Mark DePristo 64d7e93209 Massive bugfixes ... -- Previous version was reading the size of the encoded genotypes vector for each genotype. This only worked because I never wrote out genotype field values with > 15 elements. Mauricio's killer DiagnoseTargets VCF uncovered the bug. Unfortunately since symbolic allele clipping is still busted those tests are still diabled -- GenotypeContext getMaxPloidy was returning -1 in the case where there are no genotypes, but the answer should be 0.		2012-06-28 10:06:06 -04:00
..
R	Bugfix for R 2.15 not including reshape	2012-06-14 16:42:29 -04:00
c	At chartl's request, add the bwa aln -N and bwa aln -m parameters to the bindings.	2012-01-17 14:47:53 -05:00
chainFiles	…
doc	…
java	Massive bugfixes	2012-06-28 10:06:06 -04:00
keys	Public-key authorization scheme to restrict use of NO_ET	2012-03-06 00:09:43 -05:00
packages	Temporary fake release directories for Bamboo testing purposes	2012-05-31 16:04:07 -04:00
perl	…
scala	Refactored parsing of Rod/IntervalBinding. Queue S/G now uses all interval arguments passed to CommandLineGATK QFunctions including support for BED/tribble types, XL, ISR, and padding.	2012-06-27 01:15:22 -04:00
testdata	Moved most testdata from public to private	2012-06-21 15:17:19 -04:00