omnipose

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gui error: qt.qpa.plugin: Could not load the Qt platform plugin "xcb" in "" even though it was found.

3

Dear Omnipose team, Thanks for providing this awesome tool. I followed the document to install `omnipose` in a fresh virtual environment in Ubuntu 20.04, but the gui cannot be started...

JunMa11

Question regarding returning files with no masks found

2

Hi, I may have missed a command for this in the read the docs, and if so I apologize. I am having an issue where I run omnipose on a...

GloriaAlvarado

Trained model does not work

2

Hello, I've tried to train a new model from scratch using these settings: omnipose --train --use_gpu --dir "/home/urte/3D modeller/3d_cell_detector/trainingdata/Omni_5" \ --img_filter '' --mask_filter _cp_masks \ --pretrained_model None \ --diameter 0...

urtepuod

Setting up Omnipose with GPU support results in kernel crashes when cellpose_omni is imported

4

Hello, when installing omnipose as explained in the readme, I had a problem with importing cellpose_omni. It makes the kernel crash. In jupyter notebook, when running the cell that imports...

Marco-J-K

reproducing pretrained model

3

Hey, I'm currently trying to reproduce the results from the pretrained model "bact_phase_omni". According to https://omnipose.readthedocs.io/training.html I should be able to train my own model with `omnipose --train --use_gpu --dir...

dojoh

Trying to fine tune a model but it fails. I need help and guidance.

2

Hi I need some advice in fine tuning a model. For some reason I can train a model from scratch by using the following CLI:  If I try to...

fsalfonzo

Using omnipose models in Matlab Cellpose integration

1

Not really an issue with omnipose as such but I'm trying to use the omnipose models in the Cellpose add-on for Matlab 2023b. I found the model folder to which...

smury

Omnipose not working on stacks

2

Hello, As the title says, I am having trouble with stacks. As a test I put 5 copies of the e1t1_crop.tif test image into a stack and ran omnipose with...

smury

GPU support for Mac M1?

22

Hi :) I know the README says GPU speed can only be used with NVIDIA GPUs (Linux and Windows), I was wondering if you were planning on providing support for...

alix-pham

FileNotFound Error while training a new model

3

Hi all, I am wondering if anyone has encountered this error: FileNotFoundError: The directory '/home/kcutler/DataDrive/debug' does not exist. I am trying to train a new omnipose model (linux terminal -...

ThaoCao