vesuvius-nnunet-model / plans.json
bshepp's picture
Upload plans.json with huggingface_hub
45fd1e9 verified
{
"dataset_name": "Dataset011_Vesuvius",
"plans_name": "nnUNetPlans",
"original_median_spacing_after_transp": [
7.91,
7.91,
7.91
],
"original_median_shape_after_transp": [
320,
314,
314
],
"image_reader_writer": "Tiff3DIO",
"transpose_forward": [
0,
1,
2
],
"transpose_backward": [
0,
1,
2
],
"configurations": {
"2d": {
"data_identifier": "nnUNetPlans_2d",
"preprocessor_name": "DefaultPreprocessor",
"batch_size": 32,
"patch_size": [
320,
320
],
"median_image_size_in_voxels": [
314.0,
314.0
],
"spacing": [
7.91,
7.91
],
"normalization_schemes": [
"CTNormalization"
],
"use_mask_for_norm": [
false
],
"resampling_fn_data": "resample_data_or_seg_to_shape",
"resampling_fn_seg": "resample_data_or_seg_to_shape",
"resampling_fn_data_kwargs": {
"is_seg": false,
"order": 3,
"order_z": 0,
"force_separate_z": null
},
"resampling_fn_seg_kwargs": {
"is_seg": true,
"order": 1,
"order_z": 0,
"force_separate_z": null
},
"resampling_fn_probabilities": "resample_data_or_seg_to_shape",
"resampling_fn_probabilities_kwargs": {
"is_seg": false,
"order": 1,
"order_z": 0,
"force_separate_z": null
},
"architecture": {
"network_class_name": "dynamic_network_architectures.architectures.unet.PlainConvUNet",
"arch_kwargs": {
"n_stages": 7,
"features_per_stage": [
32,
64,
128,
256,
512,
512,
512
],
"conv_op": "torch.nn.modules.conv.Conv2d",
"kernel_sizes": [
[
3,
3
],
[
3,
3
],
[
3,
3
],
[
3,
3
],
[
3,
3
],
[
3,
3
],
[
3,
3
]
],
"strides": [
[
1,
1
],
[
2,
2
],
[
2,
2
],
[
2,
2
],
[
2,
2
],
[
2,
2
],
[
2,
2
]
],
"n_conv_per_stage": [
2,
2,
2,
2,
2,
2,
2
],
"n_conv_per_stage_decoder": [
2,
2,
2,
2,
2,
2
],
"conv_bias": true,
"norm_op": "torch.nn.modules.instancenorm.InstanceNorm2d",
"norm_op_kwargs": {
"eps": 1e-05,
"affine": true
},
"dropout_op": null,
"dropout_op_kwargs": null,
"nonlin": "torch.nn.LeakyReLU",
"nonlin_kwargs": {
"inplace": true
}
},
"_kw_requires_import": [
"conv_op",
"norm_op",
"dropout_op",
"nonlin"
]
},
"batch_dice": true
},
"3d_lowres": {
"data_identifier": "nnUNetPlans_3d_lowres",
"preprocessor_name": "DefaultPreprocessor",
"batch_size": 2,
"patch_size": [
128,
128,
128
],
"median_image_size_in_voxels": [
205,
202,
202
],
"spacing": [
12.323522265312054,
12.323522265312054,
12.323522265312054
],
"normalization_schemes": [
"CTNormalization"
],
"use_mask_for_norm": [
false
],
"resampling_fn_data": "resample_data_or_seg_to_shape",
"resampling_fn_seg": "resample_data_or_seg_to_shape",
"resampling_fn_data_kwargs": {
"is_seg": false,
"order": 3,
"order_z": 0,
"force_separate_z": null
},
"resampling_fn_seg_kwargs": {
"is_seg": true,
"order": 1,
"order_z": 0,
"force_separate_z": null
},
"resampling_fn_probabilities": "resample_data_or_seg_to_shape",
"resampling_fn_probabilities_kwargs": {
"is_seg": false,
"order": 1,
"order_z": 0,
"force_separate_z": null
},
