gatk3的最后一个经典版本3.8

kiran 1fb16d54e0 For SAM files that have no alignments and when no reference is specified, contigInfo.getSequence() is null, causing an error when getSequenceName() is called on the resulting null pointer. Check for null instead and return that instead of barfing here. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@374 348d0f76-0448-11de-a6fe-93d51630548a		2009-04-13 00:48:21 +00:00
c	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
doc	Updated with last week / next week for 6 April.	2009-04-06 14:05:20 +00:00
java	For SAM files that have no alignments and when no reference is specified, contigInfo.getSequence() is null, causing an error when getSequenceName() is called on the resulting null pointer. Check for null instead and return that instead of barfing here.	2009-04-13 00:48:21 +00:00
python	Helper utility for merging BAM files	2009-04-09 20:10:41 +00:00
settings	Bump sam jdk to svn rev 207.	2009-04-08 22:16:46 +00:00
shell	Move non-java code out of playground.	2009-03-23 19:31:38 +00:00
testdata	Skeleton of new directory structure.	2009-03-11 20:05:05 +00:00
build.xml	Initial test suite for FastaSequenceFile2, so I can add parallelism support with abandon.	2009-04-11 21:10:42 +00:00
ivy.xml	Added castor dependency.	2009-04-07 22:27:39 +00:00