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Colab notebooks update#103

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MMathisLab merged 35 commits intomainAdaptiveMotorControlLab/CellSeg3D:mainfrom cy/colab-fixesAdaptiveMotorControlLab/CellSeg3D:cy/colab-fixesCopy head branch name to clipboardDec 22, 2024

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Commits on Dec 17, 2024

• Fix use of deprecated arg in colab training

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Commits on Dec 21, 2024

• Refactor model save name path + comment wandb cell

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• Update Colab_WNet3D_training.ipynb

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• Improve logging in Colab

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• Subclass WnetTraininWorker to avoid duplication

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• Remove strict channel first

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• Add missing channel_dim, remove strict_check=False

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• Update worker_training.py

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• Update worker_training.py

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• Disable strict checks for channelfirstd

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• Update worker_training.py

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• Temp disable channel first

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• Fix init of Colab worker

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• Move issues with transforms to colab script + disable pad/channelfirst

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• Enable ChannelFirst again

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• Remove strict_check = False in original worker

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• Remove redundant code + Colab notebook tweaks

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• Revert wandb check

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• Update docs + Colab inference

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Commits on Dec 22, 2024

• Merge branch 'main' into cy/colab-fixes

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• Update training_wnet.rst

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• Update Colab_WNet3D_training.ipynb

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• update / WIP

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• Update Colab_inference_demo.ipynb

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• nearly final!

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• exec

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• Merge branch 'main' into cy/colab-fixes

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• final

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