depristo 231d095316 A clean, fast way to compute fragment pileups. Now consumes no CPU time at all. Ready for general use. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5524 348d0f76-0448-11de-a6fe-93d51630548a		2011-03-27 14:26:29 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src	A clean, fast way to compute fragment pileups. Now consumes no CPU time at all. Ready for general use.	2011-03-27 14:26:29 +00:00
test	--simplifyBAM is now in the SAMFileWriterArgumentTypeDescriptor, as suggested by map. PrintReads has an integrationtest now that writes out a 1 MB bit of HiSeq normally, with compress 0, and with simplifyBAM on.	2011-03-26 14:57:18 +00:00