Re: [cellml-discussion] removal of reaction components from models

2007-05-17 Thread James Lawson
Andrew Miller wrote: Have you actually looked at what exactly is happening? Is this an overflow where quantities are getting so big they go to infinity because you have a loop which doesn't have any self-regulation? Hi Andrew, Yes, I have looked at what's happening. In some cases the

[cellml-discussion] removal of reaction components from models

2007-05-16 Thread James Lawson
Dear All, This email is aimed at anyone who has comments, but we particularly want to draw Matt's attention. In the CellML meeting yesterday I brought up the issue of replacement of reaction components with straight math. At present PCEnv isn't handling reaction components well - models which

Re: [cellml-discussion] removal of reaction components from models

2007-05-16 Thread Matt
Hi, First off ... Horray for the demise of the reaction element. From your description, the script of Andrew's pulls apart the components and adds in the formerly implicit rate*stoichiometry as I would expect, though I would like stoichiometry to be represented as an explicit variable so we can

Re: [cellml-discussion] removal of reaction components from models

2007-05-16 Thread Andrew Miller
James Lawson wrote: Dear All, This email is aimed at anyone who has comments, but we particularly want to draw Matt's attention. In the CellML meeting yesterday I brought up the issue of replacement of reaction components with straight math. At present PCEnv isn't handling reaction