sbesson
commented
2 years ago Deployed at https://snoopycrimecop.github.io/idr.openmicroscopy.org/studies.json for evaluation.
The JSON representation of the studies.tsv data file is interesting and brings me 2 thoughts:
- my basic understanding is that the (IDR-)gallery app is internally constructing such a representation to display the thumbnail and metadata for each study. It might not be exposed as a JSON endpoint but I assume it exists in memory
- similarly https://github.com/IDR/idr-utils/pull/48 was attempting to build a JSON representation of the studies (based on the metadata) when investigating landing pages.
Overall, it seems to me like that what we are trying to build organically in various places is almost an extension of the existing JSON API at https://idr.openmicroscopy.org/api/v0/. Mid-term, having some public endpoint along the lines of https://idr.openmicroscopy.org/api/v0/studies/ would have several advantage in terms of cross-linking concepts and would be easily consumable both internally e.g. by apps or landing pages as well as externally e.g. by notebooks/applications.
Obviously, defining such an API requires some thought and does not align with the timelines for the new gallery app. But if we agreed this was the way forward, it would be interesting to keep it in mind as we are effectively consolidating metadata coming from different sources.
will-moore
See https://github.com/IDR/idr-gallery/pull/2#discussion_r826955759
This is one option to publish studies from https://idr.openmicroscopy.org/about/studies.json instead of loading the .tsv from github. This uses a custom template to map from
.tsvto create a.jsonfile. NB: some values were missing from number columns, so these columns have to be treated as strings. e.g.'Acquisitions'missing from `'idr0028-pascualvargas-rhogtpases', 'idr0045-reichmann-zygotespindle' & 'idr0069-caldera-perturbome'.cc @sbesson