ols4
ols4 copied to clipboard
EBISPOT
Version 4 of the EMBL-EBI Ontology Lookup Service (OLS)
See here: http://purl.obolibrary.org/obo/MONDO_0020119 The URL is partially clickable in a wrong way.
**Describe the bug** Property information says "unknown class expression" for has_dbxref and has_definition **To Reproduce** Steps to reproduce the behavior: 1. Go to 'https://www.ebi.ac.uk/ols4/ontologies/oio/properties/http%253A%252F%252Fwww.geneontology.org%252Fformats%252FoboInOwl%2523hasAlternativeId' **Screenshots** 
**Describe the bug** I am reporting an issue with the "exact" parameter in the search API, as documented on the following page: https://www.ebi.ac.uk/ols4/ols3help. According to the documentation, setting the "exact"...
**Describe the documentation deficiency** 1. Request parameters of type `array[string]` are not documented for `/search` and `/select` requests. A partial list is shown in the screenshot.  2. The `format`...
**Describe the bug** Searching for the following ontologies by prefix does not find the ontology. 1. SO 2. OBI 3. RO
**Describe the bug** There are different scenarios under which disjointness information is missing: **Scenario 1** [primary systemic mycosis](https://www.ebi.ac.uk/ols4/ontologies/mondo/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMONDO_0000308) is disjoint with [opportunistic mycosis](https://www.ebi.ac.uk/ols4/ontologies/mondo/classes/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FMONDO_0002312?lang=en). Disjointness information is displayed for [primary systemic...
**Describe the bug** Domain and range restrictions are not rendered when they complex. **To Reproduce** See for example [RO_0001025](https://www.ebi.ac.uk/ols4/ontologies/ro/properties/http%253A%252F%252Fpurl.obolibrary.org%252Fobo%252FRO_0001025).  **Expected behavior** In the above example domain and range should...
Possible place to add fix to enable differentiation of lists and multiple values: https://github.com/EBISPOT/ols4/blob/dev/dataload/rdf2json/src/main/java/uk/ac/ebi/rdf2json/OntologyGraph.java#L486-L494 A list in RDF is a bnode with a specific type (rdf:List). Could add a specific...
**Describe the documentation deficiency** Dear, I'm try these initial steps: git clone https://github.com/EBISPOT/ols4.git export OLS4_CONFIG=./dataload/configs/myontology.json (based in efo.json) copy myontology.owl to testcases folder JAVA_OPTS="-Xms5G -Xmx25G" docker compose up **Url to...
   