Hi all,
I have recently coded up a prototype designed to demonstrate how a
program to convert from SBML to CellML might work. This prototype is
written in Ruby using the REXML XPath parser, which was rapid to develop
but makes it very slow to run - the intention is that once the
algorithms to used are worked out, it could be re-written in a more
efficient language.
The code has been pushed onto github - the project page is at
http://github.com/A1kmm/sbml2cellml/tree/master
Features supported at present:
* SBML parameters, compartments, species, rules, and reactions are
translated into the equivalent component, variable and math elements in
CellML (the reaction element in CellML is not used because this is
considered informally deprecated).
* Functions are substituted and expanded in the code invoking the
function, since CellML doesn't allow them at present.
* Units on constants (MathML cn elements) are automatically inferred
from the context, where possible.
* I have attempted to support all of SBML except events, time delays
and other features which don't have a parallel in CellML yet.
* The csymbol for time is replaced with a new variable introduced for
time.
Feedback and comments on this code would be greatly appreciated.
Best wishes,
Andrew
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