[Camino-users] passage through membrane as value of permeability changes

[stefania oliviero]

Dear J.R.

thanks to your suggestion I read more carefully the file substrate.java, and I found that the rejection decision based on the probability value is in the function amend() ...

thank you so much


Stefania Oliviero

________________________________
Da: Jonathan Rafael Patiño <jonhrafe at gmail.com>
Inviato: lunedì 29 maggio 2017 13.48.43
A: stefania oliviero
Cc: camino-users
Oggetto: Re: [Camino-users] passage through membrane as value of permeability changes

Bonjour,

Do you mean this lines?: <inside public void update>

"     // check if step will cross a barrier
        try{
        crosses=crossesMembrane(walker, newStep, step, normal, d, stepMade, origLength, in, p, report, cylWriter);
        }
        catch(StepRejectedException sre){
        // reject if step is pathological
        return false;
        }

"

You can find them on Substrate.java, probably near the 365 line (I have made so many changes that who knows).

J.R.




J.R.

2017-05-29 12:47 GMT+02:00 stefania oliviero <stefania.oliviero at hotmail.it<mailto:stefania.oliviero at hotmail.it>>:

Dear all,

I'm implementing the Camino code in order to insert a new substrate type: SquashyInflammationSubstrate with myelinated cylinders. In my code each myelinated cylinder is represented by a pair of coaxial cylinders.  Two different  diffusion coeffiecients characterize intra-axonal space and myelin. This fact implies that the permeability of the axonal membrane is directional and depends on the diffusion coefficient at the starting point of the passage through the membrane.

My problem is that I do not find the function that determines whether a walker step actually crosses the membrane or not as the value of the permeability p changes ...

I need to find that funcion to implement the new kind of directional permeability (as a double[]).


Thanks a lot ....


Stefania Oliviero

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