ontology-development-kit
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INCATools
Bootstrap an OBO Library ontology
The [Ontology Access Kit](https://incatools.github.io/ontology-access-kit/index.html) (OAK, aka `oaklib` from Python’s point of view, aka `runoak` from the command line’s point of view) is one of the tools/libraries provided by the ODK....
This is a big change, but imo makes sense. https://robot.obolibrary.org/reduce is great at ensuring that our classification is non redundant, eg. ``` A sub B B sub C A sub...
Declaring a SSSOM set in `maintenance` mode as follows: ```yaml sssom_mappingset_group: products: - id: fbbt maintenance: mirror mirror_from: http://purl.obolibrary.org/obo/fbbt/fbbt-mappings.sssom.tsv ``` yields the following code in the generated Makefile: ```Makefile $(MAPPINGDIR)/fbbt.sssom.tsv:...
Example of how to do this https://github.com/ewels/MultiQC/tree/master/.github Thanks @olgabot for the suggestion!
Trying to get the ODK to publish the SSSOM sets that it manages, by adding the `release_mappings: True` option to the `sssom_mappingset_group` section in the config file, leads to the...
The ODK configuration file allows to define mapping set products that can be managed by the ODK: ``` sssom_mappingset_group: products: - id: my-set - id: my-other-set mirror_from: ... ``` The...
In many of the repos I work with, I keep having to litter the `Makefile` with random `pip install X` commands. I wonder if there would be an easier way...
When the component is different, it copies from the tmp folder, but when it's downloading for the first time, it shouldn't try to copy. Error on test [PR](https://github.com/obophenotype/uberon/pull/2975) https://github.com/obophenotype/uberon/actions/runs/8389532879/job/22975944727 
The default can stay full, but it would be good also to give the option to choose other lighter versions, e.g. base.
This pull request updates constraints.txt. Make sure you run make tests manually.
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