Add security update funtionality, clean up

Author: keiranmraine

Dockerfile

@@ -7,13 +7,13 @@ ENV VER_CGPVCF="v2.2.1"
 ENV VER_VCFTOOLS="0.1.16"
 
 RUN apt-get -yq update
-RUN apt-get install -yq --no-install-recommends\
-  locales\
-  g++\
-  make\
-  gcc\
-  pkg-config\
-  zlib1g-dev
+RUN apt-get install -yq --no-install-recommends \
+locales \
+g++ \
+make \
+gcc \
+pkg-config \
+zlib1g-dev
 
 RUN locale-gen en_US.UTF-8
 RUN update-locale LANG=en_US.UTF-8
@@ -41,19 +41,23 @@ LABEL maintainer="cgphelp@sanger.ac.uk" \
       description="cgpPindel docker"
 
 RUN apt-get -yq update
-RUN apt-get install -yq --no-install-recommends\
-  apt-transport-https\
-  locales\
-  curl\
-  ca-certificates\
-  libperlio-gzip-perl\
-  bzip2\
-  psmisc\
-  time\
-  zlib1g\
-  liblzma5\
-  libncurses5\
-  p11-kit
+RUN apt-get install -yq --no-install-recommends \
+apt-transport-https \
+locales \
+curl \
+ca-certificates \
+libperlio-gzip-perl \
+bzip2 \
+psmisc \
+time \
+zlib1g \
+liblzma5 \
+libncurses5 \
+p11-kit \
+unattended-upgrades && \
+unattended-upgrade -d -v && \
+apt-get remove -yq unattended-upgrades && \
+apt-get autoremove -yq
 
 RUN locale-gen en_US.UTF-8
 RUN update-locale LANG=en_US.UTF-8