Added Dockerfile

Author: richardmleggett

.gitignore

@@ -4,3 +4,5 @@ manifest.mf
 nbproject
 dist/README.TXT
 
+
+install-packages.R

Dockerfile

@@ -0,0 +1,24 @@
+# NanoOK Dockerfile
+FROM ubuntu:14.04
+MAINTAINER Richard Leggett <[email protected]>
+
+RUN echo "deb http://cran.cnr.berkeley.edu/bin/linux/ubuntu trusty/" >> /etc/apt/sources.list
+RUN apt-get update
+RUN apt-get install -y --force-yes r-base
+RUN apt-get install -y --force-yes r-cran-ggplot2
+RUN apt-get install -y hdf5-tools
+RUN apt-get install -y texlive
+RUN apt-get install -y texlive-latex-extra
+RUN apt-get install -y default-jre
+RUN apt-get install -y git
+ADD http://last.cbrc.jp/last-761.zip /usr/
+RUN cd /usr ; unzip last-761 ; cd last-761 ; make ; make install
+RUN cd /usr ; git clone https://github.com/lh3/bwa.git
+RUN cd /usr/bwa ; make ; cp bwa /usr/local/bin
+RUN cd /usr ; git clone https://github.com/TGAC/NanoOK
+ENV NANOOK_DIR="/usr/NanoOK"
+RUN echo "export PATH=/usr/NanoOK/bin:${PATH}" >> ~/.bashrc
+RUN Rscript -e "install.packages('ggplot2', repos='https://cran.ma.imperial.ac.uk/')"
+RUN Rscript -e "install.packages('scales', repos='https://cran.ma.imperial.ac.uk/')"
+RUN Rscript -e "install.packages('gridExtra', repos='https://cran.ma.imperial.ac.uk/')"
+RUN Rscript -e "install.packages('reshape', repos='https://cran.ma.imperial.ac.uk/')"