Market and expand the identifiers.org sparql endpoint

identifiers-org / identifiers-org.github.io

MIT License

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Market and expand the identifiers.org sparql endpoint #246

Open JervenBolleman opened 3 weeks ago

JervenBolleman commented 3 weeks ago

[x] Update location of the sparql endpoint ( missing '/sparql')
[x] Update examples
[ ] Add registry data to sparql endpoint (or a separate one)
[ ] Add void/service-description noting the virtualness of the implementation (see IDSM sachem for inspiration)
[x] Fork https://github.com/JervenBolleman/sparql-identifiers and take over maintainance in the identifiers-org github organisation.

Evaluate pro/cons :

[ ] of adding JSON-LD context to current JSON of api.
[ ] of using ontop/r2rml+lenses for mapping (see if this could replace existing service) might require some complicated SQL view/function/procedure.
[ ] of updating existing docker image used to provide existing service

renatocjn commented 3 weeks ago

Nice checklist. I can update the documentation in the next few days. Could you just elaborate a bit on the first and last points?

I wasn't aware before that you were the one that made the image that we use currently. Is the code at https://github.com/JervenBolleman/sparql-identifiers the one you used to create it? It might be a good idea to fork it into this GitHub organization for us to work on it.

JervenBolleman commented 3 weeks ago

The documentation says "Please note the Identifiers.org SPARQL endpoint is running at http://sparql.api.identifiers.org/" while it is actually at https://sparql.api.identifiers.org/sparql/. The current one is misleading, and makes it look like things don't work.

Last one is a mistake on my side, all four are there. I will remove (was: Ensure all versions of identifiers.org URL patterns are included).

JervenBolleman commented 3 weeks ago

@renatocjn I had no idea, that the docker image I made was in use. If I had known I would not have archived it. I thought that the code by Sarala might have been updated.

renatocjn commented 6 days ago

I have updated the documentation to take care of some of the tasks on the check list https://docs.identifiers.org/pages/sparql.html

If anyone has anything to add, please let me know. Or feel free to create a PR.

I also created the repository fork for the SPARQL code. Development should continue there. Link: https://github.com/identifiers-org/sparql-identifiers.

The remaining of the checklist will likely be addressed in the next ELIXIR BioHackathon. Link to project: https://github.com/elixir-europe/biohackathon-projects-2024/blob/main/13.md