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Biolucia

This is a prototype simulation engine for biological models. At the moment, it is very crude and intended for experimentation, not for production use.

Installation

(Thanks to Kevin Shi @xpspectre)

Windows

  1. Install Anaconda with Python 3.5 package.
  2. Make sure the right python and conda executables are on your path. I did the rest of this in the console emulator cmder.
  3. Make a new conda env: conda create --name biolucia numpy scipy matplotlib sympy
  4. Activate the new conda env: activate biolucia Make sure the python and pip executables point to the right ones.
  5. Install more packages: pip install aenum typing funcparserlib

Linux

It's the standard virtualenv and install from the following requirements.txt:

aenum==1.4.5
cycler==0.10.0
funcparserlib==0.3.6
matplotlib==1.5.1
mpmath==0.19
numpy==1.11.1
pyparsing==2.1.5
python-dateutil==2.5.3
pytz==2016.4
scipy==0.17.1
six==1.10.0
sympy==1.0
typing==3.5.2.2

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Prototype biological modeling toolbox

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