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MIC-DKFZ / nnUNet

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Preprocessing problem in Task06 Lung of Decathlon Dataset. #1080

Closed KarthikG1729 closed 1 year ago

KarthikG1729 commented 2 years ago

I have been running the code for preprocessing of Lung dataset by using the command "!nnUNet_plan_and_preprocess -t 6" . I am using colab pro with high Ram configuration for this experiment. The cell is running continuously for almost 4+ hours but its not progressing.

It is printing the following "1 676 saving: /content/drive/My Drive/Colab Notebooks/nnUNet_preprocessed/Task006_Lung/nnUNetData_plans_v2.1_stage0/lung_092.npz"

Could you please tell am I missing anything. and also please tell how much time it will take for preprocessing the lung dataset. I am following the nnU-Net workshop notebook file.

BigPandaCPU commented 2 years ago

use one thread to do this! threads = (1, 1)

FabianIsensee commented 2 years ago

Yeah what @BigPandaCPU says. Unless you know RAM is not an issue