INCATools / INCATools/dosdp-tools

Q: When running DOSDP query, can entity_label columns be populated?

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Dominant language
Scala
Stars
33
Forks
5
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Description

Currently, when running:

```
dosdp-tools query --ontology=dpo-edit.owl --reasoner=elk --template=../patterns/dosdp-patterns/dpoAbnormalEntity.yaml --obo-prefixes=true --outfile=../patterns/data/original/dpoAbnormalEntity.tsv
```

I get a tsv like this:

```
defined_class defined_class_label entity entity_label quality quality_label
http://purl.obolibrary.org/obo/FBcv_0000423 DNA repair defective http://purl.obolibrary.org/obo/GO_0006281 http://purl.obolibrary.org/obo/PATO_0000001
```

So there are columns for entity_label and quality_label, but no values in them. Is there a way to get this column populated?

Thanks a lot :)

Contributor guide

No contributing guide indexed for this repository

Research direction

Start by reproducing the issue with the shown dosdp-tools query command, dpoAbnormalEntity.yaml template, and generated TSV. Trace how the query result populates the entity_label and quality_label columns. Done means determining whether those columns can be populated and documenting or implementing the required behavior, with a regression test if the project has coverage for query output.

Written by the indexing model from the issue text.

Assessment

Tech stack
scala
Domain
cli
Issue type
Feature
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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