├── ADFFiveParity.ipynb       - the five parity problem using Automatically Defined Functions
├── AntSimulator.ipynb        - copied straight from deap and run locally
├── App.ipynb                 - a discardable workbook based on an attempt to consolidate code into 'app'
├── Crossover.ipynb           - a breakdown of exactly how crossovers work
├── DeapFeatures.md           - documents all the main routines DEAP make available for Genetic Programming
├── Draw-Trees.ipynb          - a demonstration of drawing a graphic of a generated tree
├── DynamicADFFiveParity.ipynb - a template for nige to run the five parity problem with dynamic ADFs
├── Enter\ the\ Matrix.ipynb   - a demonstration of issues getting DEAP to work with matrices as ephemerals
├── FacesVerticesIntegrals.ipynb - a workbook to help build routines to resolve graphics:which faces are not obscured by others
├── FiveParity.ipynb          - example runs of the basic five parity problem
├── Integral.ipynb            - workbook for identifying issues in integral calculations
├── Integral2.ipynb           - workbook for identifying issues in integral calculations
├── LastJ.ipynb               - workbook to try and understand why `do` loops won't work (without a robot)
├── Mutate.ipynb              - early drawings of mutation
├── Playbook.ipynb            - early drawings of a grown tree
├── ProbablisticSelection.ipynb - workbook to expose probablistic selection algorithm
├── Pythagoras.ipynb          - successful evolution of pythagoras' theorem
├── PythagorasMatrix.ipynb    - successful evolution of pythagoras' theorem using a matix as the program input type
├── README.md                 - this file
├── The\ None\ Available\ Problem.ipynb - exposition of our very first problem growing trees with DEAP
├── Triangles.ipynb           - disposable workbook from trying to come up with a problem to solve involving 2D shapes
├── TwoADFFiveParity.ipynb    - successful evolution of the five parity problem using 2 non-dynamic adfs
├── TypedRandomADF.ipynb      - disposable workbook exposing the generation of adfs
├── ant_santafe_trail.txt     - data for the ant robot problem
├── app                       + DEAP based code which most of the notebooks are based upon
├── canobox                   + an early to attempt to use the 'canobox' python environment
├── deap                      + a copy of DEAP 1.1.0 or thereabouts modified for python3 and USED extensively throughout this project
├── geneticprogramming        + the last iteration of relatively stable code gathered into a module
├── headmesh                  + working copy of PETE's code used for the initial handover and orientation
├── if_then_else_for_but_stuff.ipynb  - workbook attempting loops
├── tests                     + unit tests for pieces of code scattered throughout. Many of the highlevel tests are copied into notebooks for nigels consumption
└── timesheet.md              - a frank daily account of time consumption

$ pip --version
pip 6.0.8 from /Users/johnmee/Code/nigel/venv/lib/python3.4/site-packages (python 3.4)

$ pip install ipython[notebook]
$ ipython notebook

$ brew install graphviz

$ git clone https://github.com/pygraphviz/pygraphviz.git
$ cd pygraphviz
$ python3 setup.py install

(venv)$ pip3 install networkx

%matplotlib inline

alabaster==0.7.4
astor==0.5
Babel==1.3
certifi==14.5.14
decorator==3.4.2
docutils==0.12
gnureadline==6.3.3
ipython==3.0.0
Jinja2==2.7.3
jsonschema==2.4.0
MarkupSafe==0.23
matplotlib==1.4.3
mistune==0.5.1
networkx==1.9.1
nose==1.3.4
numpy==1.9.2
Pillow==2.8.0
ptyprocess==0.4
Pygments==2.0.2
pygraphviz==1.3rc2
pyparsing==2.0.3
python-dateutil==2.4.2
pytz==2015.4
pyzmq==14.5.0
six==1.9.0
snowballstemmer==1.2.0
Sphinx==1.3.1
sphinx-rtd-theme==0.1.8
terminado==0.5
tornado==4.1