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Tommy Yu
Tommy Yu
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- From: jonathan.cooper at comlab.ox.ac.uk (Jonathan Cooper)
- Subject: [cellml-discussion] Looping Cell Cycle Models
- Date: Mon, 05 Jan 2009 12:10:05 +0000
On 28/12/08 22:11, Nicolas Le nov?re wrote:
> Catherine Lloyd wrote:
>
>> However, we now face a different problem... Although we can easily
>> describe the switches as piece-wise equations, if we define a single
>> variable more than once in a CellML model the simulation tools tell
>> us that the model is over constrained.
>>
>> For example in this case we already have a differential equation
>> describing the change in mass over time, and then we have a second
>> equation placing a condition on mass:
>
> No, no. Events are not assignment rules. In SBML as well, you could
> not have a rate rule and an assignment rule on mass. Events are
> discontinuous processes taking place in between simulation iterations.
> I think this is just a missing concept in CellML. It exists in
> simulators like XPP and GENESIS, used for neuronal simulations (e.g.
> to reset voltage in spiking neurons).
>
> (To be absolutely frank, the existence of events as part of the core
> SBML has been challenged many times. But I think we can now see why
> they are needed :-))
Indeed, I also think this is a missing feature in CellML, and perhaps
one that should be included in version 1.2? For the record, there has
been a tracker item created for this issue; see
https://tracker.physiomeproject.org/show_bug.cgi?id=1543
Jonathan
- [cellml-discussion] Looping Cell Cycle Models, Jonathan Cooper, 01/06/2009
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