diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/101__hipt_256__val_fold-1/checkpoint_I0028800.tar b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/101__hipt_256__val_fold-1/checkpoint_I0028800.tar new file mode 100644 index 0000000000000000000000000000000000000000..55aa568a282877700437a8dc76e5fe10f5bdfa2a --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/101__hipt_256__val_fold-1/checkpoint_I0028800.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f3a1f4aa550b056423c37a66403506a3e1e823091f3523d105d77b4a99ddab2b +size 11628826 diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/101__hipt_256__val_fold-1/training.json b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/101__hipt_256__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..9636385c0087f84f0496b1f80cdcf7f56c11e35a --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/101__hipt_256__val_fold-1/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "101__hipt_256__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/102__hipt_256__val_fold-2/checkpoint_I0011840.tar b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/102__hipt_256__val_fold-2/checkpoint_I0011840.tar new file mode 100644 index 0000000000000000000000000000000000000000..5dd8b9b015983b87c00c29d02fb2767859120593 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/102__hipt_256__val_fold-2/checkpoint_I0011840.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6c33ee1c092e2f5da77d06f5765fb96d49af2247d2c5b3b0c4d6c5b44c0bfc32 +size 11628826 diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/102__hipt_256__val_fold-2/training.json b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/102__hipt_256__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..801e1e1045dcefaa22bf0146b0dfb969c12b195c --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/102__hipt_256__val_fold-2/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "102__hipt_256__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/103__hipt_256__val_fold-3/checkpoint_I0008960.tar b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/103__hipt_256__val_fold-3/checkpoint_I0008960.tar new file mode 100644 index 0000000000000000000000000000000000000000..e35805eda7edc1cc40e06f4c04631f74c6f7c888 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/103__hipt_256__val_fold-3/checkpoint_I0008960.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:0c9ca2eb5a39b34e80d206ce2d79adff72abdc00e05d97f46a41f7b07ae23f58 +size 11628826 diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/103__hipt_256__val_fold-3/training.json b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/103__hipt_256__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..a88751924ab0bfd8b0a215cf9e27dc2455094df4 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/103__hipt_256__val_fold-3/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "103__hipt_256__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/104__hipt_256__val_fold-4/checkpoint_I0015360.tar b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/104__hipt_256__val_fold-4/checkpoint_I0015360.tar new file mode 100644 index 0000000000000000000000000000000000000000..3dbd666e0004a0b7e253ba7606db8b3a99945cc2 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/104__hipt_256__val_fold-4/checkpoint_I0015360.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6197b33d3f904e8d0010419abf8969b1eaac87e87c05358da8f3d926c5e6b464 +size 11628826 diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/104__hipt_256__val_fold-4/training.json b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/104__hipt_256__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..64de361426c69b387d2bb85aa61d053cabb02a41 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/104__hipt_256__val_fold-4/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "104__hipt_256__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/105__hipt_256__val_fold-5/checkpoint_I0017280.tar b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/105__hipt_256__val_fold-5/checkpoint_I0017280.tar new file mode 100644 index 0000000000000000000000000000000000000000..5ff7e37566498eddb85feaac2ad79c8033694679 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/105__hipt_256__val_fold-5/checkpoint_I0017280.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:24f694cb9940b903ef79f2241e867eb9788d37654f8e99cf8749ec9834af8dbe +size 11628826 diff --git a/hipt_256/01_spitz_tumor_vs_conventional_melanoma/105__hipt_256__val_fold-5/training.json b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/105__hipt_256__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..05b643236be60f686456ace4ea9e06618fb4ae96 --- /dev/null +++ b/hipt_256/01_spitz_tumor_vs_conventional_melanoma/105__hipt_256__val_fold-5/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "105__hipt_256__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/02_spitz_genetic_aberration/106__hipt_256__val_fold-1/checkpoint_I0003520.tar b/hipt_256/02_spitz_genetic_aberration/106__hipt_256__val_fold-1/checkpoint_I0003520.tar new file mode 100644 index 0000000000000000000000000000000000000000..a63d56f0ef50bdcf9b45b3ddf54939933aa2a2bc --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/106__hipt_256__val_fold-1/checkpoint_I0003520.