3 Commits (d2f3d6d22ff72ef29c98ce0591092469c33ca42e)

Author	SHA1	Message	Date
David Roazen	d2f3d6d22f	Revert "Separated out the DoC calculations from the XHMM pipeline, so that CalcDepthOfCoverage can be used for calculating joint coverage on a per-base accounting over multiple samples (e.g., family samples)" ... This reverts commit 075c56060e0ffcce39631693ef39cf5f8c3a4d5a.	2012-09-10 15:52:39 -04:00
Menachem Fromer	0b717e2e2e	Separated out the DoC calculations from the XHMM pipeline, so that CalcDepthOfCoverage can be used for calculating joint coverage on a per-base accounting over multiple samples (e.g., family samples)	2012-09-10 15:32:41 -04:00
David Roazen	cb84a6473f	Downsampling: experimental engine integration ... -Off by default; engine fork isolates new code paths from old code paths, so no integration tests change yet -Experimental implementation is currently BROKEN due to a serious issue involving file spans. No one can/should use the experimental features until I've patched this issue. -There are temporarily two independent versions of LocusIteratorByState. Anyone changing one version should port the change to the other (if possible), and anyone adding unit tests for one version should add the same unit tests for the other (again, if possible). This situation will hopefully be extremely temporary, and last only until the experimental implementation is proven.	2012-09-06 15:03:27 -04:00