Re: [Miase-discuss] sed-ml library?

[Frank B. <fbergman@u.washington.edu>]

On Jan 23, 2009, at 12:48 AM, Nicolas Le Novere wrote:

> Frank Bergmann wrote:
>
>>>        3) Could a model file be optionally  embedded in a sedml  
>>> file?
>>>  This gets round the need to keep sedml independent of sbml, also a
>>> single file gets round the file coordination issue,  but it raises  
>>> new
>>> problems of keeping in synch possibly multiple copies of a model.  
>>> But
>>> for non-curated models that must be an issue anyway?
>>>
>>
>> personally I don't like this option too much. If an embedding  
>> solution
>> is wanted, I prefer it to work the other way around, have MIASE  
>> embedded
>> in i.e. SBML. That is the solution  that was favored by some people  
>> in
>> the discussions as well.
>
> Yes, but that would preclude the use of SED-ML for using two  
> different external models. At the moment, we only use two models for  
> comparing them. But nothing precludes the post-processing of the  
> simulation results of one model using variables coming for another  
> model. Same thing for the changeMath definition. We will be able to  
> modify a model prior to a task by using values coming from another  
> model.
>

right ... but before we start embedding the model in the experiment  
description, let us keep them separate then. We still have option 1  
and 2, which is good enough for interoperability.

Frank