Merge pull request #137 from andrewjpage/docker

Docker installation

Dockerfile

@@ -0,0 +1,19 @@
+#
+# This container will install ARIBA from master
+#
+FROM debian:testing
+
+#
+#  Authorship
+#
+MAINTAINER [email protected]
+
+#
+# Install the dependancies
+#
+RUN apt-get update -qq && apt-get install -y git bowtie2 cd-hit fastaq libc6 libfml0 libgcc1 libminimap0 libstdc++6 mash mummer python3 python3-setuptools python3-dev python3-pysam python3-pymummer python3-dendropy gcc g++ zlib1g-dev 
+
+#
+# Get the latest code from github and install
+#
+RUN git clone https://github.com/sanger-pathogens/ariba.git && cd ariba && python3 setup.py install

README.md

@@ -45,6 +45,21 @@ If the tests all pass, install:
 
     python3 setup.py install
 
+### Docker
+ARIBA can be run in a Docker container. First of all install Docker, then to install ARIBA run:
+
+    docker pull sangerpathogens/ariba
+
+To use ARIBA you would use a command such as this (substituting in your directories), where your files are assumed to be stored in /home/ubuntu/data:
+
+    docker run --rm -it -v /home/ubuntu/data:/data sangerpathogens/ariba ariba -h
+
+
+### Debian (testing)
+ARIBA is available in the latest version of Debian, and over time will progressively filter through to Ubuntu and other distributions which use Debian. To install it as root:
+
+    sudo apt-get install ariba
+
 
 ### Dependencies and environment variables