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GECKO v1.2.1
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@BenjaSanchez BenjaSanchez released this 30 May 09:27
v1.2.1
fc044a8
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  • Features:
    • All genes from the original yeast model now included in the .xml file. Genes connected to enzyme constraints are now stored in model.enzGenes in the .mat structure.
    • Docs badge in README.
  • Fixes:
    • Fields grRules and rules fixed in a consistent way:
      • grRules for the backwards reactions are the same as for the forward ones.
      • For reactions catalyzed by just 1 enzyme (or complex), grRules of the original reactions are assigned to them.
      • For reactions catalyzed by more than 1 enzyme (or more than 1 complex), grRules of the original reactions are assigned to the arm reactions, and the corresponding sub-rules are assigned to the isozyme-controlled reactions.
      • For enzyme exchange reactions, grRules are assigned as the corresponding gene ID.
      • The rules field is set equal to grRules for providing consistency with different toolboxes.
    • Inter-OS compatibility:
      • Numbers in scientific notation are stored in the .xml files with format Xe-0N, not Xe-00N, or with format Xe-1N, not Xe-01N, regardless of the OS used for generating them.
      • Numbers in all files are shown with up to 6 significant figures.
  • Refactoring:
    • Updated to new COBRA standards for addReaction usage.

NOTE: Also not available in pypi (issue #14 still unresolved)

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