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:0f8cf19aed420c1ff5582c53cb89603bba35709dce6e315acb24efa4fbf5d5f8 +size 11633434 diff --git a/hipt_256/02_spitz_genetic_aberration/106__hipt_256__val_fold-1/training.json b/hipt_256/02_spitz_genetic_aberration/106__hipt_256__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..da4f28192e0ebeebffb5adf2710d0af760988fad --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/106__hipt_256__val_fold-1/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "106__hipt_256__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 2, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/02_spitz_genetic_aberration/107__hipt_256__val_fold-2/checkpoint_I0010560.tar b/hipt_256/02_spitz_genetic_aberration/107__hipt_256__val_fold-2/checkpoint_I0010560.tar new file mode 100644 index 0000000000000000000000000000000000000000..2116d5ebb37d7bd6da868365ec84175d58fa3edb --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/107__hipt_256__val_fold-2/checkpoint_I0010560.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:dfbd6ef040aaa40b9f79e225db84cebf3faee32b0847b615787313518457d21f +size 11633434 diff --git a/hipt_256/02_spitz_genetic_aberration/107__hipt_256__val_fold-2/training.json b/hipt_256/02_spitz_genetic_aberration/107__hipt_256__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..ba2759d8d5d3dfe9a7aa0aa927335790c2d30dcd --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/107__hipt_256__val_fold-2/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "107__hipt_256__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/02_spitz_genetic_aberration/108__hipt_256__val_fold-3/checkpoint_I0008320.tar b/hipt_256/02_spitz_genetic_aberration/108__hipt_256__val_fold-3/checkpoint_I0008320.tar new file mode 100644 index 0000000000000000000000000000000000000000..a47544be2e0d095119ffebbcdf284a51ddcf2c4e --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/108__hipt_256__val_fold-3/checkpoint_I0008320.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:785cea3999373d7c23015dd0b2ba20f3b137f3f9cb5ad95709b7d18e60f82831 +size 11633434 diff --git a/hipt_256/02_spitz_genetic_aberration/108__hipt_256__val_fold-3/training.json b/hipt_256/02_spitz_genetic_aberration/108__hipt_256__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..ce9b5a8df9dbe0fce97e5b3e9a5a30b761a4d2d8 --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/108__hipt_256__val_fold-3/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "108__hipt_256__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/02_spitz_genetic_aberration/109__hipt_256__val_fold-4/checkpoint_I0004160.tar b/hipt_256/02_spitz_genetic_aberration/109__hipt_256__val_fold-4/checkpoint_I0004160.tar new file mode 100644 index 0000000000000000000000000000000000000000..8dfe721caf7d01b8b14c1bbfcc46d3237b51df4c --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/109__hipt_256__val_fold-4/checkpoint_I0004160.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b129f1ca9f0ee450d942199cf8690999e5b5ecde3499c5b1898f1dc495212c31 +size 11633434 diff --git a/hipt_256/02_spitz_genetic_aberration/109__hipt_256__val_fold-4/training.json b/hipt_256/02_spitz_genetic_aberration/109__hipt_256__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..a4747ec3dbd6776d32abe6482b98b71c565e1504 --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/109__hipt_256__val_fold-4/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "109__hipt_256__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 4, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/02_spitz_genetic_aberration/110__hipt_256__val_fold-5/checkpoint_I0032000.tar b/hipt_256/02_spitz_genetic_aberration/110__hipt_256__val_fold-5/checkpoint_I0032000.tar new file mode 100644 index 0000000000000000000000000000000000000000..a609b9dffe1d908041c22a80b1b98dd405264aaa --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/110__hipt_256__val_fold-5/checkpoint_I0032000.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6fd942f7c7bbd3c3c05f9bd23344d9f69bdd2b3db65c4c582f43046853ef14b4 +size 11633434 diff --git a/hipt_256/02_spitz_genetic_aberration/110__hipt_256__val_fold-5/training.json b/hipt_256/02_spitz_genetic_aberration/110__hipt_256__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..e30bbabb983c3d2bd42acb4ea2cdd1ec595100a6 --- /dev/null +++ b/hipt_256/02_spitz_genetic_aberration/110__hipt_256__val_fold-5/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "110__hipt_256__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/03_spitz_diagnostic_classification/111__hipt_256__val_fold-1/checkpoint_I0002880.tar b/hipt_256/03_spitz_diagnostic_classification/111__hipt_256__val_fold-1/checkpoint_I0002880.tar new file mode 100644 index 0000000000000000000000000000000000000000..81ec809e8bd44cf7e5901927c1b5a80b460a5108 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/111__hipt_256__val_fold-1/checkpoint_I0002880.