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SBML Math <-> SymPy

Project description

sbmlmath - a Python library for handling SBML MathML

This is Python library for interconverting SymPy expressions and SBML MathML. SBML uses a subset of MathML that this library tries to support. This is not (intended to be) a general MathML parser.

Main functionality:

  • sympy -> SBML MathML
  • SBML MathML -> sympy
    • in particular for cases where sympy.sympify(libsbml.formulaToL3String(...)) won't do the job
    • retaining unit annotations and other <ci> attributes

NOTE: This is under development and the API is to be considered unstable


from sbmlmath import SBMLMathMLPrinter, SBMLMathMLParser
import sympy as sp

sympy_expr = sp.sympify("A ** B + exp(C) * D")
mathml = SBMLMathMLPrinter().doprint(sympy_expr)

cycled_sympy = SBMLMathMLParser().parse_str(mathml)
assert sympy_expr == cycled_sympy

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