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all/debug.json

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+{
+    "all_tr_losses": "[]",
+    "all_val_eval_metrics": "[]",
+    "all_val_losses": "[]",
+    "all_val_losses_tr_mode": "[]",
+    "also_val_in_tr_mode": "False",
+    "amp_grad_scaler": "None",
+    "base_num_features": "32",
+    "basic_generator_patch_size": "[602 602]",
+    "batch_dice": "True",
+    "batch_size": "12",
+    "best_MA_tr_loss_for_patience": "None",
+    "best_epoch_based_on_MA_tr_loss": "None",
+    "best_val_eval_criterion_MA": "None",
+    "classes": "[1, 2, 3, 4]",
+    "conv_per_stage": "2",
+    "data_aug_params": "{'selected_data_channels': None, 'selected_seg_channels': [0], 'do_elastic': False, 'elastic_deform_alpha': (0.0, 200.0), 'elastic_deform_sigma': (9.0, 13.0), 'p_eldef': 0.2, 'do_scaling': True, 'scale_range': (0.7, 1.4), 'independent_scale_factor_for_each_axis': False, 'p_independent_scale_per_axis': 1, 'p_scale': 0.2, 'do_rotation': True, 'rotation_x': (-3.141592653589793, 3.141592653589793), 'rotation_y': (-0.0, 0.0), 'rotation_z': (-0.0, 0.0), 'rotation_p_per_axis': 1, 'p_rot': 0.2, 'random_crop': False, 'random_crop_dist_to_border': None, 'do_gamma': True, 'gamma_retain_stats': True, 'gamma_range': (0.7, 1.5), 'p_gamma': 0.3, 'do_mirror': True, 'mirror_axes': (0, 1), 'dummy_2D': False, 'mask_was_used_for_normalization': OrderedDict([(0, False)]), 'border_mode_data': 'constant', 'all_segmentation_labels': None, 'move_last_seg_chanel_to_data': False, 'cascade_do_cascade_augmentations': False, 'cascade_random_binary_transform_p': 0.4, 'cascade_random_binary_transform_p_per_label': 1, 'cascade_random_binary_transform_size': (1, 8), 'cascade_remove_conn_comp_p': 0.2, 'cascade_remove_conn_comp_max_size_percent_threshold': 0.15, 'cascade_remove_conn_comp_fill_with_other_class_p': 0.0, 'do_additive_brightness': False, 'additive_brightness_p_per_sample': 0.15, 'additive_brightness_p_per_channel': 0.5, 'additive_brightness_mu': 0.0, 'additive_brightness_sigma': 0.1, 'num_threads': 12, 'num_cached_per_thread': 2, 'patch_size_for_spatialtransform': array([512, 512])}",
+    "dataset_directory": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/preprocessed/Task927_FatMuscle",
+    "deep_supervision_scales": "[[1, 1, 1], [0.5, 0.5], [0.25, 0.25], [0.125, 0.125], [0.0625, 0.0625], [0.03125, 0.03125], [0.015625, 0.015625]]",
+    "deterministic": "False",
+    "dl_tr": "<nnunet.training.dataloading.dataset_loading.DataLoader2D object at 0x7f37d80d7400>",
+    "dl_val": "<nnunet.training.dataloading.dataset_loading.DataLoader2D object at 0x7f37d80d7430>",
+    "do_dummy_2D_aug": "False",
+    "ds_loss_weights": "[0.50793651 0.25396825 0.12698413 0.06349206 0.03174603 0.01587302\n 0.        ]",
+    "epoch": "0",
+    "experiment_name": "nnUNetTrainerV2",
+    "fold": "all",
+    "folder_with_preprocessed_data": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/preprocessed/Task927_FatMuscle/nnUNetData_plans_v2.1_2D_stage0",
+    "fp16": "True",
+    "gt_niftis_folder": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/preprocessed/Task927_FatMuscle/gt_segmentations",
+    "inference_pad_border_mode": "constant",
+    "inference_pad_kwargs": "{'constant_values': 0}",
