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FBbt save to OBO from Protege fails #168

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dosumis opened this issue Apr 20, 2018 · 1 comment
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FBbt save to OBO from Protege fails #168

dosumis opened this issue Apr 20, 2018 · 1 comment
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@dosumis
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dosumis commented Apr 20, 2018

The only way to edit in Protege right now is to save as OWL and then convert back with some other tool (roundtrip via ROBOT works).

I suspect this explains the problem: protegeproject/protege#501

This means we can fix by tweaking the OBO file.

Possible clues from log:

This looks suspicious:

2018-04-20 18:22:07.753 [pool-3-thread-1] WARN OWLAPIOwl2Obo MASKING ERROR «Conflicting id definitions: 1) composed_primarily_of 2)RO:0002473»

(There are also lots of these:
2018-04-20 18:22:07.730 [pool-3-thread-1] ERROR OWLAPIOwl2Obo Duplicate clause 'alt_id( FBbt:00002794)' generated in frame: FBbt:00002786

but I think probably a harmless artefact of move to generating stanzas from alt_ids.)

@dosumis dosumis self-assigned this Apr 20, 2018
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dosumis commented Apr 20, 2018

Fixed. Duplicate stanza for RO:0002473 - one direct, one via xref used for conversion.

@dosumis dosumis closed this as completed Apr 20, 2018
@dosumis dosumis reopened this Apr 20, 2018
dosumis added a commit that referenced this issue Apr 20, 2018
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