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libSBML Ruby Example Programs

The libSBML 5.17.0 distribution comes with the following selection of complete example programs in the top-level file directory named examples/ruby.

Simple programs

  • echoSBML.rb: Echos (and in the process, pretty prints) an SBML model.
  • readSBML.rb: A simple command-line program that reads an SBML file and prints some statistics about it.
  • printSBML.rb: Prints information about the top-level model in the given SBML file.
  • printSupported.rb: Prints the supported SBML Levels and Versions for this copy of libSBML.

More advanced programs

  • addCVTerms.rb: Adds controlled vocabulary terms to a species in a model.
  • convertSBML.rb: Example demonstrating how to convert SBML documents between SBML Levels.
  • createExampleSBML.rb: Lengthy example of creating SBML models presented in the SBML specification.
  • getAllElementsWithNotes.rb: Demonstrates how to use the element filter class to search the model for elements with specific attributes .
  • printMath.rb: Prints the rule, reaction, and event formulas in a given SBML document.
  • printNotes.rb: Prints the notes strings for each element in a given model.
  • printRegisteredPackages.rb: A command-line program that prints the package plug-ins that are registered with this copy of libSBML.
  • printUnits.rb: A command-line program that prints information about the units of measurement used in a given SBML file.
  • renameSId.rb: Program that renames a specific SId and updates all references to it in a given model.
  • rngvalidator.rb: Example of creating a RELAX NG (RNG) validator to be called during validation.
  • setIdFromNames.rb: Program that renames all SIds that also have names specified. The new identifiers will be derived from the name, with all invalid characters removed.
  • setNamesFromIds.rb: Program that changes all objects' "name" attribute values to match their "id" attribute values.
  • stripPackage.rb: Strips the given SBML Level 3 package from the given SBML file.
  • translateL3Math.rb: Translates infix formulas into MathML and vice-versa, using the SBML Level 3 parser instead of the old Level 1 parser.
  • unsetNotes.rb: Unsets the notes for each element in the given SBML file.


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This page was last modified 15:45, 19 April 2014.



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