Docker Jupyter Container
This Jupyter Docker container is used by the Galaxy Project and can be installed from the docker.io index.
docker pull bgruening/docker-jupyter-notebookUsage
-
Build your own image and run it
Docker is a pre-requirement for this project. You can build the container with:
docker build -t jupyter-notebook .The build process can take some time, but if finished you can run your container with:
docker run -p 7777:8888 -i -t jupyter-notebookand you will have a running Jupyter Notebook instance on
http://localhost:7777/ipython/. -
Run a pre-build image from docker registry
docker run -p 7777:8888 bgruening/docker-jupyter-notebook
Environment Variables
Some environment variables are made available to the user which will allow for configuring the behaviour of individual instances.
| Variable | Use |
|---|---|
API_KEY |
Galaxy API Key with which to interface with Galaxy |
CORS_ORIGIN |
If the notebook is proxied, this is the URL the end-user will see when trying to access a notebook |
DEBUG |
Enable debugging mode, mostly for developers |
GALAXY_URL |
URL at which Galaxy is accessible |
GALAXY_WEB_PORT |
Port on which Galaxy is running, if applicable |
HISTORY_ID |
ID of current Galaxy History, used in easing the dataset upload/download process |
NOTEBOOK_PASSWORD |
Password with which to secure the notebook |
PROXY_PREFIX |
Prefix to URL which allows Galaxy proxy to share cookies with Galaxy itself. |
Authors
- Bjoern Gruening
- Helena Rasche
History
- v0.1: Initial public release
- with Julia, Bash, Python2/3, Ruby, Haskell and R kernels
Licence (MIT)
Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions:
The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software.
THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.