gatk3的最后一个经典版本3.8

David Roazen 32dee7ed9b Avoid buffer underflow in GATKBAMIndex by detecting premature EOF in BAM indices ... GATKBAMIndex would allow an extremely confusing BufferUnderflowException to be thrown when a BAM index file was truncated or corrupt. Now, a UserException is thrown in this situation instructing the user to re-index the BAM. Added a unit test for this case as well.		2012-03-08 15:30:44 -05:00
public	Avoid buffer underflow in GATKBAMIndex by detecting premature EOF in BAM indices	2012-03-08 15:30:44 -05:00
settings	Rev. tribble to fix BED codec bug in tribble 51	2012-01-17 16:40:26 -05:00
.gitignore	Minor additions to the shared .gitignore file, now that Mark has checked one in.	2011-10-26 12:24:28 -04:00
LICENSE	One last test...	2011-06-28 19:18:17 -04:00
build.xml	Public-key authorization scheme to restrict use of NO_ET	2012-03-06 00:09:43 -05:00
ivy.xml	S3 upload now directly creates the XML report in memory and puts that in S3	2012-01-29 15:14:58 -05:00