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Malformed URIs lost during KGX transform #14

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caufieldjh opened this issue Mar 7, 2022 · 1 comment
Open

Malformed URIs lost during KGX transform #14

caufieldjh opened this issue Mar 7, 2022 · 1 comment
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Ontology Issues Issues relating to messy ontologies

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@caufieldjh
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Errors in URIs are caught during KGX transform and throw a WARNING, but may not be added to the output TSV.
Example:

WARNING:rdflib.term:https://w3id.org/biolink/vocab/Dicty Phenotypes does not look like a valid URI, trying to serialize this will break.

The issue here is the space in the URI.
@caufieldjh caufieldjh added the Ontology Issues Issues relating to messy ontologies label Mar 7, 2022
@caufieldjh
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See also MAT_4:

WARNING:rdflib.term:http://www.ebi.ac.uk/microarray-srv/mat/ o does not look like a valid URI, trying to serialize this will break.

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