This provides pure Python libraries (Miscellaneous utility functions) for E-Cell System version 4.

You can try this package online with Google Colaboratory. Please refer to the https://github.com/ecell/ecell4_docs

Here are 3 extremely simple examples, See https://github.com/ecell/ecell4_docs or http://ecell4.readthedocs.org for more details.

(base) root@5e5b25d2363d:~# python
Python 3.7.3 (default, Mar 27 2019, 22:11:17)
[GCC 7.3.0] :: Anaconda, Inc. on linux
Type "help", "copyright", "credits" or "license" for more information.
>>> from ecell4_base.core import *
>>> sp = Species("A.B.C")
>>> sp.serial()
'A.B.C'
>>>

Run this with Jupyter Notebook

%matplotlib inline
from ecell4 import *

with reaction_rules():
    A + B == C | (0.01, 0.3)

run_simulation(10, {'A': 60, 'B': 60})

Run this with Jupyter Notebook

%matplotlib inline
from ecell4_base.core import *
from ecell4 import *

with species_attributes():
    M | {'dimension': 2}
    A | {'D': 1.0, 'location': 'M'}

surface = Sphere(ones() * 0.5, 0.49).surface()
obs = FixedIntervalTrajectoryObserver(1e-4)
run_simulation(
    0.4, y0={'A': 10}, structures={'M': surface},
    solver='spatiocyte', observers=obs, return_type=None)

viz.plot_trajectory(obs, interactive=False)

E-Cell4 does not support Python2.

E-Cell4 does not support pip install on Windows and Mac.

Install Miniconda with Python 3.7 for 64-bit (from https://docs.conda.io/en/latest/miniconda.html) and run this command on Anaconda Prompt.

conda install -c ecell ecell4

Install Miniconda with Python 3.7 for 64-bit (from https://docs.conda.io/en/latest/miniconda.html) and run these commands on your Terminal app.

conda config --add channels conda-forge
conda install -c ecell ecell4

python3 -m pip install ecell4

https://ecell4.readthedocs.io/en/latest/