Added final data pieces to Dockerfile. This image is so big, however, that I need time to push it to Dockerhub

fixed bug that left a duplicate column. this is apparently ignored by some ggplot2 versions, but raises an error in the Singularity version

Fixing two relevant issues: chrX occurred twice. And default values from Snake.config.json must be overwritten, otherwise they are used

This fixes issue #1022 of Snakemake (https://bitbucket.org/snakemake/snakemake/issues/1022)