Setting multicore usage=1 because problematic starting in R 3.1.1
Making color an argument to plot clusters.
Clarifying multicore limiting.
Fixing error in template file.
Updating documentation.
Merge branch 'master' into continuousModel

Conflicts:
	man/citrus.buildEndpointModel.Rd
	man/citrus.generateRegularizationThresholds.Rd
	man/citrus.thresholdCVs.Rd