Eric Banks 4fa439d89e Move some classes back to public because they are used in the engine. Move some test classes to protected. We should have no more public->protected dependancies now		2013-01-09 11:06:10 -05:00
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R	Fix a nasty bug in reading GATK reports with a single line	2012-09-10 20:14:13 -04:00
c	…
chainFiles	…
doc	…
java	Move some classes back to public because they are used in the engine. Move some test classes to protected. We should have no more public->protected dependancies now	2013-01-09 11:06:10 -05:00
keys	…
packages	Move VCF/BCF2/VariantContext to new standalone org.broadinstitute.variant package	2012-12-19 10:25:22 -05:00
perl	…
scala	Moved processing pipelines to private	2013-01-07 14:49:57 -05:00
testdata	Reverting move of BQSR tests to public, as per DR's email	2012-07-19 10:02:05 -04:00