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:cf5542317a4ca44359a6553180c8e5ad6ac2775a141bfa235b619248915c473c +size 11631130 diff --git a/hipt_256/03_spitz_diagnostic_classification/111__hipt_256__val_fold-1/training.json b/hipt_256/03_spitz_diagnostic_classification/111__hipt_256__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..edc2315a9adba6bd51c83201ae248e35b3227d16 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/111__hipt_256__val_fold-1/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "111__hipt_256__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/03_spitz_diagnostic_classification/112__hipt_256__val_fold-2/checkpoint_I0005120.tar b/hipt_256/03_spitz_diagnostic_classification/112__hipt_256__val_fold-2/checkpoint_I0005120.tar new file mode 100644 index 0000000000000000000000000000000000000000..96a0a307c8168e70605bfd187335c535e1f60e99 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/112__hipt_256__val_fold-2/checkpoint_I0005120.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:47d4d2328bddc8d516a6988daf16ad12e45455494cc8062a112dcd1e6ffd68f8 +size 11631130 diff --git a/hipt_256/03_spitz_diagnostic_classification/112__hipt_256__val_fold-2/training.json b/hipt_256/03_spitz_diagnostic_classification/112__hipt_256__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..5c8118604019d91b92092c5498b40e6b3134d493 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/112__hipt_256__val_fold-2/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "112__hipt_256__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/03_spitz_diagnostic_classification/113__hipt_256__val_fold-3/checkpoint_I0007040.tar b/hipt_256/03_spitz_diagnostic_classification/113__hipt_256__val_fold-3/checkpoint_I0007040.tar new file mode 100644 index 0000000000000000000000000000000000000000..fb86458b32957389f72cc2d4ee63e561c7d5d21d --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/113__hipt_256__val_fold-3/checkpoint_I0007040.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:e9a7f2f99320946ae54367462ad65f133e55e021128feb9f80b0daa460b2b6d7 +size 11631130 diff --git a/hipt_256/03_spitz_diagnostic_classification/113__hipt_256__val_fold-3/training.json b/hipt_256/03_spitz_diagnostic_classification/113__hipt_256__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..968cbf8e058167e4aca20986125bb664b7ac1367 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/113__hipt_256__val_fold-3/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "113__hipt_256__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/03_spitz_diagnostic_classification/114__hipt_256__val_fold-4/checkpoint_I0003520.tar b/hipt_256/03_spitz_diagnostic_classification/114__hipt_256__val_fold-4/checkpoint_I0003520.tar new file mode 100644 index 0000000000000000000000000000000000000000..def050114dfb072be156abb3dc28823079b7f768 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/114__hipt_256__val_fold-4/checkpoint_I0003520.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:a2ae0e0a811d8b551d84bcdd77c3be5bb84023c7b9f58d6c93c3524f29cd03aa +size 11631130 diff --git a/hipt_256/03_spitz_diagnostic_classification/114__hipt_256__val_fold-4/training.json b/hipt_256/03_spitz_diagnostic_classification/114__hipt_256__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..aac6857f5327b467a86f334c18961f1a8d3c16b6 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/114__hipt_256__val_fold-4/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "114__hipt_256__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_256/03_spitz_diagnostic_classification/115__hipt_256__val_fold-5/checkpoint_I0011200.tar b/hipt_256/03_spitz_diagnostic_classification/115__hipt_256__val_fold-5/checkpoint_I0011200.tar new file mode 100644 index 0000000000000000000000000000000000000000..6fa9cf34cf89f22bfe8ad6057bc14985fc1c356f --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/115__hipt_256__val_fold-5/checkpoint_I0011200.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:b315168eb126e99b8c69646f58475b9cb5b00f2cc7375ec2596fd87560044120 +size 11631130 diff --git a/hipt_256/03_spitz_diagnostic_classification/115__hipt_256__val_fold-5/training.json b/hipt_256/03_spitz_diagnostic_classification/115__hipt_256__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..f04e527f579d76e7736914683d03d22ae678e883 --- /dev/null +++ b/hipt_256/03_spitz_diagnostic_classification/115__hipt_256__val_fold-5/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "115__hipt_256__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 384, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/001__hipt_4k__val_fold-1/checkpoint_I0011840.tar b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/001__hipt_4k__val_fold-1/checkpoint_I0011840.tar new file mode 100644 index 0000000000000000000000000000000000000000..cce9a90a652b514b136e7589b042fa033b277ac2 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/001__hipt_4k__val_fold-1/checkpoint_I0011840.