"architecture": {
"network_class_name": "dynamic_network_architectures.architectures.unet.PlainConvUNet",
"arch_kwargs": {
"n_stages": 6,
"features_per_stage": [
32,
64,
128,
256,
320,
320
],
"conv_op": "torch.nn.modules.conv.Conv3d",
"kernel_sizes": [
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
]
],
"strides": [
[
1,
1,
1
],
[
2,
2,
2
],
[
2,
2,
2
],
[
2,
2,
2
],
[
2,
2,
2
],
[
2,
2,
2
]
],
"n_conv_per_stage": [
2,
2,
2,
2,
2,
2
],
"n_conv_per_stage_decoder": [
2,
2,
2,
2,
2
],
"conv_bias": true,
"norm_op": "torch.nn.modules.instancenorm.InstanceNorm3d",
"norm_op_kwargs": {
"eps": 1e-05,
"affine": true
},
"dropout_op": null,
"dropout_op_kwargs": null,
"nonlin": "torch.nn.LeakyReLU",
"nonlin_kwargs": {
"inplace": true
}
},
"_kw_requires_import": [
"conv_op",
"norm_op",
"dropout_op",
"nonlin"
]
},
"batch_dice": false,
"next_stage": "3d_cascade_fullres"
},
"3d_fullres": {
"data_identifier": "nnUNetPlans_3d_fullres",
"preprocessor_name": "DefaultPreprocessor",
"batch_size": 2,
"patch_size": [
128,
128,
128
],
"median_image_size_in_voxels": [
320.0,
314.0,
314.0
],
"spacing": [
7.91,
7.91,
7.91
],
"normalization_schemes": [
"CTNormalization"
],
"use_mask_for_norm": [
false
],
"resampling_fn_data": "resample_data_or_seg_to_shape",
"resampling_fn_seg": "resample_data_or_seg_to_shape",
"resampling_fn_data_kwargs": {
"is_seg": false,
"order": 3,
"order_z": 0,
"force_separate_z": null
},
"resampling_fn_seg_kwargs": {
"is_seg": true,
"order": 1,
"order_z": 0,
"force_separate_z": null
},
"resampling_fn_probabilities": "resample_data_or_seg_to_shape",
"resampling_fn_probabilities_kwargs": {
"is_seg": false,
"order": 1,
"order_z": 0,
"force_separate_z": null
},
"architecture": {
"network_class_name": "dynamic_network_architectures.architectures.unet.PlainConvUNet",
"arch_kwargs": {
"n_stages": 6,
"features_per_stage": [
32,
64,
128,
256,
320,
320
],
"conv_op": "torch.nn.modules.conv.Conv3d",
"kernel_sizes": [
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
],
[
3,
3,
3
]
],
"strides": [
[
1,
1,
1
],
[
2,
2,
2
],
[
2,
2,
2
],
[
2,
2,
2
],
[
2,
2,
2
],
[
2,
2,
2
]
],
"n_conv_per_stage": [
2,
2,
2,
2,
2,
2
],
"n_conv_per_stage_decoder": [
2,
2,
2,
2,
2
],
"conv_bias": true,
"norm_op": "torch.nn.modules.instancenorm.InstanceNorm3d",
"norm_op_kwargs": {
"eps": 1e-05,
"affine": true
},
"dropout_op": null,
"dropout_op_kwargs": null,
"nonlin": "torch.nn.LeakyReLU",
"nonlin_kwargs": {
"inplace": true
}
},
"_kw_requires_import": [
"conv_op",
"norm_op",
"dropout_op",
"nonlin"
]
},
"batch_dice": true
},
"3d_cascade_fullres": {
"inherits_from": "3d_fullres",
"previous_stage": "3d_lowres"
}
},
"experiment_planner_used": "ExperimentPlanner",
"label_manager": "LabelManager",
"foreground_intensity_properties_per_channel": {
"0": {
"max": 255.0,
"mean": 87.54424285888672,
"median": 81.0,
"min": 0.0,
"percentile_00_5": 0.0,
"percentile_99_5": 212.0,
"std": 47.74376678466797
}
}
}