Printing sample and allele info

Playing around with printing of allele and sample info. Works great.
Merge pull request #320 from harmjanwestra/master

Made a mistake in setting the maxNrMostSignificantEQTLs
ASE error handeling
VCF reader bug fix, exception when get samples on file with no samples
Updated pom version dependancies
- Generalization of the Interaction analysis code
Some final tweaks
console tweaks
output tweaks
Fix in the interaction model
Fix in the conditional analysis, moved resetting the maxNrMostSignificantEQTLs to the function that determines the SNP-probe combos, so it gets reset every time the function is called (happens in classes extending MetaQTL3)
Prevent memory issues with very large eQTL mapping analyses
Changes in TextFile
Maf setting commandline
Additional fileformat option in Valid SNP-Probe combination maker
fix
Merge pull request #321 from Bonder-MJ/master

Updates
tweak in normalization
Merge branch 'master' of https://github.com/molgenis/systemsgenetics
Added Mach R2 measure calculator to Genotype IO