monai
medical
katielink commited on
Commit
dbce74b
1 Parent(s): 54c30e1

add cpu ram requirement in readme

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Files changed (3) hide show
  1. README.md +12 -1
  2. configs/metadata.json +2 -1
  3. docs/README.md +12 -1
README.md CHANGED
@@ -46,7 +46,6 @@ The training was performed with the following:
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  - Optimizer: SGD
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  - (Initial) Learning Rate: 0.025
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  - Loss: DiceCELoss
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- - Note: If out-of-memory or program crash occurs while caching the data set, please change the cache\_rate in CacheDataset to a lower value in the range (0, 1).
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  The segmentation of pancreas region is formulated as the voxel-wise 3-class classification. Each voxel is predicted as either foreground (pancreas body, tumour) or background. And the model is optimized with gradient descent method minimizing soft dice loss and cross-entropy loss between the predicted mask and ground truth segmentation.
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@@ -60,6 +59,17 @@ Three channels
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  - Label 1: pancreas
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  - Label 0: everything else
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  ## Performance
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  Dice score is used for evaluating the performance of the model. This model achieves a mean dice score of 0.62.
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@@ -129,6 +139,7 @@ python -m monai.bundle ckpt_export network_def --filepath models/model.ts --ckpt
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  ```
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  # References
 
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  [1] He, Y., Yang, D., Roth, H., Zhao, C. and Xu, D., 2021. Dints: Differentiable neural network topology search for 3d medical image segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 5841-5850).
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  # License
 
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  - Optimizer: SGD
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  - (Initial) Learning Rate: 0.025
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  - Loss: DiceCELoss
 
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  The segmentation of pancreas region is formulated as the voxel-wise 3-class classification. Each voxel is predicted as either foreground (pancreas body, tumour) or background. And the model is optimized with gradient descent method minimizing soft dice loss and cross-entropy loss between the predicted mask and ground truth segmentation.
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  - Label 1: pancreas
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  - Label 0: everything else
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+ ### Memory Consumption
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+
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+ - Dataset Manager: CacheDataset
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+ - Data Size: 420 3D Volumes
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+ - Cache Rate: 1.0
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+ - Multi GPU (8 GPUs) - System RAM Usage: 400G
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+
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+ ### Memory Consumption Warning
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+
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+ If you face memory issues with CacheDataset, you can either switch to a regular Dataset class or lower the caching rate `cache_rate` in the configurations within range $(0, 1)$ to minimize the System RAM requirements.
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+
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  ## Performance
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  Dice score is used for evaluating the performance of the model. This model achieves a mean dice score of 0.62.
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  ```
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  # References
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+
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  [1] He, Y., Yang, D., Roth, H., Zhao, C. and Xu, D., 2021. Dints: Differentiable neural network topology search for 3d medical image segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 5841-5850).
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  # License
configs/metadata.json CHANGED
@@ -1,7 +1,8 @@
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  {
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  "schema": "https://github.com/Project-MONAI/MONAI-extra-test-data/releases/download/0.8.1/meta_schema_20220324.json",
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- "version": "0.3.8",
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  "changelog": {
 
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  "0.3.8": "add non-deterministic note",
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  "0.3.7": "re-train model with updated dints implementation",
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  "0.3.6": "black autofix format and add name tag",
 
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  {
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  "schema": "https://github.com/Project-MONAI/MONAI-extra-test-data/releases/download/0.8.1/meta_schema_20220324.json",
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+ "version": "0.3.9",
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  "changelog": {
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+ "0.3.9": "add cpu ram requirement in readme",
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  "0.3.8": "add non-deterministic note",
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  "0.3.7": "re-train model with updated dints implementation",
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  "0.3.6": "black autofix format and add name tag",
docs/README.md CHANGED
@@ -39,7 +39,6 @@ The training was performed with the following:
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  - Optimizer: SGD
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  - (Initial) Learning Rate: 0.025
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  - Loss: DiceCELoss
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- - Note: If out-of-memory or program crash occurs while caching the data set, please change the cache\_rate in CacheDataset to a lower value in the range (0, 1).
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  The segmentation of pancreas region is formulated as the voxel-wise 3-class classification. Each voxel is predicted as either foreground (pancreas body, tumour) or background. And the model is optimized with gradient descent method minimizing soft dice loss and cross-entropy loss between the predicted mask and ground truth segmentation.
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@@ -53,6 +52,17 @@ Three channels
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  - Label 1: pancreas
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  - Label 0: everything else
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  ## Performance
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  Dice score is used for evaluating the performance of the model. This model achieves a mean dice score of 0.62.
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@@ -122,6 +132,7 @@ python -m monai.bundle ckpt_export network_def --filepath models/model.ts --ckpt
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  ```
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  # References
 
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  [1] He, Y., Yang, D., Roth, H., Zhao, C. and Xu, D., 2021. Dints: Differentiable neural network topology search for 3d medical image segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 5841-5850).
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  # License
 
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  - Optimizer: SGD
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  - (Initial) Learning Rate: 0.025
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  - Loss: DiceCELoss
 
42
 
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  The segmentation of pancreas region is formulated as the voxel-wise 3-class classification. Each voxel is predicted as either foreground (pancreas body, tumour) or background. And the model is optimized with gradient descent method minimizing soft dice loss and cross-entropy loss between the predicted mask and ground truth segmentation.
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  - Label 1: pancreas
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  - Label 0: everything else
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+ ### Memory Consumption
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+
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+ - Dataset Manager: CacheDataset
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+ - Data Size: 420 3D Volumes
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+ - Cache Rate: 1.0
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+ - Multi GPU (8 GPUs) - System RAM Usage: 400G
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+
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+ ### Memory Consumption Warning
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+
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+ If you face memory issues with CacheDataset, you can either switch to a regular Dataset class or lower the caching rate `cache_rate` in the configurations within range $(0, 1)$ to minimize the System RAM requirements.
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+
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  ## Performance
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  Dice score is used for evaluating the performance of the model. This model achieves a mean dice score of 0.62.
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  ```
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  # References
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+
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  [1] He, Y., Yang, D., Roth, H., Zhao, C. and Xu, D., 2021. Dints: Differentiable neural network topology search for 3d medical image segmentation. In Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (pp. 5841-5850).
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  # License