Add Dockerfile

Dockerfile

@@ -0,0 +1,49 @@
+#
+# A Dockerfile to get RUFUS running
+#
+
+# GCC 4.9 only available up to 16.04
+FROM ubuntu:16.04
+
+ARG DEBIAN_FRONTEND=noninteractive 
+
+COPY . /RUFUS
+
+RUN set -ex; \
+# Dependencies
+	BUILD_DEPS="cmake build-essential g++-4.9 zlib1g-dev libbz2-dev libbz2-dev liblzma-dev libncurses5-dev"; \
+	apt-get update; \
+	apt-get install -y software-properties-common; \
+	add-apt-repository ppa:ubuntu-toolchain-r/test; \
+	apt-get install -y python wget git bc libgomp1 $BUILD_DEPS; \
+# Build
+	mkdir -p /RUFUS/bin; \
+	cd /RUFUS/bin; \
+	cmake ../ -DCMAKE_C_COMPILER=$(which gcc) -DCMAKE_CXX_COMPILER=$(which g++); \
+	make; \
+# Cleanup
+	apt-get purge -y --auto-remove $BUILD_DEPS; \
+	apt-get clean; \
+	echo done
+
+# Runtime tools
+
+# Setup samtools 1.11
+RUN set -ex; \
+	BUILD_DEPS="cmake build-essential libncurses5-dev zlib1g-dev libbz2-dev libbz2-dev liblzma-dev"; \
+	apt-get install -y $BUILD_DEPS; \
+# Get samtools and build it
+	cd /; \
+	wget https://github.com/samtools/samtools/releases/download/1.11/samtools-1.11.tar.bz2; \
+	tar -xjf samtools-1.11.tar.bz2; \
+	cd samtools*; \
+	./configure; \
+	make; \
+	make install; \
+	cd /; \
+	rm -rf samtools*; \
+# Cleanup
+	apt-get purge -y --auto-remove $BUILD_DEPS; \
+	apt-get clean; \
+	echo done
+

README.md

@@ -23,6 +23,13 @@ __Note:__ RUFUS is only supported on linux environments.
 
 ## Installing RUFUS
 
+### With Docker
+Build the Dockerfile using Docker.
+```
+docker build -t rufus .
+```
+
+### Manually
  **1) Download**
 ```
 git clone https://github.com/jandrewrfarrell/RUFUS.git

src/RUFUS.interpret.cpp

@@ -1080,7 +1080,7 @@ string SamRead::createStructGenotype(int spot)
 	{
 		ss <<"\t" << ShittyGenotyper(ParAlt[i], ParRef[i]) << ":" << ParAlt[i]+ParRef[i] << ":" << ParRef[i] << ":" << ParAlt[i];
 	}
-	cout << "returning " << ss << endl;
+	cout << "returning " << ss.str() << endl;
 	return ss.str(); 
 } 
 int SamRead::BreakPoint()