Fileglancer backend

[will-moore]

When using the standalone figure app with local OME-Zarr files, users will need to serve those files somehow.
One option is to use ome_zarr view my_image.zarr but the generated URL/to/my_image.zarr will depend where you ran ome_zarr and the path provided, so this URL is a bit temporary.

A nicer option is to use https://github.com/JaneliaSciComp/fileglancer, a locally-run FastAPI application that allows you to browse your local filesystem and view OME-Zarr images in the browser.
We can use Fileglancer-served OME-Zarrs in the standalone figure app (hosted on github), then download the figure.json files and run Figure_To_Pdf.py script locally.

However, for the best user experience, we can try to use Fileglancer server as the backend to replace omero-web and OMERO.server for exporting figures to PDF/TIFF, and eventually for all the backend functionality:

• Serve the static html/js/css app
• Run the Figure_to_pdf.py script
• Browse the local file system to Open Figure.json files and Save them

To test (very much work in progress)! - see https://github.com/will-moore/fileglancer/blob/main/docs/Development.md

• Checkout https://github.com/will-moore/fileglancer/tree/omero_figure_app

cd fileglancer

install steps

$ pixi run dev-install
$ cp docs/config.yaml.template config.yaml

# install figure (this branch) into same pixi env...

$ eval "$(pixi shell-hook)"
$ cd /path/to/omero-figure 
# checkout this branch - install with dependencies needed for export script
$ pip install -e .[export]
$ npm run build    # or npm run watch

Run with

$ cd fileglancer
$ pixi run dev-launch

Open Fileglancer at http://127.0.0.1:7878/ and login (pick any username).
Browse to find a local OME.zarr image and "copy URL" button.

Go to http://127.0.0.1:7878/omero-figure/ which should load the static figure app.
With a new figure, Add Image and paste in the zarr URL.

Export to PDF -> choose local directory to store the figure -> OK.