIterators instead of LineReaders. * New rev of tribble, which incorporates a fix that addresses a problem with TribbleIndexedFeatureReader reading a header twice in some instances. * New rev of sam, to make AbstractIterator visible (was moved from picard -> sam in Tribble API refactor).		2013-08-19 15:52:47 -04:00
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qscript/org/broadinstitute/sting/queue/qscripts	Now that we don't generate dict and fai files, the resource script needs to copy them to the bundle.	2013-05-02 15:18:13 -04:00
src/org/broadinstitute/sting/queue	Adaptations to accomodate Tribble API changes, comprising mostly of the following.	2013-08-19 15:52:47 -04:00
test/org/broadinstitute/sting/queue	Disable RetryMemoryLimit pipeline test	2013-07-03 13:38:28 -04:00