monai
medical
katielink commited on
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cba6bb5
1 Parent(s): dbce74b

remove error dollar symbol in readme

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Files changed (3) hide show
  1. README.md +9 -3
  2. configs/metadata.json +3 -2
  3. docs/README.md +9 -3
README.md CHANGED
@@ -11,9 +11,9 @@ A neural architecture search algorithm for volumetric (3D) segmentation of the p
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  ![image](https://developer.download.nvidia.com/assets/Clara/Images/clara_pt_net_arch_search_segmentation_workflow_4-1.png)
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  ## Data
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- The training dataset is the Panceas Task from the Medical Segmentation Decathalon. Users can find more details on the datasets at http://medicaldecathlon.com/.
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- - Target: Liver and tumour
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  - Modality: Portal venous phase CT
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  - Size: 420 3D volumes (282 Training +139 Testing)
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  - Source: Memorial Sloan Kettering Cancer Center
@@ -68,7 +68,7 @@ Three channels
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  ### Memory Consumption Warning
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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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  ## 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.
@@ -114,6 +114,12 @@ torchrun --nnodes=1 --nproc_per_node=8 -m scripts.search run --config_file confi
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  python -m monai.bundle run --config_file configs/train.yaml
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  ```
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  #### Override the `train` config to execute multi-GPU training:
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  ```
 
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  ![image](https://developer.download.nvidia.com/assets/Clara/Images/clara_pt_net_arch_search_segmentation_workflow_4-1.png)
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  ## Data
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+ The training dataset is the Pancreas Task from the Medical Segmentation Decathalon. Users can find more details on the datasets at http://medicaldecathlon.com/.
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+ - Target: Pancreas and pancreatic tumor
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  - Modality: Portal venous phase CT
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  - Size: 420 3D volumes (282 Training +139 Testing)
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  - Source: Memorial Sloan Kettering Cancer Center
 
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  ### Memory Consumption Warning
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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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  ## 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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  python -m monai.bundle run --config_file configs/train.yaml
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  ```
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+ Please note that if the default dataset path is not modified with the actual path in the bundle config files, you can also override it by using `--dataset_dir`:
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+
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+ ```
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+ python -m monai.bundle run --config_file configs/train.yaml --dataset_dir <actual dataset path>
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+ ```
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+
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  #### Override the `train` config to execute multi-GPU training:
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  ```
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": "0.3.9",
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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",
@@ -17,7 +18,7 @@
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  "0.1.0": "complete the model package",
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  "0.0.1": "initialize the model package structure"
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  },
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- "monai_version": "1.2.0rc4",
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  "pytorch_version": "1.13.1",
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  "numpy_version": "1.22.2",
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  "optional_packages_version": {
 
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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": "0.4.0",
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  "changelog": {
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+ "0.4.0": "remove error dollar symbol in readme",
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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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  "0.1.0": "complete the model package",
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  "0.0.1": "initialize the model package structure"
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  },
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+ "monai_version": "1.2.0rc6",
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  "pytorch_version": "1.13.1",
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  "numpy_version": "1.22.2",
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  "optional_packages_version": {
docs/README.md CHANGED
@@ -4,9 +4,9 @@ A neural architecture search algorithm for volumetric (3D) segmentation of the p
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  ![image](https://developer.download.nvidia.com/assets/Clara/Images/clara_pt_net_arch_search_segmentation_workflow_4-1.png)
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  ## Data
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- The training dataset is the Panceas Task from the Medical Segmentation Decathalon. Users can find more details on the datasets at http://medicaldecathlon.com/.
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- - Target: Liver and tumour
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  - Modality: Portal venous phase CT
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  - Size: 420 3D volumes (282 Training +139 Testing)
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  - Source: Memorial Sloan Kettering Cancer Center
@@ -61,7 +61,7 @@ Three channels
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  ### Memory Consumption Warning
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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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  ## 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.
@@ -107,6 +107,12 @@ torchrun --nnodes=1 --nproc_per_node=8 -m scripts.search run --config_file confi
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  python -m monai.bundle run --config_file configs/train.yaml
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  ```
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  #### Override the `train` config to execute multi-GPU training:
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  ```
 
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  ![image](https://developer.download.nvidia.com/assets/Clara/Images/clara_pt_net_arch_search_segmentation_workflow_4-1.png)
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  ## Data
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+ The training dataset is the Pancreas Task from the Medical Segmentation Decathalon. Users can find more details on the datasets at http://medicaldecathlon.com/.
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+ - Target: Pancreas and pancreatic tumor
10
  - Modality: Portal venous phase CT
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  - Size: 420 3D volumes (282 Training +139 Testing)
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  - Source: Memorial Sloan Kettering Cancer Center
 
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  ### Memory Consumption Warning
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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.
65
 
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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.
 
107
  python -m monai.bundle run --config_file configs/train.yaml
108
  ```
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+ Please note that if the default dataset path is not modified with the actual path in the bundle config files, you can also override it by using `--dataset_dir`:
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+
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+ ```
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+ python -m monai.bundle run --config_file configs/train.yaml --dataset_dir <actual dataset path>
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+ ```
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+
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  #### Override the `train` config to execute multi-GPU training:
117
 
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  ```