MIL training#49

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jcohenadad wants to merge 88 commits intomainfrom

Commits on Nov 21, 2024

add a gitignore
Thomas Dagonneau
committed
remove of undesired files
Thomas Dagonneau
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Commits on Nov 26, 2024

training code for sbs added
Thomas Dagonneau
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Commits on Nov 27, 2024

add a code to train for nfn with both left and right, rnfn with only right images and lnfn with only left images
Thomas Dagonneau
committed

Commits on Nov 28, 2024

Realised the crop and resampling were not done on the good coordinates....
Thomas Dagonneau
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Commits on Nov 30, 2024

tried to change a few things for nfn
Thomas Dagonneau
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Commits on Dec 1, 2024

Modification of nfn to take into account the fact the images are not resampled
Thomas Dagonneau
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Commits on Dec 2, 2024

minor adjustment
Thomas Dagonneau
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the nfn takes only T1 scans
Thomas Dagonneau
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Commits on Dec 3, 2024

Tested a few variations with data augmentation in the transform function
Thomas Dagonneau
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added a weight decay for training to reduce overfitting
Thomas Dagonneau
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Commits on Dec 4, 2024

created a first version of the code for sas and modifications on nfn
Thomas Dagonneau
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try to change from Adam optimizer to SGD for scs
Thomas Dagonneau
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Changed the classic block to bottelneck
Thomas Dagonneau
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Commits on Dec 5, 2024

before trying to do patch extraction in preprocessing
Thomas Dagonneau
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Commits on Dec 10, 2024

add a file to train using volume and data augmentation
abelsalm
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Commits on Dec 11, 2024

added train,ing with data augmentation, see issue associated
Abel Salmona
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Commits on Dec 13, 2024

first data augmentation plots added in models (.pth still in .gitignore)
Abel Salmona
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gitignore changed
Abel Salmona
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Commits on Dec 14, 2024

nfn training with volumes and data aug
abelsalm
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nfn training with data aug works, also added the curves of the trainings
Abel Salmona
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nfn data aug working
Abel Salmona
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Commits on Dec 15, 2024

sas training with volumes and data aug
Abel Salmona
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Commits on Jan 15, 2025

training with splits among subjects, and data aug
Abel Salmona
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Commits on Jan 26, 2025

added a code to train nfn based on the patient split
Thomas Dagonneau
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Commits on Jan 27, 2025

The code for train_nfn_patient_split didn t work but I fixed it
Thomas Dagonneau
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wandb configured! see in the weight and biases folder...
Abel Salmona
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Merge remote-tracking branch 'origin/ResNetTraining' into ResNetTraining
Abel Salmona
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modif split
Thomas Dagonneau
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Merge branch 'ResNetTraining' of https://github.com/ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Thomas Dagonneau
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Cleaning WIP
Abel Salmona
committed

Commits on Jan 28, 2025

cutmix on scs
Abel Salmona
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Merge branch 'ResNetTraining' of https://github.com/ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Thomas Dagonneau
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corrected nfn
Thomas Dagonneau
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tests with cutmix
Abel Salmona
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Merge branch 'ResNetTraining' of github.com:ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Abel Salmona
committed

Commits on Jan 29, 2025

cutmix manually
Abel Salmona
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modifications on images for train_nfn_patient
Thomas Dagonneau
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Merge branch 'ResNetTraining' of https://github.com/ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Thomas Dagonneau
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cutmix and mixup working
Abel Salmona
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Merge branch 'ResNetTraining' of github.com:ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Abel Salmona
committed

Commits on Jan 30, 2025

cutmix corrected
Abel Salmona
committed

Commits on Jan 31, 2025

from adam optimizer to adamw
Thomas Dagonneau
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made a code to compute inference on validation split and compute confusion matrix
Thomas Dagonneau
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Commits on Feb 5, 2025

supression of wb files
abelsalm
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minor changes
Abel Salmona
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Merge branch 'ResNetTraining' of github.com:ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Abel Salmona
committed

Commits on Feb 8, 2025

working version before removing the split part if I need to come back to it
Thomas Dagonneau
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Merge branch 'ResNetTraining' of https://github.com/ivadomed/lumbar-classification-rsna-challenge-2024 into ResNetTraining
Thomas Dagonneau
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Commits on Feb 14, 2025

first commit, training function done
abelsalm
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training working
Abel Salmona
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Commits on Feb 16, 2025

Commits on Mar 16, 2025

prepare data works, model an training still to be tested !
abelsalm
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Commits on Mar 17, 2025

maj gitignore
Abel Salmona
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adjustment
Abel Salmona
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adding model mil
abelsalm
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training works ! also added a bit more data augmentation...
Abel Salmona
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tested data aug, works well !
abelsalm
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gitignore
Abel Salmona
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version with RNN working
Abel Salmona
committed

Commits on Mar 18, 2025

adding different schedule for encoder, including freezing it...
Abel Salmona
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Commits on Apr 3, 2025

up to date
Abel Salmona
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Commits on Apr 8, 2025

removed CustomDataset
Thomas Dagonneau
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insertion of regular_transforms in the gat_transforms and added the nfn part.
Thomas Dagonneau
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added the training for nfn
Thomas Dagonneau
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Commits on Apr 9, 2025

added the versions of training for nfn
Thomas Dagonneau
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Commits on Apr 10, 2025

minor modif
Thomas Dagonneau
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Commits on Apr 24, 2025

made a loss without weights for training the encoder
Thomas Dagonneau
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Commits on May 5, 2025

final push before checkout
Thomas Dagonneau
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Commits on May 16, 2025

everything works
abelsalm
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Commits on Jun 25, 2025

removed old files
Thomas Dagonneau
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put everything related to mil training in MIL_training. Also standardized the data augmentation according to the choices made for RESNET
Thomas Dagonneau
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Commits on Jul 7, 2025

changed the padding moment to not have only noise slices
Thomas Dagonneau
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test
Thomas Dagonneau
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validate merge
Thomas Dagonneau
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standardization of the training code based on nfn
Thomas Dagonneau
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Commits on Jul 8, 2025

hyperparameters modification
Thomas Dagonneau
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