Enable integration tests

German-BioImaging / omero-ontop-mappings

ONTOP module for querying OMERO with SPARQL

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Enable integration tests #1

Open joshmoore opened 2 months ago

joshmoore commented 2 months ago

The omero-test-infra repository provides an infrastructure for spinning up an OMERO server in a GitHub action for integration tests. This is used throughout OMERO plugins and clients like omero-figure and imagej-omero. (See https://github.com/search?q=omero-test-infra&type=code for more.)

With this in place, this issue can focus on:

[ ] spinning up the ontop process
[ ] loginning to OMERO
[ ] importing a .fake file
[ ] annotating the image
[ ] executing the SPARQL query

marimeireles commented 1 month ago

PR #2 includes omero-test-infra in this repo's CI. Is the next step of this task to create another docker container, this time with the ontop environment installed on it and then have some small dummy dataset replicating an omero dataset available somewhere that will have an RDF Schema that will be converted to Ontop using its R2RML mappings language and then served in an endpoint, so we can test whether it's working? And have this added in CI as well?