gatk3的最后一个经典版本3.8

David Roazen bc65f6326f Detect incomplete reads from BAM schedule file in BAMSchedule before they become buffer underflows ... This fix is similar, but distinct from the earlier fix to GATKBAMIndex. If we fail to read in a complete 3-integer bin header from the BAM schedule file that the engine has written, throw a ReviewedStingException (since this is our problem, not the user's) rather than allowing a cryptic buffer underflow error to occur. Note that this change does not fix the underlying problem in the engine, if there is one (there may be an as-yet-undetected bug in the code that writes the bam schedule). It will just make it easier for us to identify what's going wrong in the future.		2012-03-09 12:33:48 -05:00
public	Detect incomplete reads from BAM schedule file in BAMSchedule before they become buffer underflows	2012-03-09 12:33:48 -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