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model_seg_rat_axon-myelin_sem/model_seg_rat_axon-myelin_sem.json

@@ -0,0 +1,181 @@
+{
+    "command": "train",
+    "gpu_ids": [
+        7
+    ],
+    "path_output": "../data_extrassd_maboudb/20210816_optim_sem/20211010_log_sem-loss-name-DiceLoss-scheduler-initial_lr-0.005-lr_scheduler-name-CosineAnnealingLR",
+    "model_name": "model_seg_rat_axon-myelin_sem",
+    "debugging": true,
+    "log_file": "log",
+    "object_detection_params": {
+        "object_detection_path": null,
+        "safety_factor": [
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+            1.0
+        ],
+        "gpu_ids": 7,
+        "path_output": "../data_extrassd_maboudb/20210816_optim_sem/20211010_log_sem-loss-name-DiceLoss-scheduler-initial_lr-0.005-lr_scheduler-name-CosineAnnealingLR"
+    },
+    "loader_parameters": {
+        "path_data": [
+            "../data_extrassd_maboudb/20210816_optim_sem/data_axondeepseg_sem/"
+        ],
+        "subject_selection": {
+            "n": [],
+            "metadata": [],
+            "value": []
+        },
+        "target_suffix": [
+            "_seg-axon-manual",
+            "_seg-myelin-manual"
+        ],
+        "extensions": [
+            ".png"
+        ],
+        "roi_params": {
+            "suffix": null,
+            "slice_filter_roi": null
+        },
+        "contrast_params": {
+            "training_validation": [
+                "SEM"
+            ],
+            "testing": [
+                "SEM"
+            ],
+            "balance": {}
+        },
+        "slice_filter_params": {
+            "filter_empty_mask": false,
+            "filter_empty_input": true
+        },
+        "slice_axis": "axial",
+        "multichannel": false,
+        "soft_gt": false,
+        "is_input_dropout": false,
+        "bids_config": "ivadomed/config/config_bids.json"
+    },
+    "split_dataset": {
+        "fname_split": "../data_extrassd_maboudb/20210816_optim_sem/config/split_datasets.joblib",
+        "random_seed": 1461,
+        "split_method": "sample_id",
+        "data_testing": {
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+            "data_value": [
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+            ]
+        },
+        "balance": null,
+        "train_fraction": 0.7,
+        "test_fraction": 0.1
+    },
+    "training_parameters": {
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+        "loss": {
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+        },
+        "training_time": {
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+            "early_stopping_patience": 50,
+            "early_stopping_epsilon": 0.001
+        },
+        "scheduler": {
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+            "lr_scheduler": {
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+            }
+        },
+        "balance_samples": {
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+            "type": "gt"
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+        "mixup_alpha": null,
+        "transfer_learning": {
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+            "retrain_fraction": 1.0,
+            "reset": true
+        }
+    },
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+        "bn_momentum": 0.1,
+        "depth": 4,
+        "is_2d": true,
+        "final_activation": "sigmoid",
+        "length_2D": [
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+            256
+        ],
+        "stride_2D": [
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+            244
+        ]
+    },
+    "uncertainty": {
+        "epistemic": false,
+        "aleatoric": false,
+        "n_it": 0
+    },
+    "postprocessing": {
+        "binarize_maxpooling": {}
+    },
+    "evaluation_parameters": {},
+    "transformation": {
+        "Resample": {
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+            "hspace": 0.0001
+        },
+        "RandomAffine": {
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+            "scale": [
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+            "translate": [
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+            "applied_to": [
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+            "dataset_type": [
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+        },
+        "ElasticTransform": {
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+                150.0
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+            "sigma_range": [
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+                5.0
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+            "p": 0.5,
+            "applied_to": [
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+                "gt"
+            ],
+            "dataset_type": [
+                "training"
+            ]
+        },
+        "NormalizeInstance": {
+            "applied_to": [
+                "im"
+            ]
+        }
+    },
+    "training_sha256": {
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+    }
+}