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monarch-initiative / mondo

Mondo Disease Ontology
http://obofoundry.org/ontology/mondo
Creative Commons Attribution 4.0 International
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Try replacing NORM goal with ROBOT commands #8322

Open matentzn opened 3 weeks ago

matentzn commented 3 weeks ago

Blocked by https://github.com/ontodev/robot/pull/1223

twhetzel commented 3 weeks ago

@matentzn are you limiting this to only NORM or trying to replace owltools in all places where it is used? The Tech call discussion was about whether owltools should be replaced in all places where it's used, NORM is just one of those places.

matentzn commented 3 weeks ago

Only NORM for now - but it does not work; and no time to debug atm. I will focus on the import ticket better this is too low priority!

matentzn commented 2 weeks ago

There is a blocker in ROBOT (a bug). I fixed ROBOT, but this postpones the implementation of this issue a few months..

matentzn commented 2 weeks ago

For future me, this is how the NORM goal should look like:

NORM: mondo-edit.obo
    $(ROBOT) repair -i $< --merge-axiom-annotations true \
        convert -o $@.tmp.obo && mv $@.tmp.obo $<