Error while using 'gandlf_run' #309
Replies: 2 comments 16 replies
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The error is saying that the parameters saved in the previous run do not match with those you are trying to run now (I guess you made a change to one of the parameters). You can mitigate this by doing the following: python gandlf_run \
-c pathToConfigFile \
-I pathToDataCSV \
-m pathToEmptyModelDirectory \
-t True \
-d cuda \
-r True # this resets the previous run by deleting everything saved before |
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This is my .yaml file, but the following error occurred batch_size: 1
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GaNDLF Version
Version information of the GaNDLF package in the virtual environment.
0.0.13-dev
Desktop (please complete the following information):
How did you install GaNDLF
I followed the steps on the documentation website, ie the following commands:
Dataset description
The dataset is titled RSNA_ASNR_MICCAI_BraTS2021_TrainingData_16July2021, referring to the 2021 BraTS training data.
Description from website:
Routine clinically-acquired multi-parametric MRI (mpMRI) scans of glioma, with pathologically confirmed diagnosis and available MGMT promoter methylation status (for the glioblastoma cases with such associated data). All BraTS mpMRI scans are available as NIfTI files (.nii.gz) for Segmentation, which is the use in this issue. These mpMRI scans describe a) native (T1) and b) post-contrast T1-weighted (T1Gd), c) T2-weighted (T2), and d) T2 Fluid Attenuated Inversion Recovery (T2-FLAIR) volumes.
Describe your question/problem
A clear and concise description of what issue you are facing.
I first edited the sample configuration file available in the gandlf repository titled ['config_segmentation_brats.yaml']:
patch size:
[128,128,128] to [64,64,64]
loss_function:
dcce to dc
optimizer
adam to sgd
I then executed:
When run, it gave me the following error:
I am not sure what this means and how to fix it. What should I do?
Error with surrounding context:
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