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gatk3的最后一个经典版本3.8
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Java 95.8%
Scala 3.8%
R 0.2%
JavaScript 0.1%
 
 
 
 
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hanna 5d6a6420a9 New behavior for filling it output streams: if required==true for a field and the field 
is an output stream, we'll automatically create it and point it to stdout.  Otherwise, 
we'll leave it empty.  
I think about it like this: marking a field 'required' indicates to the GATK that the 
walker author requires a value for this field, and if the GATK can provide one without 
end user intervention, it will.  Maybe this is hackish.  We'll try it and see.


git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4091 348d0f76-0448-11de-a6fe-93d51630548a
 		2010-08-23 23:39:13 +00:00
R Changing a name of a column for variantevals output for easier reading by R--let me know if this needs to be updated elsewhere; it's just a space to an underscore. 2010-08-19 19:18:16 +00:00
archive Archiving 2010-07-27 02:47:18 +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 New behavior for filling it output streams: if required==true for a field and the field 2010-08-23 23:39:13 +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 Enabling support for any scala used in QScripts. 2010-08-17 22:05:56 +00:00
perl Change for Chris: don't depend on other Perl modules. 2010-08-17 22:19:13 +00:00
python now support -o output option, useful for pipelines 2010-08-06 14:57:04 +00:00
ruby Adding the ruby directory, and a simple script to restart Bamboo 2009-12-03 22:48:48 +00:00
scala Updated firehose clean bam pipeline to pull firehose info and push back firehose clean bam. 2010-08-23 20:38:42 +00:00
settings 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
shell Useful script to see the status of gsa computing resources. Crontab'd and will be arriving as email at 8 am 2010-08-07 12:36:28 +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 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
ivy.xml 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