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MouseLand / cellpose

a generalist algorithm for cellular segmentation with human-in-the-loop capabilities
https://www.cellpose.org/
BSD 3-Clause "New" or "Revised" License
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[INSTALL] Could not load the Qt platform plugin "xcb" in "" even though it was found. #926

Open brchn6 opened 2 months ago

brchn6 commented 2 months ago

Install problem The app wouldn't start, even though I uninstalled and reinstalled it a few times to validate my steps.

Environment info

(cellpose) [barc@cn113 ~]$ conda list
# packages in environment at /home/labs/mayalab/barc/.conda/envs/cellpose:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                        main  
_openmp_mutex             5.1                       1_gnu  
ca-certificates           2024.3.11            h06a4308_0  
cachetools                5.3.3                    pypi_0    pypi
cellpose                  3.0.7                    pypi_0    pypi
certifi                   2024.2.2                 pypi_0    pypi
charset-normalizer        3.3.2                    pypi_0    pypi
fastremap                 1.14.1                   pypi_0    pypi
filelock                  3.13.4                   pypi_0    pypi
fsspec                    2024.3.1                 pypi_0    pypi
google-api-core           2.18.0                   pypi_0    pypi
google-auth               2.29.0                   pypi_0    pypi
google-cloud-core         2.4.1                    pypi_0    pypi
google-cloud-storage      2.16.0                   pypi_0    pypi
google-crc32c             1.5.0                    pypi_0    pypi
google-resumable-media    2.7.0                    pypi_0    pypi
googleapis-common-protos  1.63.0                   pypi_0    pypi
idna                      3.7                      pypi_0    pypi
imagecodecs               2023.3.16                pypi_0    pypi
importlib-metadata        7.1.0                    pypi_0    pypi
jinja2                    3.1.3                    pypi_0    pypi
ld_impl_linux-64          2.38                 h1181459_1  
libffi                    3.4.4                h6a678d5_0  
libgcc-ng                 11.2.0               h1234567_1  
libgomp                   11.2.0               h1234567_1  
libstdcxx-ng              11.2.0               h1234567_1  
llvmlite                  0.41.1                   pypi_0    pypi
markupsafe                2.1.5                    pypi_0    pypi
mpmath                    1.3.0                    pypi_0    pypi
natsort                   8.4.0                    pypi_0    pypi
ncurses                   6.4                  h6a678d5_0  
networkx                  3.1                      pypi_0    pypi
numba                     0.58.1                   pypi_0    pypi
numpy                     1.24.4                   pypi_0    pypi
nvidia-cublas-cu12        12.1.3.1                 pypi_0    pypi
nvidia-cuda-cupti-cu12    12.1.105                 pypi_0    pypi
nvidia-cuda-nvrtc-cu12    12.1.105                 pypi_0    pypi
nvidia-cuda-runtime-cu12  12.1.105                 pypi_0    pypi
nvidia-cudnn-cu12         8.9.2.26                 pypi_0    pypi
nvidia-cufft-cu12         11.0.2.54                pypi_0    pypi
nvidia-curand-cu12        10.3.2.106               pypi_0    pypi
nvidia-cusolver-cu12      11.4.5.107               pypi_0    pypi
nvidia-cusparse-cu12      12.1.0.106               pypi_0    pypi
nvidia-nccl-cu12          2.20.5                   pypi_0    pypi
nvidia-nvjitlink-cu12     12.4.127                 pypi_0    pypi
nvidia-nvtx-cu12          12.1.105                 pypi_0    pypi
opencv-python-headless    4.9.0.80                 pypi_0    pypi
openssl                   3.0.13               h7f8727e_0  
packaging                 24.0                     pypi_0    pypi
pip                       23.3.1           py38h06a4308_0  
proto-plus                1.23.0                   pypi_0    pypi
protobuf                  4.25.3                   pypi_0    pypi
pyasn1                    0.6.0                    pypi_0    pypi
pyasn1-modules            0.4.0                    pypi_0    pypi
pygments                  2.17.2                   pypi_0    pypi
pyqt6                     6.7.0                    pypi_0    pypi
pyqt6-qt6                 6.7.0                    pypi_0    pypi
pyqt6-sip                 13.6.0                   pypi_0    pypi
pyqtgraph                 0.13.3                   pypi_0    pypi
python                    3.8.19               h955ad1f_0  
qtpy                      2.4.1                    pypi_0    pypi
readline                  8.2                  h5eee18b_0  
requests                  2.31.0                   pypi_0    pypi
roifile                   2023.5.12                pypi_0    pypi
rsa                       4.9                      pypi_0    pypi
scipy                     1.10.1                   pypi_0    pypi
setuptools                68.2.2           py38h06a4308_0  
sqlite                    3.41.2               h5eee18b_0  
superqt                   0.6.4                    pypi_0    pypi
sympy                     1.12                     pypi_0    pypi
tifffile                  2023.7.10                pypi_0    pypi
tk                        8.6.12               h1ccaba5_0  
torch                     2.3.0                    pypi_0    pypi
tqdm                      4.66.2                   pypi_0    pypi
triton                    2.3.0                    pypi_0    pypi
typing-extensions         4.11.0                   pypi_0    pypi
urllib3                   2.2.1                    pypi_0    pypi
wheel                     0.41.2           py38h06a4308_0  
xz                        5.4.6                h5eee18b_0  
zipp                      3.18.1                   pypi_0    pypi
zlib                      1.2.13               h5eee18b_0  
(cellpose) [barc@cn113 ~]$

Run log

(cellpose) [barc@cn113 ~]$ python -m cellpose
2024-04-28 19:41:30,061 [INFO] WRITING LOG OUTPUT TO /home/labs/mayalab/barc/.cellpose/run.log
qt.qpa.plugin: Could not load the Qt platform plugin "xcb" in "" even though it was found.
This application failed to start because no Qt platform plugin could be initialized. Reinstalling the application may fix this problem.

Available platform plugins are: eglfs, linuxfb, minimal, minimalegl, offscreen, vnc, wayland-egl, wayland, wayland-xcomposite-egl, wayland-xcomposite-glx, webgl, xcb.

Aborted (core dumped)
kaushik-roy-physics commented 1 month ago

Try running this command while still in the cellpose conda environment:

sudo apt install libxcb-cursor0

I was also getting the same issue but resolved it with the above library install.

Hope it helps.

Kaushik