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1d03d6497b33bb9717f539f588a307fb16855b9f6e1e664121fc2b7b3489c4b4 +size 11184858 diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/001__hipt_4k__val_fold-1/training.json b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/001__hipt_4k__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..25f508400dc664cdbee3e46bf44c98c41e5c5986 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/001__hipt_4k__val_fold-1/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "001__hipt_4k__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/002__hipt_4k__val_fold-2/checkpoint_I0008960.tar b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/002__hipt_4k__val_fold-2/checkpoint_I0008960.tar new file mode 100644 index 0000000000000000000000000000000000000000..cfd24b12a102ee217cd54397a0288600403a5734 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/002__hipt_4k__val_fold-2/checkpoint_I0008960.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:4242b02cea4a6bfa6bac1621700e20a486a1b8947085805e8deff3530b7dd77a +size 11184858 diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/002__hipt_4k__val_fold-2/training.json b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/002__hipt_4k__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..d19ab53af199bbe2a591fcb2727d156cb8c83311 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/002__hipt_4k__val_fold-2/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "002__hipt_4k__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/003__hipt_4k__val_fold-3/checkpoint_I0020160.tar b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/003__hipt_4k__val_fold-3/checkpoint_I0020160.tar new file mode 100644 index 0000000000000000000000000000000000000000..ae4f524b323b9a5121b9ead745ce511139c2a111 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/003__hipt_4k__val_fold-3/checkpoint_I0020160.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:dd89a337144ff737b3b3cad2b5b8c128d4dae24e0edbe54673d53cb4c0f58aa0 +size 11184858 diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/003__hipt_4k__val_fold-3/training.json b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/003__hipt_4k__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..8abfcee02bad69111e682bde9c788a5a0be0b4a8 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/003__hipt_4k__val_fold-3/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "003__hipt_4k__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/004__hipt_4k__val_fold-4/checkpoint_I0009920.tar b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/004__hipt_4k__val_fold-4/checkpoint_I0009920.tar new file mode 100644 index 0000000000000000000000000000000000000000..657c165595fc31f578f0f4723537abd54c8aee1e --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/004__hipt_4k__val_fold-4/checkpoint_I0009920.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7a8af543f1fd61ede0e6c023fb08f987ba6cd01219fd6fffb1fce4a406956ae9 +size 11184858 diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/004__hipt_4k__val_fold-4/training.json b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/004__hipt_4k__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..3ca537197c50eb8b3175f1bf6bb6f615ac328901 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/004__hipt_4k__val_fold-4/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "004__hipt_4k__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/005__hipt_4k__val_fold-5/checkpoint_I0015040.tar b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/005__hipt_4k__val_fold-5/checkpoint_I0015040.tar new file mode 100644 index 0000000000000000000000000000000000000000..3c885344b1a0bb6a21cd073383bd607426b1dcbc --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/005__hipt_4k__val_fold-5/checkpoint_I0015040.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d8e694d0a5a60de4d9ecd1f1ad5c88efde2897bc8b3dea4ce07d9def8ac47144 +size 11184858 diff --git a/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/005__hipt_4k__val_fold-5/training.json b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/005__hipt_4k__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..48a037d84c2e9ffba23f73655e55aca817399a54 --- /dev/null +++ b/hipt_4k/01_spitz_tumor_vs_conventional_melanoma/005__hipt_4k__val_fold-5/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "005__hipt_4k__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/02_spitz_genetic_aberration/006__hipt_4k__val_fold-1/checkpoint_I0003840.tar b/hipt_4k/02_spitz_genetic_aberration/006__hipt_4k__val_fold-1/checkpoint_I0003840.tar new file mode 100644 index 0000000000000000000000000000000000000000..59b27ca5788d43e432566c9d7905d0af8500a8e2 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/006__hipt_4k__val_fold-1/checkpoint_I0003840.