[ARVADOS] created: 96732928535a2eedd40843fbe86fc90eef03f9fe

[git at public.curoverse.com]

        at  96732928535a2eedd40843fbe86fc90eef03f9fe (commit)


commit 96732928535a2eedd40843fbe86fc90eef03f9fe
Author: Peter Amstutz <peter.amstutz at curoverse.com>
Date:   Wed Jul 23 11:04:42 2014 -0400

    Minimal dockerfile for installing python SDK on top of existing image

diff --git a/docker/bcbio-nextgen/Dockerfile b/docker/bcbio-nextgen/Dockerfile
index 8f6e774..e584a55 100644
--- a/docker/bcbio-nextgen/Dockerfile
+++ b/docker/bcbio-nextgen/Dockerfile
@@ -4,44 +4,19 @@
 #
 # $ git clone https://github.com/chapmanb/bcbio-nextgen.git
 # $ cd bcbio-nextgen
-# $ docker build
+# $ docker build .
 # $ docker tag <image> bcbio-nextgen
 #
 
 FROM bcbio-nextgen
 MAINTAINER Peter Amstutz <peter.amstutz at curoverse.com>
 
-USER root
-
-# 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 at global
-ENV PATH /usr/local/rvm/gems/ruby-2.1.0/bin:/usr/local/rvm/gems/ruby-2.1.0 at 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 && \
-    /usr/bin/apt-get install --quiet --assume-yes python-dev python-llfuse python-pip \
-      libio-socket-ssl-perl libjson-perl liburi-perl libwww-perl \
-      fuse libattr1-dev libfuse-dev && \
-    /usr/sbin/adduser --disabled-password \
+# Set up system and Install dependencies
+RUN /usr/sbin/adduser --disabled-password \
       --gecos 'Crunch execution user' crunch && \
-    /usr/bin/install --directory --owner=crunch --group=crunch --mode=0700 /keep /tmp/crunch-src /tmp/crunch-job && \
-    /bin/ln -s /usr/src/arvados /usr/local/src/arvados
+    /usr/bin/install --directory --owner=crunch --group=crunch --mode=0700 /keep /tmp/crunch-src /tmp/crunch-job
 
 # Install Arvados packages.
-RUN gem update --system && \
-    find /usr/src/arvados/sdk -name '*.gem' -print0 | \
-      xargs -0rn 1 gem install && \
-    cd /usr/src/arvados/services/fuse && \
-    python setup.py install && \
-    cd /usr/src/arvados/sdk/python && \
-    python setup.py install
+RUN /usr/local/share/bcbio-nextgen/anaconda/bin/pip install arvados-python-client
 
 USER crunch

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