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ROBOT is an OBO Tool
Currently some ontology source files fail `validate-profile --profile DL` - uberon - envo: https://github.com/EnvironmentOntology/envo/issues/1334 This is because any undeclared annotation property is considered a DL profile validation. Likely many more:...
I would benefit from some of the problems detected by `report` queries to be repaired automatically. For example: `annotation_whitespace` constraint violations can be fixed by some SPARQL Update (not speaking...
Right now, when I get an error from `robot convert`, I have to add `-vvv` to get logs to figure out what is broken in the ontology, but this includes...
The Cellosaurus ontology contains many invalid lines, e.g. the following line has improperly escaped curly braces in the molecule's name: ``` comment: "Group: Patented cell line. Registration: International Depositary Authority,...
## Summary I am trying out [`robot validate-profile`](http://robot.obolibrary.org/validate-profile.html) today, but I noticed that nothing about it appears in the help file: ``` usage: robot [command] [options] --add-prefix add prefix 'foo:...
Resolves [#1016] - [x] `docs/` have been added/updated - [x] tests have been added/updated - [x] `mvn verify` says all tests pass - [x] `mvn site` says all JavaDocs correct...
input.owl: ``` a@b true ``` After I run `java -jar robot.jar repair --input input.owl --output output.owl`, I get the following output.owl with incorrectly serialized rdfs:comment for the ontology: ``` a...
Having `o.ttl`: ``` @prefix rdfs: . [ rdfs:label "c" ]. ``` and running `robot diff -l o.ttl -r o.ttl` returns a non empty result. This on its own looks wrong...
Resolves [#1030] - [x] `docs/` have been added/updated - [x] tests have been added/updated - [x] `mvn verify` says all tests pass - [x] `mvn site` says all JavaDocs correct...
Currently, CSV query output format seems to be determined by the Lang.CSV from Jena ARQ which seems to be [RFC 4180](https://datatracker.ietf.org/doc/html/rfc4180) compliant. However, I need an Excel-compliant CSV (e.g. with...