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:d577f8657cbd05dbf9cfa5d2b7e15fb69dae4cd4a4e39b94db4e3c7d76bcfe19 +size 11274752 diff --git a/hipt_4k/02_spitz_genetic_aberration/006__hipt_4k__val_fold-1/training.json b/hipt_4k/02_spitz_genetic_aberration/006__hipt_4k__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..1e48aac9d8115c427d9aba2bd4f30cf3cb5e4389 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/006__hipt_4k__val_fold-1/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "006__hipt_4k__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 3, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/02_spitz_genetic_aberration/007__hipt_4k__val_fold-2/checkpoint_I0004480.tar b/hipt_4k/02_spitz_genetic_aberration/007__hipt_4k__val_fold-2/checkpoint_I0004480.tar new file mode 100644 index 0000000000000000000000000000000000000000..260dc7a4bc351a2f5bf32e8c7ff4181e2374b063 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/007__hipt_4k__val_fold-2/checkpoint_I0004480.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:156cda380f451fade5f22392252954ff9f1b2b51809bafc397fa5ec935880103 +size 11189466 diff --git a/hipt_4k/02_spitz_genetic_aberration/007__hipt_4k__val_fold-2/training.json b/hipt_4k/02_spitz_genetic_aberration/007__hipt_4k__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..2b032e9f610dbf725fe40574bfabc423afcba688 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/007__hipt_4k__val_fold-2/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "007__hipt_4k__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 2, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/02_spitz_genetic_aberration/008__hipt_4k__val_fold-3/checkpoint_I0009280.tar b/hipt_4k/02_spitz_genetic_aberration/008__hipt_4k__val_fold-3/checkpoint_I0009280.tar new file mode 100644 index 0000000000000000000000000000000000000000..a20542adf5dfe39c4281af0113354be091e33a3a --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/008__hipt_4k__val_fold-3/checkpoint_I0009280.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6716c8e57f3016859ba2b31db30c674f3af9a9e7507dbbfe2eeedbe8bba04dcc +size 11189466 diff --git a/hipt_4k/02_spitz_genetic_aberration/008__hipt_4k__val_fold-3/training.json b/hipt_4k/02_spitz_genetic_aberration/008__hipt_4k__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..a0bdd4523acc6a48e2093a0c8af768bbd4e09857 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/008__hipt_4k__val_fold-3/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "008__hipt_4k__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/02_spitz_genetic_aberration/009__hipt_4k__val_fold-4/checkpoint_I0007680.tar b/hipt_4k/02_spitz_genetic_aberration/009__hipt_4k__val_fold-4/checkpoint_I0007680.tar new file mode 100644 index 0000000000000000000000000000000000000000..c31e373a829790441739065bd8d38389866a1591 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/009__hipt_4k__val_fold-4/checkpoint_I0007680.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:86e8890a83ef91cbce48a8cce071726ccb66cbe68617b448fb07364c60e4e3d9 +size 11189466 diff --git a/hipt_4k/02_spitz_genetic_aberration/009__hipt_4k__val_fold-4/training.json b/hipt_4k/02_spitz_genetic_aberration/009__hipt_4k__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..5cd22c35aa7ba426b4d3daad97a7aa480d5249f9 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/009__hipt_4k__val_fold-4/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "009__hipt_4k__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/02_spitz_genetic_aberration/010__hipt_4k__val_fold-5/checkpoint_I0009280.tar b/hipt_4k/02_spitz_genetic_aberration/010__hipt_4k__val_fold-5/checkpoint_I0009280.tar new file mode 100644 index 0000000000000000000000000000000000000000..8b6fe453d86bcaf5826d5fb8cbc67007bd0c9ae3 --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/010__hipt_4k__val_fold-5/checkpoint_I0009280.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:1f3a15e393080f4a95e6c0daef0be0f80d7d7a1ba5c2a43eeca138ecf03061ae +size 11189466 diff --git a/hipt_4k/02_spitz_genetic_aberration/010__hipt_4k__val_fold-5/training.json b/hipt_4k/02_spitz_genetic_aberration/010__hipt_4k__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..d5270056d71f41344af1d6485379bcd77001e03c --- /dev/null +++ b/hipt_4k/02_spitz_genetic_aberration/010__hipt_4k__val_fold-5/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "010__hipt_4k__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/03_spitz_diagnostic_classification/011__hipt_4k__val_fold-1/checkpoint_I0002560.tar b/hipt_4k/03_spitz_diagnostic_classification/011__hipt_4k__val_fold-1/checkpoint_I0002560.tar new file mode 100644 index 0000000000000000000000000000000000000000..b881a31f73987362dc2696d13d7a5f18a19b8133 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/011__hipt_4k__val_fold-1/checkpoint_I0002560.