RE: Proposal: simple mechanism for referencing rate laws
21 Jul '05 14:52
From: Nicolas Le Novère [mailto:firstname.lastname@example.org]
Sent: Thursday, July 21, 2005 1:43 PM
To: SBML Discussion List
Subject: RE: [sbml-discuss] Proposal: simple mechanism for referencing rate laws
> The problem I have with local parameters is that in scripting
> languages such as matlab or jarnac (even jdesigner for that
> matter) one has to prefix the names with the reaction name since these
> languages don't have the concept of local rate constants.
>Fine. This is a tool problem, not an SBML one.
You're right, but it is a real pain. Hence the move to global parameters, it eliminates the problem altogether. Don't know why I didn't do it before.
>Hold-on. There is no rule in SBML that says you have to conserve IDs.
>Therefore, you can rewrite all the parameter ids from scratch each time.
>That solve the problem of incremental increase of the size.
Some of us get models from different sources other than SBML, yes there are other ways to represent models, and I don't see why SBML has be be dealt with as a special case.
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