Questions in Simbilogy Please help me

I have couple of questions. I would be grateful if some can help me on those questions.

(1)Is it possible to have the simbiology model as .m file. I can see we can create SBML. But not as .m file. If possible please tell me how can I do that?

(2)I need to run the simbiology model using .m file without using the simbiology desktop. I need to extract the simbilogy results data to matlab workspace without using the simbiology desktop. How can I do that?

(3)Can we pause the simbilogy model between time step. If it is possible how can I do that?

Answer 1

[Arthur Goldsipe]

(1) I'm not sure what you need to do, but you can save a model to an .sbproj file via the desktop or the command line and then load it inside an .m file as follows:

project = sbioloadproject('filename.sbproj');
model = project.m1;

(2) After you follow the above steps, you can simulate the model in the .m file:

[time, species] = sbiosimulate(model);

(3) There's no easy way to pause the simulation between time steps, but you can do something similar by causing the simulation to end after a specified number of time steps. Here's how to stop after 20 time steps:

configset = model.getconfigset;
configset.MaximumNumberOfLogs = 20; 
[time, species] = sbiosimulate(model);