Mark DePristo 6382d5bdc9 Final cleanup and unit testing for GATKRunReport ... -- Bringing code up to document, style, and code coverage specs -- Move GATKRunReportUnitTest to private -- Fully expand GATKRunReportUnitTests to coverage writing and reading GATKRunReport to local disk, to standard out, to AWS. -- Move documentation URL from GATKRunReport to UserException -- Delete a few unused files from s3GATKReport -- Added capabilities to GATKRunReport to make testing easier -- Added capabilities to deserialize GATKRunReports from an InputStream		2013-02-02 15:06:56 -05:00
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commandline	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
gatk	Final cleanup and unit testing for GATKRunReport	2013-02-02 15:06:56 -05:00
jna	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
utils	Update MD5s to reflect version number change in the BAM header	2013-02-01 13:51:31 -05:00
BaseTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
ExampleToCopyUnitTest.java	UnitTesting example for copying	2013-01-30 11:19:08 -05:00
MD5DB.java	Encrypt GATK AWS keys using the GATK private key, and decrypt as needed as a resource when uploading to AWS logs	2013-01-30 16:42:23 -05:00
MD5Mismatch.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
StingTextReporter.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
TestNGTestTransformer.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
WalkerTest.java	Move some VCF/VariantContext methods back to the GATK based on feedback	2013-01-29 16:56:55 -05:00