Eric Banks 52b16bf739 Must check whether there's a normal vs. extended pileup before asking for it.		2011-11-02 20:45:24 -04:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	Must check whether there's a normal vs. extended pileup before asking for it.	2011-11-02 20:45:24 -04:00
test	Removing the min mapping quality argument since it wasn't being used in the normal processing of the pileups in UG - only for indel pileups. Instead, we apply the min base quality to the reads in the pileup for indels and define it to be the min 'confidence' of the base. Docs are updated but I didn't rename the argument as I don't want people to complain.	2011-11-02 20:32:58 -04:00