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9c1be358e75821d7b9ce3cdce19d13d69216c35526f7031c5650e113f0633de4 +size 11187162 diff --git a/hipt_4k/03_spitz_diagnostic_classification/011__hipt_4k__val_fold-1/training.json b/hipt_4k/03_spitz_diagnostic_classification/011__hipt_4k__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..2e69f4ad577bbef3b82333d11e297130d727a9ec --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/011__hipt_4k__val_fold-1/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "011__hipt_4k__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/03_spitz_diagnostic_classification/012__hipt_4k__val_fold-2/checkpoint_I0002560.tar b/hipt_4k/03_spitz_diagnostic_classification/012__hipt_4k__val_fold-2/checkpoint_I0002560.tar new file mode 100644 index 0000000000000000000000000000000000000000..c80064e369f8bd57d68d175e81ed80930704cc21 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/012__hipt_4k__val_fold-2/checkpoint_I0002560.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:ff55b400e90dd2f66c9c49412c2b4ec9785e961bd682c950e61e5ab08b4deeeb +size 11187162 diff --git a/hipt_4k/03_spitz_diagnostic_classification/012__hipt_4k__val_fold-2/training.json b/hipt_4k/03_spitz_diagnostic_classification/012__hipt_4k__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..88aaf45cbd0fae52b56bcc6cbb8d4dcd09fe0dc8 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/012__hipt_4k__val_fold-2/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "012__hipt_4k__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/03_spitz_diagnostic_classification/013__hipt_4k__val_fold-3/checkpoint_I0005440.tar b/hipt_4k/03_spitz_diagnostic_classification/013__hipt_4k__val_fold-3/checkpoint_I0005440.tar new file mode 100644 index 0000000000000000000000000000000000000000..a727aeb78c38f7995f517d21ae22adaeccde8d2e --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/013__hipt_4k__val_fold-3/checkpoint_I0005440.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:9d68cac19c2651df3f840224e516b029a26ced326ec892b660296e04e13a3c7c +size 11187162 diff --git a/hipt_4k/03_spitz_diagnostic_classification/013__hipt_4k__val_fold-3/training.json b/hipt_4k/03_spitz_diagnostic_classification/013__hipt_4k__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..f53123ef472b4076a268b89ae6f49c66e851ebc3 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/013__hipt_4k__val_fold-3/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "013__hipt_4k__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/03_spitz_diagnostic_classification/014__hipt_4k__val_fold-4/checkpoint_I0003840.tar b/hipt_4k/03_spitz_diagnostic_classification/014__hipt_4k__val_fold-4/checkpoint_I0003840.tar new file mode 100644 index 0000000000000000000000000000000000000000..c0f90f606d7c0c7ffb59998fb9f7da381f0a4876 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/014__hipt_4k__val_fold-4/checkpoint_I0003840.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:136e58a8166a4f3031048bb494f8994f6d83e49d36496540b385d52e271455b1 +size 11187162 diff --git a/hipt_4k/03_spitz_diagnostic_classification/014__hipt_4k__val_fold-4/training.json b/hipt_4k/03_spitz_diagnostic_classification/014__hipt_4k__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..3898dbe91fde6a7c13157c828fdc509395e581c7 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/014__hipt_4k__val_fold-4/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "014__hipt_4k__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/hipt_4k/03_spitz_diagnostic_classification/015__hipt_4k__val_fold-5/checkpoint_I0006080.tar b/hipt_4k/03_spitz_diagnostic_classification/015__hipt_4k__val_fold-5/checkpoint_I0006080.tar new file mode 100644 index 0000000000000000000000000000000000000000..97f6745c8a3390802fe8775308ac1cae634aa111 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/015__hipt_4k__val_fold-5/checkpoint_I0006080.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:6a1ea14fcf0c9ce9ba8b07d077aba85970300e9e17293f9387a0cbd309a7adcd +size 11187162 diff --git a/hipt_4k/03_spitz_diagnostic_classification/015__hipt_4k__val_fold-5/training.json b/hipt_4k/03_spitz_diagnostic_classification/015__hipt_4k__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..ca86d50e8adf6a7011a92805a687885407094156 --- /dev/null +++ b/hipt_4k/03_spitz_diagnostic_classification/015__hipt_4k__val_fold-5/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "015__hipt_4k__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 192, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/201__uni_224__val_fold-1/checkpoint_I0009920.tar b/uni_224/01_spitz_tumor_vs_conventional_melanoma/201__uni_224__val_fold-1/checkpoint_I0009920.tar new file mode 100644 index 0000000000000000000000000000000000000000..b37198ba7b5c067417345ca91c538c6fcf3721f1 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/201__uni_224__val_fold-1/checkpoint_I0009920.