Nico Matentzoglu
Nico Matentzoglu
see #887 Please do not even look at this, just needed a place to stache it for safety. I may still withdraw this PR.
Given that Java 8 support is running it in a few months (https://endoflife.date/java), we should migrate to Java 11. Also blocking some issues such as #934
Currently: ``` robot reduce -i o.ofn -o reduced.ofn ``` Does not reduce A = B, A Sub B , B Sub A to A = B (where A and B...
I am wondering on the exact scope of relax. Is there a _formal_ definition of relax? The documentation is pretty hazy: https://robot.obolibrary.org/relax In particular, what should relax do in the...
Right now, we cannot use OBO purls as `--input` to ROBOT commands. For example: ``` robot convert -I http://purl.obolibrary.org/obo/ncbitaxon/subsets/taxslim.obo -o ncbitaxon.owl ``` Will lead to ``` Parser: org.semanticweb.owlapi.oboformat.OBOFormatOWLAPIParser@4602c2a9 Stack trace:...
I am developing a new command for a few use cases that allows migrating terms easily from one IDSPACE to another, preserving provenance and the likes. Use cases include: 1)...
The OBO versioning principles: http://www.obofoundry.org/principles/fp-004-versioning.html Recommend that ontologies publish owl:versionInfo alongside our version IRIs. We should add a simple report check for that; its super quick, so I don't have...
There are a few standard problems we have (especially when merging ontologies): 1. Having the same axiom multiple times with different sets of axiom annotations 2. Having whitespace at the...
When we combine ontologies, we copy definitions and add provenance. For example, we re-use the definition of HP:0032154 in MONDO:0005318: ``` [Term] id: HP:0032154 name: Aphthous ulcer def: "Oral aphthous...
``` robot import -i ont.owl --module-iri "http://purl.obolibrary.org/obo/imports/module.owl" --file "imports/module.owl" ``` This feature would: - add an import statement to an ontology - injects the right statement into the catalogue.xml file...