Chapter 4. Modeling Tutorial

This chapter is a simple modeling tutorial using E-Cell.

4.1. Running the model

All the examples in this section can be run by the following procedure.

  1. Create and save the model file (for example, simple-gillespie.em) with a text editor.

  2. Convert the EM file to an EML file by ecell3-em2eml command.

    $ ecell3-em2eml simple-gillespie.em

  3. Run it in GUI mode with gecell command.

    $ gecell -f simple-gillespie.eml
    or, in the script mode with ecell3-session command (see the following chapter):
    $ ecell3-session -f simple-gillespie.eml