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:7292443dd708d68303a31375b15e05be93a1daefca7e7595341613b5e7e17926 +size 13103386 diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/201__uni_224__val_fold-1/training.json b/uni_224/01_spitz_tumor_vs_conventional_melanoma/201__uni_224__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..8c12d04924ce3afef0eca0ed5ae6caa8dae73908 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/201__uni_224__val_fold-1/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "201__uni_224__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/202__uni_224__val_fold-2/checkpoint_I0004800.tar b/uni_224/01_spitz_tumor_vs_conventional_melanoma/202__uni_224__val_fold-2/checkpoint_I0004800.tar new file mode 100644 index 0000000000000000000000000000000000000000..363cfc43b0840db423400288a28bf52b86324352 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/202__uni_224__val_fold-2/checkpoint_I0004800.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:cbaf21e2d3780b09113d82f1df7bf8b72f3349850477a69c79678497cab2a88c +size 13103386 diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/202__uni_224__val_fold-2/training.json b/uni_224/01_spitz_tumor_vs_conventional_melanoma/202__uni_224__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..9c519947ebe8fe9c47c5bec3b9091c601b522259 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/202__uni_224__val_fold-2/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "202__uni_224__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/203__uni_224__val_fold-3/checkpoint_I0009280.tar b/uni_224/01_spitz_tumor_vs_conventional_melanoma/203__uni_224__val_fold-3/checkpoint_I0009280.tar new file mode 100644 index 0000000000000000000000000000000000000000..23913c14d702f26ecbc882ef6ae78aeee338949f --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/203__uni_224__val_fold-3/checkpoint_I0009280.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:fe26620bc1a3dd7a4f159c08f609b0577a973794e77afb97b7e50f0751c338c8 +size 13103386 diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/203__uni_224__val_fold-3/training.json b/uni_224/01_spitz_tumor_vs_conventional_melanoma/203__uni_224__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..5f67e530e217a43a9b92cea654fb8a39ca1a9e69 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/203__uni_224__val_fold-3/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "203__uni_224__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/204__uni_224__val_fold-4/checkpoint_I0006720.tar b/uni_224/01_spitz_tumor_vs_conventional_melanoma/204__uni_224__val_fold-4/checkpoint_I0006720.tar new file mode 100644 index 0000000000000000000000000000000000000000..63c87f0b915499d38815ef98f6822c2c64244996 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/204__uni_224__val_fold-4/checkpoint_I0006720.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:aaa3796c13623dba538779c8234ade7da354dc7bc2283333754b68d460d86b04 +size 13103386 diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/204__uni_224__val_fold-4/training.json b/uni_224/01_spitz_tumor_vs_conventional_melanoma/204__uni_224__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..7a5dcba74f87d12c282f7ae758243ee7cdc010ae --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/204__uni_224__val_fold-4/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "204__uni_224__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/205__uni_224__val_fold-5/checkpoint_I0007360.tar b/uni_224/01_spitz_tumor_vs_conventional_melanoma/205__uni_224__val_fold-5/checkpoint_I0007360.tar new file mode 100644 index 0000000000000000000000000000000000000000..063099c440164f645209d5cdf050367449b2a334 --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/205__uni_224__val_fold-5/checkpoint_I0007360.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:c9de9b600d3a20215708b10d8ecf78de61d24a9d287d2e403106531cb694a2d5 +size 13103386 diff --git a/uni_224/01_spitz_tumor_vs_conventional_melanoma/205__uni_224__val_fold-5/training.json b/uni_224/01_spitz_tumor_vs_conventional_melanoma/205__uni_224__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..3671006be6d1ca03c4ad813123a8703610cbe96d --- /dev/null +++ b/uni_224/01_spitz_tumor_vs_conventional_melanoma/205__uni_224__val_fold-5/training.json @@ -0,0 +1,87 @@ +{ + "experiment_name": "205__uni_224__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz vs conventional melanoma", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 2, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/02_spitz_genetic_aberration/206__uni_224__val_fold-1/checkpoint_I0005120.tar b/uni_224/02_spitz_genetic_aberration/206__uni_224__val_fold-1/checkpoint_I0005120.tar new file mode 100644 index 0000000000000000000000000000000000000000..25c3d88b8d58cd2cf6c4a4e4bca26692703d46d9 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/206__uni_224__val_fold-1/checkpoint_I0005120.