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Fix mix of .rst and .md on README #23

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will-moore merged 2 commits into from
Dec 2, 2025
Merged

Fix mix of .rst and .md on README #23

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5e12286
Fix mix of .rst and .md
lubianat Dec 2, 2025
ab09570
Remove v0.1; format link
lubianat Dec 2, 2025
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14 changes: 7 additions & 7 deletions README.rst
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Expand Up @@ -9,17 +9,17 @@ omero-web-zarr

OMERO.web plugin for OME-Zarr.

Implementation of [OME-NGFF](https://ngff.openmicroscopy.org/latest/) API with an omero-web app.
Implementation of `OME-NGFF <https://ngff.openmicroscopy.org/latest/>`_ API with an omero-web app.

This plugin supports OME-NGFF v0.1, v03, v0.4.
This plugin supports OME-NGFF v03 and v0.4.
For a given Image ID in OMERO, the following URL will refer to an OME-NGFF image::

https://[omero-server]/zarr/image/ID.zarr/
https://[omero-server]/zarr/v0.4/image/[ID].zarr/

Note: This app has not been extensively tested and should **not** be considered "production ready".

Currently supports [OME-NGFF v0.3](https://ngff.openmicroscopy.org/0.3/index.html) and
[OME-NGFF v0.4](https://ngff.openmicroscopy.org/0.4/index.html).
Currently supports `OME-NGFF v0.3 <https://ngff.openmicroscopy.org/0.3/index.html>`_ and
`OME-NGFF v0.4 <https://ngff.openmicroscopy.org/0.4/index.html>`_.

Development
-----------
Expand Down Expand Up @@ -59,7 +59,7 @@ Then you will be able to access OMERO Images in OME-NGFF format v0.3 or v0.4 wit
[omero-server]/zarr/v0.4/image/[ID].zarr/0/0/0/0


You can see this in action using the [Vizarr](https://github.com/hms-dbmi/vizarr/) viewer.
You can see this in action using the `Vizarr <https://github.com/hms-dbmi/vizarr/>`_ viewer.

This omero-web app self-hosts Vizarr to avoid CORS issues (delegating to https://hms-dbmi.github.io/vizarr/).

Expand All @@ -71,7 +71,7 @@ Testing
-------

To run integration tests (in your omero-web conda environment above) with `pytest`.
See [OMERO testing docs](https://docs.openmicroscopy.org/latest/omero/developers/testing.html)
See `OMERO testing docs <https://docs.openmicroscopy.org/latest/omero/developers/testing.html>`_
for setting `ICE_CONFIG` and dependencies etc., then::

$ pytest test/integration/test_ngff.py
Expand Down