Re: [Miase-discuss] new namespace

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

> Frank, good catch. The dataGenerator time is still not right though.  
> You write:
>
> ...

>
> But the XPath "time" does not mean anything, even with the math  
> pointing to
> the SBML special variable time. The problem is that 1) "time" is not  
> the
> string representing the simulation time and 2) there are no links  
> between
> the math and the variable. I am still unsure if this is a problem of
> SED-ML, SBML, XPath etc. In CellML, the time is a regular variable,  
> so it
> is easier. For SBML, would the following be better?

	All true. In fact in my prototype i treat xpath (or target as it has  
now been renamed to) 'time' as keyword, until this is resolved. I take  
it to mean that it is the time as produced by a given task. I do think  
that some reserved symbols would do fine ...

>
>
> <dataGenerator id="time"
>                name="Time">
>   <listOfVariables>
>     <variable id="time"
>               taskReference="task1"
>               XPath="http://www.sbml.org/sbml/symbols/time" />
>   </listOfVariables>
>   <listOfParameters />
>   <math xmlns="http://www.w3.org/1998/Math/MathML">
>     <ci>time</ci>
>   </math>
> </dataGenerator>
>
>

again this XPath query would not refer to anything, in fact it would  
be just another way of saying "time".

As to your question whether this is a problem of SBML, CellML, XPath  
or our description format, i think we should make this problem our  
own. After all theoretically, each task could reference a model in a  
different language. Or even worse what happens later on when we have  
steady-state  experiments?what would 'time' mean then? It is up to us  
to define what should happen and how to represent it.

On my end this problem is again a bit superficial, if a task can be  
executed, then at the time of execution the meaning of 'time' is  
clear. The only question is how to capture it :)

Frank

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> Trust
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