+# Install Arvados SDK into bcbio-nextgen Docker image.
+#
+# To build bcbio-nextgen:
+#
+# $ git clone https://github.com/chapmanb/bcbio-nextgen.git
+# $ cd bcbio-nextgen
+# $ docker build
+# $ docker tag <image> bcbio-nextgen
+#
+
FROM bcbio-nextgen
MAINTAINER Peter Amstutz <peter.amstutz@curoverse.com>
USER root
-ADD generated/arvados.tar.gz /usr/src/arvados/
-ENV GEM_HOME /usr/local/rvm/gems/ruby-2.1.0
-ENV GEM_PATH /usr/local/rvm/gems/ruby-2.1.0:/usr/local/rvm/gems/ruby-2.1.0@global
-ENV PATH /usr/local/rvm/gems/ruby-2.1.0/bin:/usr/local/rvm/gems/ruby-2.1.0@global/bin:/usr/local/rvm/rubies/ruby-2.1.0/bin:/usr/local/rvm/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
-
# Install Ruby 2.1.0
RUN apt-get remove --quiet --assume-yes ruby && \
curl -L https://get.rvm.io | bash -s stable && \
/usr/local/rvm/bin/rvm install 2.1.0 && \
/bin/mkdir -p /usr/src/arvados
+ADD generated/arvados.tar.gz /usr/src/arvados/
+ENV GEM_HOME /usr/local/rvm/gems/ruby-2.1.0
+ENV GEM_PATH /usr/local/rvm/gems/ruby-2.1.0:/usr/local/rvm/gems/ruby-2.1.0@global
+ENV PATH /usr/local/rvm/gems/ruby-2.1.0/bin:/usr/local/rvm/gems/ruby-2.1.0@global/bin:/usr/local/rvm/rubies/ruby-2.1.0/bin:/usr/local/rvm/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin
+
# Install dependencies and set up system.
# The FUSE packages help ensure that we can install the Python SDK (arv-mount).
RUN /usr/bin/apt-get update && \