Mauricio Carneiro 102dafdcbc Validation of GATKSamRecord in read filters ... Moved the validation of the GATKSamRecord to the MalformedReadFilter with the intent to make the read filter the ultimate validation location for sam records. This way we can opt to filter out malformed reads if we know what we are doing or blow up otherwise.		2011-10-21 17:40:43 -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	Validation of GATKSamRecord in read filters	2011-10-21 17:40:43 -04:00
test	Treat ./X genotypes as MIXED so that isHet, isHom, etc. still return the expected and correct values. Added docs to these accessors with contracts explicitly mentioned. Fixed case where NPE could be thrown.	2011-10-19 15:11:13 -04:00