+    "init_args": "('/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/preprocessed/Task927_FatMuscle/nnUNetPlansv2.1_plans_2D.pkl', 'all', '/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/results/nnUNet/2d/Task927_FatMuscle/nnUNetTrainerV2__nnUNetPlansv2.1', '/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/preprocessed/Task927_FatMuscle', True, 0, True, False, True)",
+    "initial_lr": "0.01",
+    "log_file": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/results/nnUNet/2d/Task927_FatMuscle/nnUNetTrainerV2__nnUNetPlansv2.1/all/training_log_2023_7_12_22_40_11.txt",
+    "lr_scheduler": "None",
+    "lr_scheduler_eps": "0.001",
+    "lr_scheduler_patience": "30",
+    "lr_threshold": "1e-06",
+    "max_num_epochs": "1000",
+    "min_region_size_per_class": "None",
+    "min_size_per_class": "None",
+    "net_conv_kernel_sizes": "[[3, 3], [3, 3], [3, 3], [3, 3], [3, 3], [3, 3], [3, 3], [3, 3]]",
+    "net_num_pool_op_kernel_sizes": "[[2, 2], [2, 2], [2, 2], [2, 2], [2, 2], [2, 2], [2, 2]]",
+    "net_pool_per_axis": "[7, 7]",
+    "normalization_schemes": "OrderedDict([(0, 'CT')])",
+    "num_batches_per_epoch": "250",
+    "num_classes": "5",
+    "num_input_channels": "1",
+    "num_val_batches_per_epoch": "50",
+    "online_eval_fn": "[]",
+    "online_eval_foreground_dc": "[]",
+    "online_eval_fp": "[]",
+    "online_eval_tp": "[]",
+    "only_keep_largest_connected_component": "None",
+    "optimizer": "SGD (\nParameter Group 0\n    dampening: 0\n    differentiable: False\n    foreach: None\n    lr: 0.01\n    maximize: False\n    momentum: 0.99\n    nesterov: True\n    weight_decay: 3e-05\n)",
+    "output_folder": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/results/nnUNet/2d/Task927_FatMuscle/nnUNetTrainerV2__nnUNetPlansv2.1/all",
+    "output_folder_base": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/results/nnUNet/2d/Task927_FatMuscle/nnUNetTrainerV2__nnUNetPlansv2.1",
+    "oversample_foreground_percent": "0.33",
+    "pad_all_sides": "None",
+    "patch_size": "[512 512]",
+    "patience": "50",
+    "pin_memory": "True",
+    "plans_file": "/bmrNAS/people/jmz/data/opportunistic/bodycomp_annotations/nnunet1/preprocessed/Task927_FatMuscle/nnUNetPlansv2.1_plans_2D.pkl",
+    "regions_class_order": "None",
+    "save_best_checkpoint": "True",
+    "save_every": "50",
+    "save_final_checkpoint": "True",
+    "save_intermediate_checkpoints": "True",
+    "save_latest_only": "True",
+    "stage": "0",
+    "threeD": "False",
+    "tr_gen": "<batchgenerators.dataloading.multi_threaded_augmenter.MultiThreadedAugmenter object at 0x7f37d8505030>",
+    "train_loss_MA": "None",
+    "train_loss_MA_alpha": "0.93",
+    "train_loss_MA_eps": "0.0005",
+    "transpose_backward": "[0, 1, 2]",
+    "transpose_forward": "[0, 1, 2]",
+    "unpack_data": "True",
+    "use_mask_for_norm": "OrderedDict([(0, False)])",
+    "use_progress_bar": "False",
+    "val_eval_criterion_MA": "None",
+    "val_eval_criterion_alpha": "0.9",
+    "val_gen": "<batchgenerators.dataloading.multi_threaded_augmenter.MultiThreadedAugmenter object at 0x7f37d8504880>",
+    "was_initialized": "True",
+    "weight_decay": "3e-05"
+}

all/model_final_checkpoint.model

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all/model_final_checkpoint.model.pkl

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plans.pkl

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