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Any suggestions for how one might encode simple GCIs (e.g. R1 some C1 SubClassOf C2; R1 some C1 SubClassOf R2 some C2) in OBOgraphs?
Or is this a step too far?
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OBO Format is legacy, this is the replacement: https://github.com/geneontology/obographs/
For context: https://douroucouli.wordpress.com/2016/10/04/a-developer-friendly-json-exchange-format-for-ont…
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@cmungall can you provide a page docs page on how to use the obographs compliance framework?
We are close to a robot release and we need this merged now:
https://github.com/ontodev/robot/pull/11…
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Conversion from obo-graph to OWL would be very useful e.g. for a pure Python implementation of DOS-DPs (limited to suitable simple design patterns), or a simple, OWL-API independent OWL writer for the…
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With the latest robot.jar. I got this error when I try to convert a json file to owl (``robot convert -i abox.json -o test.owl -vvv
):
```
DEBUG Loading ontology abox.json with catalog file null
…
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Note that we now have a proposed JSON representation of OBO that would obviate the need for special purpose parsers. Your comments as a developer would be most welcome:
- https://github.com/geneont…
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1. OBO Graphs
2. OBO-Graphs
3. OBOGraphs
4. OboGraphs
5. obographs
6. obo-graphs
Thank you.
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We need to start migrating obographs to enable more modern java applications to fully embrace the benefits of the module system.
See the Java tutorial: https://dev.java/learn/modules/intro/
> Re…
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Suppose that we have the following owl snippet.
~~~~
d6
hereditary diffuse gastric cancer
~~~~
When I parse the above snippet using obograph a…
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@cmungall I'm unsure of the format that you want, so I'm making an actionable super/epic (bleh); I can split these up as well if that works for you.
- [ ] The bbop-js codebase is /almost/ completel…