chartl 47fa7e2227 + Added override to extractFileEntries ... + UG now doesn't care whether it's given SNPs or indels to genotype, it will do the right thing -- so remove the option to specify which GM user wants + Max misamatches argument removed integration test will follow git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5638 348d0f76-0448-11de-a6fe-93d51630548a		2011-04-14 15:13:35 +00:00
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core	bug fix in MDCP	2011-04-11 18:27:47 +00:00
examples	When /etc/mailname is unreadable fall back to the hostname.	2011-04-11 20:22:44 +00:00
lib	Thanks to mark: VCFInfoToTable removed in favor of a more flexible walker. Slight change to the argument structure of the walker to make it play more nicely with Queue: the field list parsing is pushed into the command line system (e.g. the variable is exposed as a List<String> and not a String, so Queue doesn't have to join a list into a string only to have it broken out again. This also allows the user to specify -F field1 -F field2 -F field3 if he/she so desires.	2010-12-15 03:33:36 +00:00
oneoffs	Old changes to the exome VQSR search.	2011-04-12 23:00:50 +00:00
playground	+ Added override to extractFileEntries	2011-04-14 15:13:35 +00:00