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@draeger is this behaviour intended? FBC v2 spec says
section 3.3 the listOfObjectives is optional
section 3.3.1 says the listOfObjectives must contain at least one objective
section 3.6 says an objective must contain a listOfFluxObjectives with at least one fluxObjective
So in this case, we cannot actually do much. However, I wonder if the more conservative approach - leaving the invalid SBML as is - wouldn't be the better choice.
The text was updated successfully, but these errors were encountered:
We actually have a test for this specific behaviour:
https://github.com/draeger-lab/ModelPolisher/blob/113b46764b2df15a0333e6a1244fa1215cee7c39/lib/src/test/java/de/uni_halle/informatik/biodata/mp/fixing/fbc/ListOfObjectivesFixerTest.java#L99C1-L117C6
Evaluation of cobrapy validator results for the Biomodels dataset however revealed this yields a COBRA_WARNING.
This behaviour can be seen on https://www.ebi.ac.uk/biomodels/MODEL2403010004 with this listOfObjectives:
@draeger is this behaviour intended? FBC v2 spec says
So in this case, we cannot actually do much. However, I wonder if the more conservative approach - leaving the invalid SBML as is - wouldn't be the better choice.
The text was updated successfully, but these errors were encountered: