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On 25/06/10 22:56, Lucian Smith wrote:
> * Nicolas Le novère<lenov@ebi.ac.uk> [2010-06-25 22:27] writes:
>> On 25/06/10 18:09, Stefan Hoops wrote:

>> I agree with Stefan. The situation is very similar to the unit one. If
>> priorities are used, they must be used on all events. If a single event
>> misses a priority, then all the other priorities are ignored. The
>> priorities do no matter at all. People are free to do whatever they want
>> with the events.
>
> I don't think this is quite what Stefan was saying (though maybe it was!)
> but I disagree. You put priorities on the events that might clash. You
> leave the rest alone. I don't understand why this is even controversial.

Yes, this is what Stefan was saying. And the discussion clearly show that
this is controversial.

>> I do not see any advantage at all in mixed situations. And actually, I
>> cannot imagine how such a model would be generated since SBML is supposed
>> to be written by a software. Either this software generates priorities, for
>> all events, or not.
>
> Priorities are added, as I see it, by hand. I cannot envision any
> algorithm that generates priorities automatically for all events, unless
> it is to give them all the same priority in order to ensure randomness.

I am not talking about algorithm. I am talking about tools. You add the
priority by hand IN YOUR TOOL. Then your tool writes the SBML.

> But whenever two priorities differ and were not randomly generated, the
> reason it was so is due to a specific decision on the part of the modeler.
> A decision that need not be made for all events, just the ones whose
> EventAssignments might clash in some fashion.

But all eventAssignment can potentially clash, except the one that are
triggered and fired at explicit times. Actually finding events that cannot
clash in a complex model would be an interesting research project.

--
Nicolas LE NOVERE, Computational Neurobiology, EMBL-EBI, Wellcome-Trust
Genome Campus, Hinxton CB101SD UK, Mob:+447833147074, Tel:+441223494521
Fax:468,Skype:n.lenovere,AIM:nlenovere,MSN:nlenovere@hotmail.com(NOT email)
http://www.ebi.ac.uk/~lenov/, http://www.ebi.ac.uk/compneur/, @lenovere


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