Merge 2893567 into a983478

.dockerignore

@@ -0,0 +1,9 @@
+.git
+.gitignore
+LICENSE
+*.txt
+*.csv
+*.zip
+*.swp
+!requirements.txt
+experiments

Dockerfile

@@ -0,0 +1,45 @@
+FROM nvidia/cuda:cudnn-runtime
+
+MAINTAINER Tim O'Donnell <timodonnell@gmail.com>
+
+RUN echo 'debconf debconf/frontend select Noninteractive' | debconf-set-selections && \
+    apt-get update && \
+    apt-get install --yes \
+        python3-dev python-dev \
+        python-virtualenv \
+        libblas-dev \
+        liblapack-dev \
+        gfortran \
+        libhdf5-serial-dev \
+        libyaml-dev \
+        libzmq3-dev \
+        libfreetype6-dev \
+        libpng12-dev \
+        pkg-config && \
+    apt-get clean && \
+    useradd --create-home --home-dir /home/user --shell /bin/bash user
+
+# Set the locale (otherwise dask-distributed complains).
+RUN locale-gen en_US.UTF-8
+ENV LANG en_US.UTF-8 
+ENV LANGUAGE en_US:en
+ENV LC_ALL en_US.UTF-8
+
+USER user
+ENV HOME=/home/user
+ENV SHELL=/bin/bash
+ENV USER=user
+WORKDIR /home/user
+
+# Setup virtual envs and install convenience packages.
+RUN virtualenv venv-py3 --python=python3 && \
+    venv-py3/bin/pip install distributed jupyter seaborn && \
+    virtualenv venv-py2 --python=python && \
+    venv-py2/bin/pip install distributed jupyter seaborn
+
+# Install mhcflurry.
+COPY . ./mhcflurry
+RUN venv-py3/bin/pip install ./mhcflurry && venv-py2/bin/pip install ./mhcflurry
+ 
+EXPOSE 8888
+CMD venv-py3/bin/jupyter notebook --no-browser

requirements.txt

@@ -2,10 +2,10 @@ numpy>= 1.11
 pandas>=0.13.1
 appdirs
 theano>=0.8.2
-keras<1.0
+keras
 h5py
 cherrypy
 bottle
 fancyimpute>=0.0.12
 scikit-learn
-typechecks
+typechecks