Run IPython inside Docker

####Includes:

• Pattern
• NLTK
• Pandas
• NumPy
• SciPy
• SymPy
• Cython
• Numba
• Biopython
• Rmagic
• Scikit-learn

####Instructions

1. Build Docker image using the using build script. This can take a long time, ~30mins. Luckily this step only has to done once(or whenever you change the Dockerfile).
2. Create and shell into new Docker container using shell script
3. Start IPython Notebook in the container using supervisord&
4. Point your brower to http://<your host name>:8888, default login password is 'password'

To run in background execute ./start [host_path] and host_path will be mounted as the notebook folder of ipython

In background or using supervisord the user ipy is used to run the ipython notebook. The /home/ipy/.python contains the configuration options that were copied from the profile_nbserver.

In order to remove password authentication, modify the configuration in this file by commenting out the line c.NotebookApp.password = u'sha1:01dc1e3ecfb8:cc539c4fcc2ef3d751e4a20d918f761fd6704798'

To change the password

1. Get your hashed password by executing in your python client the following:

In [1]: from IPython.lib import passwd
In [2]: passwd()
Enter password:
Verify password:

2. Replace the line in config file with c.NotebookApp.password = u'sha1:yourhashedpassword'

####Version Detail

>pip freeze

Bottleneck==0.7.0
Cython==0.19.2
Jinja2==2.7.1
MarkupSafe==0.18
Pattern==2.6
PyYAML==3.10
Pygments==1.6
argparse==1.2.1
beautifulsoup4==4.3.2
biopython==1.63
distribute==0.7.3
html5lib==0.99
ipython==1.1.0
llvmmath==0.1.1
llvmpy==0.11.2 # latest version pops a missing versioneer module 
lxml==2.3.2
matplotlib==1.3.1
medusa==0.5.4
meld3==0.6.5
networkx==1.8.1
nltk==2.0.4
nose==1.3.0
numba==0.11.0
numexpr==2.2.2
numpy==1.7.1
pandas==0.12.0
patsy==0.2.1
pymc==2.3
pyparsing==2.0.1
python-dateutil==2.2
pytz==2013.8
pyzmq==14.0.1
scipy==0.13.2
six==1.4.1
statsmodels==0.5.0
supervisor==3.0a8
sympy==0.7.4.1
tornado==3.1.1
wsgiref==0.1.2

Also includes 0MQ 4.0.3 and LLVM 3.2