[BUG]

[aryehw]

Before you fill out this form:

Did you review the FAQ?

• Yes, I reviewed the FAQ on the cellpose ReadTheDocs

Did you look through previous (open AND closed) issues posted on GH?

• Yes, I searched for related previous GH issues.

Now fill this form out completely:

Describe the bug

The problem is that when I try to change the flow threshold (and probably and of the additional setting in Segmentation), I get the following error:

    2025-12-22 18:52:00,942 [INFO] computing masks with cell prob=0.000, flow error threshold=0.000
    Traceback (most recent call last):
    File "/home/amw/anaconda3/envs/cellpose/lib/python3.10/site-packages/cellpose/gui/gui.py", line 1870, in compute_cprob
    maski = dynamics.compute_masks_and_clean(
    AttributeError: module 'cellpose.dynamics' has no attribute 'compute_masks_and_clean

To Reproduce

Steps to reproduce the behavior:
run python -m cellpose
drag RGB image into GUI
run CPSAM
enter any value into flow threshold and press enter.

Run log

Please post all command line/notebook output for us to understand the problem. For this please make sure you are running with verbose mode on. So command line, with --verbose tag, or in a notebook first run

In the problem description I posted the relevant command line output , when using --verbose.

system info:

pop os 22.04
fresh conda env running python 3.10
python -m pip install cellpose[GUI]

chatgpt claims that this is due to a mismatch in the GUI version and the cellpose version.
However, its suggestions for a fix (basically, reinstall and make sure there are no old versions around) do not work.

Additional info:

$python -m cellpose --version

cellpose version: 4.0.8
platform: linux
python version: 3.10.19
torch version: 2.9.1+cu128