sjn get annovar update 

#------------------ Variant Annotation & Reports -------------------------
# + ANNOVAR (see licence, and registration)
# Available on reg:  http://www.openbioinformatics.org/annovar/download/Ht8qRwQSTi/annovar.latest.tar.gz
# hmmm... no version on tar.
ADD annovar.latest.tar.gz /usr/local/pipeline/
RUN tar xvf /usr/local/pipeline/annovar.latest.tar.gz
RUN cd /usr/local/pipeline/annovar 
RUN mv table_annovar.pl table_annovar.pl.original
# get updated table_annovar.pl
RUN wget http://www.openbioinformatics.org/annovar/download/table_annovar.pl
RUN chown -R pipeman:ngsgroup /usr/local/pipeline/annovar \
    && sed -i '$aPATH=${PATH}:/usr/local/pipeline/annovar' /home/pipeman/.bashrc

# TO Do : ADD scripts to then dowload ANNOVAR DATABASES
# Alternative is mount annovar database from local machine -- prefer this option