mobie goes conda

[tischi]

@constantinpape

Check this out:

conda create -n mobie -c conda-forge mobie

(mobie) tischer@mac-almf13 Documents $ mobie
INFO 2023-01-30 13:15:58,303: First time start-up may be slow. Downloaded dependencies will be cached for shorter start-up times in subsequent executions.
Usage: mobie [-hV] [-p=<project>] [-i=<images>]... [-s=<segmentations>]...
             [-t=<tables>]...
Visualise multi-modal big image data, see https://mobie.github.io/
  -h, --help                Show this help message and exit.
  -i, --image=<images>      intensity image, e.g. -i "/home/image.tif"
  -p, --project=<project>   project, e.g. -p "https://github.
                              com/mobie/platybrowser-datasets"
  -s, --segmentation=<segmentations>
                            segmentation label mask image, e.g. -s
                              "/home/labels.tif"
  -t, --table=<tables>      segments feature table, e.g. -t "/home/features.csv"
  -V, --version             Print version information and exit.

BIG THANKS TO @k-dominik ❤️

[constantinpape]

Very nice!

[tischi]

it should also works with wild-cards:

mobie -i "*-im.tif" -s "*-seg.tif" -t "*.csv"

...given that the names sort correctly, i.e. have the same prefix if they belong together.

[martinschorb]

what about a -v to open a specific view (only in combination with p)

[constantinpape]

I have added a page on this in the documentation: https://mobie.github.io/tutorials/cli.html