Mark DePristo f2b0575dee Detect unreasonably large allele strings (>2^16) and throw an error ... -- samtools can emit alleles where the ref is 42M Ns and this caused the GATK (via tribble) to hang in several places. -- Tribble was updated so we actually could read the line properly (rev. to 51 here). -- Still the parsing algorithms in the GATK aren't happy with such a long allele. Instead of optimizing the code around an improper use case I put in a limit of 2^16 bp for any allele, and throw a meaningful exception when encountered.		2012-01-17 16:40:26 -05:00
..
com.google.code.caliper	Killed sonatype repository; it's failed me too many times at this point.	2011-06-09 16:07:02 +00:00
com.google.code.cofoja	Fixing Contracts for Java, and enabling contracts by default for unit/integration tests.	2011-07-08 15:34:39 -04:00
edu.mit.broad	Revving Picard to incorporate final version of ReadWalker performance improvements.	2012-01-10 12:12:33 -05:00
gov.nist	Adding Jama for Ryan.	2010-04-27 14:30:36 +00:00
net.sf	Revving Picard to incorporate final version of ReadWalker performance improvements.	2012-01-10 12:12:33 -05:00
net.sf.gridscheduler	Switched GridEngine from looking from environment variable to using embedded jar.	2011-07-05 21:59:00 -04:00
net.sf.snpeff	SnpEff 2.0.5 support. Re-enabled SnpEff in the HybridSelectionPipeline.	2012-01-03 15:18:36 -05:00
org.broad	Detect unreasonably large allele strings (>2^16) and throw an error	2012-01-17 16:40:26 -05:00