.gitignore

@@ -33,3 +33,6 @@ run-all-tests*
 src/snp-sites
 tests/.deps/*
 tests/.dirstamp
+# vagrant runtime stuff
+.vagrant
+ubuntu-*-cloudimg-console.log

Dockerfile

@@ -6,7 +6,7 @@ FROM debian:testing
 #
 #  Authorship
 #
-MAINTAINER ap13@sanger.ac.uk
+MAINTAINER path-help@sanger.ac.uk
 
 #
 # Pull in packages from testing
@@ -14,6 +14,6 @@ MAINTAINER ap13@sanger.ac.uk
 RUN apt-get update -qq
 
 #
-# Install Roary
+# Install SNP-sites
 #
-RUN apt-get install snp-sites
+RUN apt-get -y install snp-sites

README.md

@@ -4,6 +4,11 @@ Rapidly extracts SNPs from a multi-FASTA alignment.
 [![Build Status](https://travis-ci.org/sanger-pathogens/snp-sites.png?branch=master)](https://travis-ci.org/sanger-pathogens/snp-sites)   
 [![License: GPL v3](https://img.shields.io/badge/License-GPL%20v3-brightgreen.svg)](https://github.com/sanger-pathogens/snp-sites/blob/master/LICENSE)   
 [![status](https://img.shields.io/badge/MGEN-10.1099%2Fmgen.0.000056-brightgreen.svg)](http://mgen.microbiologyresearch.org/content/journal/mgen/10.1099/mgen.0.000056)   
+[![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg)](http://bioconda.github.io/recipes/gubbins/README.html)  
+[![Container ready](https://img.shields.io/badge/container-ready-brightgreen.svg)](https://quay.io/repository/biocontainers/gubbins)  
+[![Docker Build Status](https://img.shields.io/docker/build/sangerpathogens/gubbins.svg)](https://hub.docker.com/r/sangerpathogens/gubbins)  
+[![Docker Pulls](https://img.shields.io/docker/pulls/sangerpathogens/gubbins.svg)](https://hub.docker.com/r/sangerpathogens/gubbins)  
+
 
 ## Contents
 * [Introduction](#introduction)

VERSION

-2.4.0
+2.4.1

_config.yml

+theme: jekyll-theme-cayman
\ No newline at end of file

debian/changelog

+snp-sites (2.4.1-1) unstable; urgency=medium
+
+  * New upstream release.
+
+ -- Sascha Steinbiss <satta@debian.org>  Sat, 06 Oct 2018 17:54:44 +0200
+
 snp-sites (2.4.0-1) unstable; urgency=medium
 
   * New upstream version.