Setup Jupyter Python Notebooks
Jupyter Notebooks are a web application that allows creating and sharing documents that contain live (python) code, equations, visualizations and explanatory text. It is an ideal vehicle to distribute worksheets with equation derivations and graphs and can even contain interactive elements.
MOOSE comes bundled with a miniconda install. To install additional python modules such as the python based Jupyter system it is suggested to create a custom conda environment
conda create -n jupyter --clone=/opt/moose/miniconda
The new environment needs to be activated and the necessary python packages installed
source activate jupyter conda install jupyter sympy
Running the Notebook server
In the directory in which the notebook files are to be stored execute
A browser window sould open with a list of notebooks (
*.ipynb files) and a few UI elements.
Starting a new notebook
From the _New_ dropdown in the top right select _Python 2_ under _Notebooks_. A new browser tab with an empty notebook should open.
Start by importing sympy in
In : and enabling LaTeX rendering for equations.
from sympy import * from sympy import init_printing init_printing(use_latex=True)
Next define a few variables and a function (for which we only declare an argument but not an implementation yet)
c, eta = symbols("c eta") h = Function("h")(eta)
Now lets define an expression
f using these components
f = h*c**2 + (1-h)*(1-c)**2 f
f on the second line causes the expression to be printed in
Out :. We can now build a few symbolic deriuvatives of the expression
f with respect to
(diff(f, c), diff(f,eta))
This should yield
Enabling and disabling the environment
To switch back and forth between the pristine MOOSE miniconda environment the
jupyter environment use the following commands
source activate jupyter ``` ```bash source deactivate jupyter