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gatk3的最后一个经典版本3.8
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hanna eee134baf2 Chris found a bug in the downsampler where, if the number of reads entering 
the pileup at the next alignment start is large, we don't add as many of those
incoming reads as we should.  No integration tests were affected.

Thanks, Chris!


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4378 348d0f76-0448-11de-a6fe-93d51630548a
 		2010-09-29 11:18:12 +00:00
R Ready for integration with queue script 2010-09-24 19:46:01 +00:00
archive Cleaning up playground utils and tests 2010-08-27 01:25:47 +00:00
c Reduce file handle usage. 2010-01-05 18:03:01 +00:00
doc removing the custom reflections library from the libs, and adding a release version. Hopefully this will fix the problem Menachem has been seeing with random JVM crashes. Also 2010-08-19 00:42:37 +00:00
java Chris found a bug in the downsampler where, if the number of reads entering 2010-09-29 11:18:12 +00:00
matlab Another matlab script -- this time for making power and coverage plots over a specific gene region. Lots of fun file reading, string manipulation, and exploration of the set() function 2009-11-30 20:02:25 +00:00
packages Fix for DoC issue with multiplexer -- will retire use of multiplexer when 2010-09-07 00:44:07 +00:00
perl Added 'Cron' to subject for easier message filtering 2010-09-28 21:03:50 +00:00
python clean-up the docs a little 2010-09-29 05:02:41 +00:00
ruby accidentally commited an old tool 2010-08-25 15:42:02 +00:00
scala Default memory limit is now 4g (apparently necessary when testing on full 100-sample Autism_Daly dataset) 2010-09-27 05:43:08 +00:00
settings The battle is over. Picard is revved. 2010-09-03 05:28:01 +00:00
shell Updated from SnakeYAML 1.6 to 1.7. 2010-09-22 19:47:49 +00:00
testdata and add changes to the vcf used in testing 2010-06-25 02:56:02 +00:00
LICENSE Adding a license to the root directory in case BOSC checks for one. Has the 2010-04-20 16:04:29 +00:00
build.xml Enhancements to build external projects for walker sharing. 2010-09-24 21:17:16 +00:00
ivy.xml Updated from SnakeYAML 1.6 to 1.7. 2010-09-22 19:47:49 +00:00