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iPython Notebooks

Dockerized iPython Notebooks used for analysis, experimentation, evaluation and prototyping.

Setup an iPython Notebook

All notebooks run inside of a docker container. Installation on linux is pretty easy, just follow instructions up on docker.io. For OSX you need to install additionally a virtual Docker engine:

Then, clone the repository

go to the iPython notebook directory and run Docker.

Running

The bin directory contains scripts for Docker and iPython Notebook. Use the "-h" flag to see usage details.

  • docker-build builds the Docker container image
  • docker-start runs the Docker container (and iPython Notebook or shell)
  • bin/ipython start the iPython notebook (called from bin/docker-start)

Problems

While build process: No space left on device

You've created millions of images and containers, and now your disk is at 100%.

Solution: You can remove not needed containers and images by docker rm <container_id> and docker rmi <image_id>. Or if you would like to start from scratch:

  • remove all containers: docker ps -a | awk '{print $1}' | xargs docker rm

  • remove all images: docker images | awk '{print $3}' | xargs docker rmi

Issues with boot2docker

Can't Start Docker Container

$ ./bin/docker-start
Starting with mounting the local directory 'analysis' into the container as '/srv/analysis' with ports '8181:8888' and executing 'bin/ipython'
2014/11/03 11:05:58 Post http:///var/run/docker.sock/v1.15/containers/create: dial unix /var/run/docker.sock: no such file or directory

Docker is unaware of the VM that boot2docker has setup.

Solution: Restart boot2docker:

$ boot2docker down
$ boot2docker up

<snip>
To connect the Docker client to the Docker daemon, please set:
    export DOCKER_HOST=tcp://192.168.59.103:2376
    export DOCKER_CERT_PATH=/Users/josh/.boot2docker/certs/boot2docker-vm
    export DOCKER_TLS_VERIFY=1

Copy-and-paste the environment variables printed by boot2docker and run docker-start again.

Can't Start boot2docker after Restart

The docker container cannot be started and starting boot2docker gives the following output:

boot2docker up
error in run: Failed to start machine "boot2docker-vm": exit status 1

Following stackoverflow, the reason is "VirtualBox is trying to be smart and "saves" the vm, which is a state boot2docker doesn't seem able to gracefully recover from."

Solution: Power-down the vm in the VirtualBox and then run boot2docker up.