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Friday, August 3, 2012

libSBML 5.6.0 Released

I’m glad to announce that we have just released libSBML 5.6.0. This new release comes with more binary installers. Among them Python 3 and R bindings in two flavors: with or without SBML package code. Main changes in this release are:

  • An updated python 2.x binding, contributed by Gordon Ball, that makes the python API more python like. Here just one example on how this can look:
    Python 2.7.2 (default, Jun 12 2011, 14:24:46) [MSC v.1500 64 bit (AMD64)] on win32
    Type "help", "copyright", "credits" or "license" for more information.
    >>> from libsbml import *
    >>> doc = readSBML('/Development/libsbml/examples/sample-models/from-spec/level-3/membrane.xml')
    >>> doc.model
    <Model Model_1 "Reaction on membrane">
    >>> doc.model.compartments[0]
    <Compartment cyt "Cytosol">
    >>> doc.model.compartments[0].name

  • Updated Layout package with GeneralGlyph / ReferenceGlyphs for those that want to represent other things than just compartments, species and reactions.

  • (experimental) Implementation of the QUAL package

  • (experimental) Updated Spatial package to make it easier dealing with ImageData as well as Spatial Parameters

  • (experimental) Updated Groups package that includes the ‘kind’ attribute.

  • (experimental) Updated FBC package that allows to set Operations and FluxBounds through enums.

All this is rounded up by bug fixes, with handling of MIRIAM annotations among others. The full release announcement is online.

Please grab the new version from SourceForge:

SBML logo[3]

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