Mark DePristo 9712fed7a5 Trap SAMFormatException and rethrow as MalformatedBAM exception ... -- Trap errors in header and rethrow -- Wrap underlying iterator in MalformatedBAMErrorReformattingIterator		2012-02-27 13:52:50 -05:00
..
alignment	GATKSAMRecord refactor	2011-11-03 15:43:26 -04:00
analyzecovariates	No more hunting down R "resources". As a tradeoff Rscript cannot be specified on the commandline and will be found in the environment path.	2011-10-27 14:17:07 -04:00
commandline	Bugfix for incorrect error messages for missing BAMs and VCFs	2012-01-23 09:52:07 -05:00
gatk	Trap SAMFormatException and rethrow as MalformatedBAM exception	2012-02-27 13:52:50 -05:00
jna	Updates to JobRunners from the Queue developer community and from running the WholeGenomePipeline:	2011-08-22 15:13:27 -04:00
queue	General improvements to Queue	2011-12-20 14:05:09 -05:00
utils	Fix to permit proper handling of mapping qualities between 128 to 255 (which get converted to byte values of -128 to -1)	2012-01-27 16:01:30 -05:00