cellpose-napari
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MouseLand
napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool
Fixes #50 Dear maintainers @carsen-stringer @psobolewskiPhD This PR - removes the apparently deprecated keyword argument `net_avg` from the call to the cellpose model. - Removes the checkbox from the widget...
Hi, I installed cellpose-napari plugin in naparim, when I tried to run segment, this happened. I don't think there's a way for me to change net_ave since I only have...
Hi, trying to install cellpose-napari via the **install/uninstall plugin** option from napari ui, the following error accrues: ``` from conda._vendor.auxlib.ish import dals ModuleNotFoundError: No module named 'conda._vendor.auxlib' ``` I was...
Hello, I was wondering how you are supposed to load a multi-channel image in the plugin. **Problem** * If I load a multipage tif with two channels and python dimensions...
When clicking "recompute last masks with new cellprob + model match", I get the error: ``` File …/lib/python3.8/site-packages/cellpose_napari/_dock_widget.py:116, in widget_wrapper..compute_masks(masks_orig= (1000, 1000) uint16, flows_orig=[ (1560, 1560, 3) uint8, (2, 1560,...
Hi, I'm trying to run the cellpose-napari on MacOS v.11.7.2 with Intel Graphics and following versions: ``` cellpose==2.1.1 cellpose-naapri==0.1.5 napari==0.4.16 pyhton==3.9.13 ``` As soon as I hit the "run segmentation"...
I loaded the images from file folder. I have 50 image tiff stacks in the Z direction, then 224 of these stacks in the time dimension. Both sliders in Napari...
This is an attempt at closing: https://github.com/MouseLand/cellpose-napari/issues/31 Simple check for `image_layer.changed` and then use the `image_layer.ndim` to pre-set the `process_3D` checkbox if it's 4 or 3 and not rgb. Works...
This is a basic attempt at addressing https://github.com/MouseLand/cellpose-napari/issues/27 and showing some status/busy info the napari gui. The potentially long running tasks will now show an indicator that something is happening...
Hi, thanks a lot for developing this software. I've been struggling with cell segmentation in 3D for a long time and your software is working so well after training the...
