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Sorry I worked only with the CLI for most of the time, but today I started to work on the cell-counting and now I can start the GUI anymore:
"
python run.py
Starting MagellanMapper run script...
m…
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Hello guys, I have a problem with installing the newest version of pathml (dev branch).
` pip install -e .` gives me the following error:
> ERROR: Could not find a version that satisfies the req…
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> - Does this change have buy-in from other groups providing the same kind of data?
Limited to ".tif" in the scheme is not correct. We are specifying that microscopy is packaged in OME-TIFF format …
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https://docs.openmicroscopy.org/bio-formats/6.5.1/users/comlinetools/xml-validation.html
@ilan-gold: is there anything else that you are checking for?
Current status: validation process checks t…
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Do we support true 2d data in MoBIE, @tischi? As far as I can see, we have so far solved this by adding a singleton axis, e.g. [here](https://github.com/mobie/yeast-clem-datasets/blob/main/data/yeast/…
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I have CZI files on which I've done some pre-processing in Zen, including messing with the tile stitching. They open naturally in Zen. To open them in ImageJ I have to turn off the bio-formats Autosti…
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Hi @NicoKiaru and @tischi ,
after your amazing presentation at the Neubias academy last week, I attempted to try the 3D registration tool for slide scanner data. Unfortunately, I can't open CZI fil…
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Using both the stable and nightly builds, I'm unable to save and then re-load a classifier file (at least, created with RF).
CPA simply reports "Error loading classifier model". Since I don't what …
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I was wondering why the `LifImage` class has `nz` and `nt` attributes, but not e.g. `nx` or `ny` attributes, although it is of course trivial to obtain these from `LifImage.dims`.
Perhaps it is re…
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Hi there,
I have downloaded some jpg image from here: http://openslide.cs.cmu.edu/download/openslide-testdata/Hamamatsu-vms/CMU-2.zip
And i pass below code to convert them into tif with pyramid opti…