gatk3的最后一个经典版本3.8

Matt Hanna c312bd5960 Weirdly, PicardException inherits from SAMException, which means that our specialty code for ... reporting malformed BAMs was actually misreporting any error that happened in the Picard layer as a BAM ERROR. Specifically changing PicardException to report as a ReviewedStingException; we might want to change it in the future. I'll followup with the Picard team to make sure they really, really want PicardException to inherit from SAMException.		2012-01-24 15:30:04 -05:00
public	Weirdly, PicardException inherits from SAMException, which means that our specialty code for	2012-01-24 15:30:04 -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	Changes to allow for external tests	2012-01-19 13:04:24 -05:00
ivy.xml	No more "Q-<pid>@<host>". Generated log file names now use the first output + ".out" (ex. my.vcf.out) or the name of the first QScript plus the order the function was added (ex. MyScript-1.out). The same function added twice with the same outputs will now have the same default logs, meaning the 2nd instance of the function won't be added to the graph twice.	2012-01-08 12:11:55 -05:00