BIA plates fail to render in vizarr
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- Python
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Description
Opening this here as a follow on to #256 but the fix will likely either need to live on the BIA side or in vizarr:
opening Plates in vizarr often doesn't work because of the trailing /0 as it's expecting bioformats2raw format.
E.g https://uk1s3.embassy.ebi.ac.uk/bia-integrator-data/pages/S-BIAD847/02fb729e-803a-4c2e-b40c-cf58d839567c.html shows nothing, and when you open in vizarr you get:
https://hms-dbmi.github.io/vizarr/?source=https://uk1s3.embassy.ebi.ac.uk/bia-integrator-data/S-BIAD847/02fb729e-803a-4c2e-b40c-cf58d839567c/02fb729e-803a-4c2e-b40c-cf58d839567c.zarr/0 which looks broken.
You need to remove the trailing /0 before it's viewable.
cc: @manzt @kbab @will-moore @matthewh-ebi
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First steps
- Read the whole issue, then the project's contributing guide.
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Research direction
Reproduce the cited BIA plate in vizarr using the source URL with and without the trailing /0. Compare whether the incorrect path is generated by the BIA page or handled by vizarr, then verify that the plate opens from the corrected source URL.
Written by the indexing model from the issue text.
Assessment
- Domain
- data, frontend
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100