Add Docker file (#505)

* Add docker support

* Add readme

* minor fixes

.dockerignore

@@ -0,0 +1,5 @@
+bin
+client
+dist
+docs
+server

.travis.yml

@@ -11,6 +11,7 @@ install:
   - ./bin/build-client
   - pip install -e .
   - pip install -r server/requirements-dev.txt
+  - docker build .
 script:
   - set -eo pipefail
   - flake8 server/app/

Dockerfile

@@ -0,0 +1,10 @@
+FROM ubuntu:bionic
+
+ENV LC_ALL=C.UTF-8
+ENV LANG=C.UTF-8
+
+RUN apt-get update && \
+    apt-get install -y build-essential libxml2-dev python3-dev python3-pip zlib1g-dev && \
+    pip3 install cellxgene
+
+ENTRYPOINT ["cellxgene"]

README.md

@@ -114,6 +114,15 @@ source ${ENV_NAME}/bin/activate
 pip install cellxgene
 ```
 
+## docker
+
+We have included a dockerfile to conveniently run cellxgene from docker. 
+
+1. Build the  image `docker build . -t cellxgene`
+2. Run the container and mount data `docker run -v "$PWD/example-dataset/:/data/" -p 5005:5005 cellxgene launch --host 0.0.0.0 data/pbmc3k.h5ad`
+    * You will need to use --host 0.0.0.0 to have the container listen to incoming requests from the browser
+
+
 ## FAQ
 
 <details>

server/requirements.txt

@@ -11,4 +11,4 @@ numpy>=1.14.5
 pandas>=0.23.1
 scanpy>=1.3.2
 scipy>=1.1.0
-scikit-learn>=0.20.1
+scikit-learn>=0.19.1,!=0.20.0