Merge pull request #109 from MetaCell/feature_jupyterhub

Jupyter Hub

Author: tarelli

jupyter_hub/Dockerfile_hub

@@ -0,0 +1,12 @@
+FROM jupyterhub/jupyterhub:latest
+
+# feature_jupyterhub
+ARG netpyneuiBranch=feature_jupyterhub 
+ENV netpyneuiBranch=${netpyneuiBranch}  
+RUN echo "$netpyneuiBranch";
+
+# Install authenticator and spawner + jupyter_client
+RUN pip install jupyterhub-tmpauthenticator dockerspawner jupyter_client
+
+# Overwrite jupyterhub_config
+RUN wget https://raw.githubusercontent.com/MetaCell/NetPyNE-UI/$netpyneuiBranch/jupyterhub/jupyterhub_config.py -q

jupyter_hub/Dockerfile_spawner

@@ -0,0 +1,30 @@
+FROM metacell/jupyter-neuron:latest
+
+USER root
+RUN conda install -c conda-forge nodejs configurable-http-proxy
+
+USER $NB_USER
+
+# feature_jupyterhub
+ARG netpyneuiBranch=feature_jupyterhub  
+ENV netpyneuiBranch=${netpyneuiBranch}  
+RUN echo "$netpyneuiBranch";
+
+ARG INCUBATOR_VER=unknown
+RUN /bin/bash -c "INCUBATOR_VER=${INCUBATOR_VER} source activate snakes && pip install jupyterhub==0.9.4"
+
+# Clone NetPyNE-UI and install the development version
+RUN wget https://github.com/MetaCell/NetPyNE-UI/archive/$netpyneuiBranch.zip -q
+RUN unzip $netpyneuiBranch.zip
+WORKDIR /home/jovyan/work/NetPyNE-UI-$netpyneuiBranch/utilities
+RUN /bin/bash -c "source activate snakes && python --version"
+RUN /bin/bash -c "source activate snakes && exec python install.py branch $netpyneuiBranch"
+WORKDIR /home/jovyan
+RUN git clone https://github.com/Neurosim-lab/netpyne_workspace
+WORKDIR /home/jovyan/netpyne_workspace
+RUN ln -sfn /home/jovyan/work/NetPyNE-UI-$netpyneuiBranch/netpyne_ui/tests tests
+
+# Copy jupyterhub_config
+# RUN cp /home/jovyan/work/NetPyNE-UI-$netpyneuiBranch/jupyterhub_config.py .
+
+CMD /bin/bash -c "source activate snakes && exec jupyterhub-singleuser --debug --NotebookApp.default_url=/geppetto --NotebookApp.token='' --library=netpyne_ui"

jupyter_hub/jupyterhub_config.py

@@ -0,0 +1,38 @@
+## Class for authenticating users.
+#  
+#  This should be a class with the following form:
+#  
+#  - constructor takes one kwarg: `config`, the IPython config object.
+#  
+#  with an authenticate method that:
+#  _class
+#  - is a coroutine (asyncio or tornado)
+#  - returns username on success, None on failure
+#  - takes two arguments: (handler, data),
+#    where `handler` is the calling web.RequestHandler,
+#    and `data` is the POST form data from the login page.
+#c.JupyterHub.authenticator_class = 'jupyterhub.auth.PAMAuthenticator'
+# c.JupyterHub.authenticator_class = 'dummyauthenticator.DummyAuthenticator'
+# c.DummyAuthenticator.password = "dummypassword"
+c.JupyterHub.authenticator_class = 'tmpauthenticator.TmpAuthenticator'
+
+## The class to use for spawning single-user servers.
+#  
+#  Should be a subclass of Spawner.
+#c.JupyterHub.spawner_class = 'jupyterhub.spawner.LocalProcessSpawner'
+c.JupyterHub.spawner_class = 'dockerspawner.DockerSpawner'
+from jupyter_client.localinterfaces import public_ips
+ip = public_ips()[0]
+c.JupyterHub.hub_ip = ip
+c.DockerSpawner.image = 'netpyne_ui_jupyterspawner'
+c.DockerSpawner.remove_containers = True
+c.DockerSpawner.remove = True
+c.DockerSpawner.debug = True
+c.DockerSpawner.network_name='jupyterhub_network'
+
+## Extra arguments to be passed to the single-user server. Only works for the LocalProcessSpawner
+#  
+#  Some spawners allow shell-style expansion here, allowing you to use
+#  environment variables here. Most, including the default, do not. Consult the
+#  documentation for your spawner to verify!
+# c.Spawner.args = ['--library=netpyne_ui', '--NotebookApp.default_url=/geppetto', '--NotebookApp.token=''']

utilities/GeppettoConfiguration.json

@@ -1,6 +1,6 @@
 {
     "_README" : "http://docs.geppetto.org/en/latest/build.html",
-    "contextPath": "org.geppetto.frontend",
+    "contextPath": "org.geppetto.frontend/",
     "useSsl": false,
     "embedded": false,
     "embedderURL": ["/"],