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@mephenor mephenor released this 23 Nov 20:53
· 485 commits to master since this release
1.5
2fb11cc

Hotfix (21.12.2016)

Running ModelPolisher without BIGG annotation was missing method calls and thus models created with this option disabled are possibly incomplete, this has now been fixed. Furthermore [organism] should now be replaced correctly.

Features:

  • JSONParser has been added, supporting COBRApy models stored in json format according to the schema defined at https://github.com/opencobra/cobrapy/blob/devel/cobra/io/json.py
  • The core functionality of ModelPolisher has been split into two parts:
    • SBMLPolisher now creates SBML files for all supported input formats without pulling additional information from BiGG knowledgebase
    • A new option annotate-with-bigg (default = false) has been added, to optionally enable annotation from BiGG knowledgebase
  • A flow chart displaying the structure of ModelPolisher has been added to doc/img

Updates:

  • The reactome pattern was updated
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