Mark DePristo 9cb3fe3a59 Vastly better way of doing on-demand genotyping loading ... -- With our GenotypesContext class we can naturally create a LazyGenotypesContext subclass that does the on-demand loading. -- This new class was replaced all of the old, complex functionality -- Better still, there were many cases were the genotypes were being loaded unnecessarily, resulting in efficiency. This was detected because some of the integration tests changed as the genotypes were no longer being parsing unnecessarily -- Misc. bug fixes throughout the system -- Bug fixes for PhaseByTransmission with new GenotypesContext		2011-11-20 08:23:09 -05:00
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net/sf	Removed annoying FastaSequenceIndexBuilderProgressListener infrastructure that was just a boolean switch on whether to print progress or not.	2011-07-27 22:06:23 -04:00
org/broadinstitute/sting	Vastly better way of doing on-demand genotyping loading	2011-11-20 08:23:09 -05:00