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Hello Sarah, All,

On Wed, Sep 23, 2009 at 4:29 AM, Sarah Keating <skeating@caltech.edu> wrote:
>>  libSBML has always allowed you to
>> save invalid models, and will continue to do so.
>
> libSBML does not actually have a 'save' function. This presumably comes
> from your own software. What libSBML allows you to do is writeSBML -
> which doesn't at any point do any sort of validation. Maybe the
> compromise is only allow 'writeSBML' to write out valid models and to
> have a 'saveSBML' function that assumes you not finished and only writes
> out the information provided so far.

I did not know the difference in meaning between "saving" and
"writing", but what you describe sounds exactly like what I think we
should do.

The question is then, how can you tell from a file whether it is the
product of writing or saving? It makes sense to make both similar to
allow them to be read by the same code, while at the same time, you
want to have them marked clearly.

Take care
Oliver

--
Oliver Ruebenacker, Computational Cell Biologist
BioPAX Integration at Virtual Cell (http://vcell.org/biopax)
Center for Cell Analysis and Modeling
http://www.oliver.curiousworld.org
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