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microbial-conditions-ontology / Microbial-Conditions-Ontology

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Make fails because of illegal OBO #2

Closed matentzn closed 3 years ago

matentzn commented 5 years ago

Currently, your make process fails because you violate some OBO constraints. You can fix it by editing src/ontology/Makefile, and replacing the imports/*.obo goal with this:

imports/%_import.obo: imports/%_import.owl
#       $(OWLTOOLS) $(USECAT) $< -o -f obo $@
        $(ROBOT) convert --check false -i $< -o $@ # trying to use robot instead of owltools to avoid error "multiple def tags not allowed"

As you can see, it has a new clause (--check false), but it is otherwise unchanged. Let me know if that works!

citmejia commented 5 years ago

Hello,

It worked, but I had to to add the --check false clause to the $(ONT).obo goal too:

$(ONT).obo: $(ONT).owl $(ROBOT) convert --check false -i $< -f obo -o $(ONT).obo.tmp && mv $(ONT).obo.tmp $@

Thanks!