David Roazen c4b0ba4d45 Temporarily back out the Picard team's patches to GATKBAMIndex from December ... These patches to GATKBAMIndex are causing massive BAM index reading errors in combination with the latest version of Picard. The bug is either in the patches themselves or in the underlying SeekableBufferedStream class they rely on. Until the cause can be identified, we are temporarily backing out these changes so that we can continue to run with the latest Picard/Tribble. This reverts commits: 81483ec21e528790dfa719d18cdee27d577ca98e 68cf0309db490b79eecdabb4034987ff825ffea8 54bb68f28ad5fe1b3df01702e9c5e108106a0176		2013-02-01 13:51:31 -05:00
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net/sf	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
org/broadinstitute	Temporarily back out the Picard team's patches to GATKBAMIndex from December	2013-02-01 13:51:31 -05:00