runODE

Synopsis: Run / execute the ODE model and write out the simulation results.

Usage: python astools.py runODE [option]

where [option] can be

• odefile: Python ODE script file (in odescript folder) to run / execute.
• sampling: Sampling frequency. If 100, means only every 100th simulation result will be written out. The first (start) and last (end) result will always be written out. Default = 100.
• resultfile: Relative or absolute file path to write out simulation results. Default = 'oderesult.csv'

For example:

python astools.py runODE \
    --odefile=glycolysis.py \
    --sampling=500 \
    --resultfile=oderesult.csv

Working example:

D:\Dropbox\MyProjects\astoolkit>python astools.py runODE --odefile=glycolysis.py --sampling=500 --resultfile=oderesult.csv
Executing ODE model - glycolysis in odescript folder
Sampling: 500
Output simulation result file: D:\Dropbox\MyProjects\astoolkit\oderesult.csv