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Ok, I understand. I used to do what you suggest (jarnac still does), but decided recently in the interest of compatiblity to conform to the sbml spec.

I know there are a number of simulators which support events, the ones I know include:

Oscill8
Copasi
SBMLSolver
MathSBML

And there are probably others. The authors of these tools must have the same problem and I would therefore be very interested to learn how they got round the issue. Eg do they permit local parameters? Do they not support events using local parameters etc.

Herbert Sauro

-----Original Message-----
From: Nicolas Le Novère [mailto:lenov@ebi.ac.uk]
Sent: Monday, October 03, 2005 3:20 PM
To: SBML Discussion List
Subject: RE: [sbml-discuss] Event assignment semantics

local parameters within reactions may not have the same ID as any global parameter. Therefore, an SBML import tool can easely write a list of all parameters. Your solution with the prefixes gets to the same point, but doesn't solve some other problems.

>
> I remember the discussions but not the outcome. Could you clarrify
> what you mean by using the same namespace?
>
> I'd be grateful for any useful input here.
>
> Herbert
>
> -----Original Message-----
> From: Nicolas Le Novère [mailto:lenov@ebi.ac.uk]
> Sent: Monday, October 03, 2005 2:26 PM
> To: SBML Discussion List
> Subject: Re: [sbml-discuss] Event assignment semantics
>
>
>> How does one access a local reaction parameter from an event assignment?
>>
>>
>> As far as I can tell there is no way to do this. The only solution I
>> can think of is to move all local parameters to the global space
>> (prefixed by the reaction id).
>
> Or to put all the parameters in the same namespace, suppressing the
> deadly, misleading, and generally useless, overiding. Cf. the series
> of threads "Global Vs. local parameters" we had this summer.
>
>
> --
> Nicolas LE NOVÈRE, Computational Neurobiology, EMBL-EBI,
> Wellcome-Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
> Tel: +44(0)1223 494 521, Fax: +44(0)1223 494 468, Mob:
> +33(0)689218676 http://www.ebi.ac.uk/~lenov
>
>
>
>


--
Nicolas LE NOVÈRE, Computational Neurobiology, EMBL-EBI, Wellcome-Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, UK
Tel: +44(0)1223 494 521, Fax: +44(0)1223 494 468, Mob: +33(0)689218676 http://www.ebi.ac.uk/~lenov