Interpretation of Travis checks errors

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Term should not have a superclass

Example of the error 'Term should not have a superclass':

  http://purl.obolibrary.org/obo/GO_0022889,Obsolete term should not have a superclass.

Troubleshooting:

  • Check the diff to see if the go-catalytic-activities-participants.owl file (located in the src/ontology/imports/ folder) was modified when the go-edit.obo ontology file was saved. This happens when a term cross-references a RHEA term and reaction participants are automatically loaded.

Fixing the error:

  • OPTION 1: Delete the 'has participant' classes from the go-edit.obo file.
    • Commit changes and push to master (same procedure as for the go-edit.obo file).
    • Note that you must move to the /imports directory to commit the file
  • OPTION 2: Delete the problematic class in the go-catalytic-activities-participants.owl file.
    • Commit changes and push to master (same procedure as for the go-edit.obo file).
    • Note that you must move to the /imports directory to commit the file

Obsolete term should not have a superclass

Example of the error 'Obsolete term should not have a superclass':

  http://purl.obolibrary.org/obo/GO_0000328,Obsolete term should not have a superclass

Troubleshooting:

  • Check the diff to see if the go_taxon_constraints.owl file (located in the src/ontology/imports/ folder) was modified go-edit.obo ontology file was saved.

Fixing the error:

  • Check if the taxon constraint is present in the only_in_taxon.tsv or in the never_in_taxon.tsv file.
  • Delete the taxon constraint as described in the [Adding_Taxon_Restrictions#Removing_a_taxon_constraint] instructions.


Error with inference diff

The report that shows all changes in the ontology resulting from the pull request. In this case there were a lot of changes, the report could not be generated, which gives an error. This error can be ignored and the pull request merged, if the 'Required' check are passing.

Review Status

Last reviewed: In progress

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Back to: Ontology Editing Guide