[cellml-discussion] Concerning the CellML Model Repository

[David Nickerson]

Hi Tommy,

looks like a good starting point for some discussion. Just to help me 
think through some of the issues, is there any chance you could add a 
usage example illustrating how this system would deal with a model made 
from the combination of a bunch of papers (i.e., a single model where 
each component defines a new citation). I'm guessing this would be done 
by adding each of the components as separate models and then importing 
them into a single model?

Another usage example that might be interesting to look at would be a 
model author adding a local CellML 1.1 model hierarchy to a remote 
repository and how all the import href's are handled in this case (i.e., 
imports throughout the model hierarchy might consist of a mix of 
relative, http, and file URLs).

And another usage example might be the searching for models built using 
a specific set of data. It will hopefully become standard practice to 
annotate variable values with their source, where the source may be some 
data from a different article than the model's publication.


Thanks,
David.

Tommy Yu wrote:
> Hi,
> 
> I have written down some of my thoughts on how the model repository could be put together.
> 
> http://www.cellml.org/Members/tommy/repository_redesign.html
> 
> It is still a pretty rough document.  The usage example section gives a rough outline on what I see people might be doing with the repository and how this design could address those issues, which I think it will be of interest to users.  It is not an exhaustive list, yet.
> 
> I must also note the design outlined is quite a drastic departure from what we have now (it will be yet another new repository).  However, it is more true to the one envisioned before according to http://www.cellml.org/wiki/CellMLModelRepositories, except I have an addition layer that will assist in pulling content and drawing relationships between models.
> 
> Feel free to take it apart and/or build on top of it.
> 
> Cheers,
> Tommy.
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-- 
David Nickerson, PhD
Research Fellow
Division of Bioengineering
Faculty of Engineering
National University of Singapore
Email: david.nickerson at nus.edu.sg