added error message to clumpp.run if CLUMPP doesn't output a file
removed all parameters but na.strings from read.gen.data and hardcoded colClasses and stringsAsFactors
Changed label.haplotypes to speed it up if there are no indels.
Changed the way some package data was referenced to avoid CHECK notes.
Fixed label.haplotypes to use pairwise comparisons if Ns were present
Review help documentation and format consistently
Add simple example scripts