Damien Goutte-Gattat
Damien Goutte-Gattat
- [X] I hereby agree to dual licence this and any previous contributions under both the _Biopython License Agreement_ **AND** the _BSD 3-Clause License_. - [X] I have read the...
The ODK should provide standardised workflows to facilitate: * publishing one or several mapping sets (in SSSOM TSV format), whether those mapping sets are * manually maintained, * derived from...
While most of the standard, ODK-generated workflows use ROBOT, there are still rules where OWLTOOLS is used: ```Makefile $(SUBSETDIR)/%.owl: $(ONT).owl | $(SUBSETDIR) $(OWLTOOLS) $< --extract-ontology-subset --fill-gaps --subset $* -o [email protected]...
The ODK could/should provide better options to visualise diffs between two versions of an ontology, either locally (on the editor’s machine) or on GitHub. This is especially important for ontologies...
The ODK should provide support to allow ontologies to manage their mappings with foreign ontologies. Based on what has already been implemented with Uberon, what is envisioned is: 1. Ontology...
In FBbt we recently added a custom check to detect cyclic logical definitions, because one such loop found its way into a release (FlyBase/drosophila-anatomy-developmental-ontology#1366) without being caught beforehand. Any objection...
/!\ PR for testing purposes, do not merge /!\ This PR updates the ODK configuration file to what it could look like when support for managing mapping sets and bridge...
In Uberon, `tendon` is textually defined as “dense regular connective tissue that connects muscle to bone”, and is a subclass of `connects some 'muscle organ'`. Several individual tendon classes do...
Preliminary step for ODK migration. Nothing done yet for `src/ontology/ro.Makefile`.
We do not need to call `docker run` in interactive mode (--interactive --tty) in `test-program.sh` when we start an ODK container just to test the programs of the ODK --...