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:996fdf7d64d21fc3fb161cc908b0d3f59e7fa9e0c59411a434d976e044ac6b05 +size 13107994 diff --git a/uni_224/02_spitz_genetic_aberration/206__uni_224__val_fold-1/training.json b/uni_224/02_spitz_genetic_aberration/206__uni_224__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..005b19baf2b33015ddf99391c23a65e6c4123ca9 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/206__uni_224__val_fold-1/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "206__uni_224__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/02_spitz_genetic_aberration/207__uni_224__val_fold-2/checkpoint_I0005120.tar b/uni_224/02_spitz_genetic_aberration/207__uni_224__val_fold-2/checkpoint_I0005120.tar new file mode 100644 index 0000000000000000000000000000000000000000..10f80c708fc32dd23081bb40dd3ff311ec6a4aed --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/207__uni_224__val_fold-2/checkpoint_I0005120.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:91549fb29653144cbcd8645ca74482ff845e805f2c9df0068c581304958d2e70 +size 13107994 diff --git a/uni_224/02_spitz_genetic_aberration/207__uni_224__val_fold-2/training.json b/uni_224/02_spitz_genetic_aberration/207__uni_224__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..095fea569a8ae1c721b8690f0702fc309b801463 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/207__uni_224__val_fold-2/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "207__uni_224__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/02_spitz_genetic_aberration/208__uni_224__val_fold-3/checkpoint_I0008320.tar b/uni_224/02_spitz_genetic_aberration/208__uni_224__val_fold-3/checkpoint_I0008320.tar new file mode 100644 index 0000000000000000000000000000000000000000..2692afd3052f51e329f07354cd396685cfdb2ea8 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/208__uni_224__val_fold-3/checkpoint_I0008320.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:031b661f38d1e32caad18d0dccdff6c6ab8ab8ea8e65b1d39a684bfa7e7d69d3 +size 13107994 diff --git a/uni_224/02_spitz_genetic_aberration/208__uni_224__val_fold-3/training.json b/uni_224/02_spitz_genetic_aberration/208__uni_224__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..b042d9fbc894ded2af17dcc322749ebb4a22b685 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/208__uni_224__val_fold-3/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "208__uni_224__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/02_spitz_genetic_aberration/209__uni_224__val_fold-4/checkpoint_I0007040.tar b/uni_224/02_spitz_genetic_aberration/209__uni_224__val_fold-4/checkpoint_I0007040.tar new file mode 100644 index 0000000000000000000000000000000000000000..91e0a7269be101c74c24a8355effec6b11e6c049 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/209__uni_224__val_fold-4/checkpoint_I0007040.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:89d6a13bd36936d7235f098c7dcc2d39d1695e0b0b1960e40a85926c37c962bd +size 13107994 diff --git a/uni_224/02_spitz_genetic_aberration/209__uni_224__val_fold-4/training.json b/uni_224/02_spitz_genetic_aberration/209__uni_224__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..e67e15264598efdfca58735515ccbfa84d7bddae --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/209__uni_224__val_fold-4/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "209__uni_224__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/02_spitz_genetic_aberration/210__uni_224__val_fold-5/checkpoint_I0010880.tar b/uni_224/02_spitz_genetic_aberration/210__uni_224__val_fold-5/checkpoint_I0010880.tar new file mode 100644 index 0000000000000000000000000000000000000000..b6bb68081a13972e85ebfbf84d6215cfba0a109c --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/210__uni_224__val_fold-5/checkpoint_I0010880.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:f8d690130379147a76de0a72f6a5e89e3146914693300826593418df2c9ef211 +size 13107994 diff --git a/uni_224/02_spitz_genetic_aberration/210__uni_224__val_fold-5/training.json b/uni_224/02_spitz_genetic_aberration/210__uni_224__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..8841d6ec51ad66e83db3f58ebae8798f2187f701 --- /dev/null +++ b/uni_224/02_spitz_genetic_aberration/210__uni_224__val_fold-5/training.json @@ -0,0 +1,89 @@ +{ + "experiment_name": "210__uni_224__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz subtype", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 4, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": [ + 1, + 1, + 1, + 1 + ], + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/03_spitz_diagnostic_classification/211__uni_224__val_fold-1/checkpoint_I0001920.tar b/uni_224/03_spitz_diagnostic_classification/211__uni_224__val_fold-1/checkpoint_I0001920.tar new file mode 100644 index 0000000000000000000000000000000000000000..4cde58ca5bceb3914049333225f3acdf42061be1 --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/211__uni_224__val_fold-1/checkpoint_I0001920.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:03198d04102da765aa3a2511ff2c7d61d4f526862cbec9e0eaabbded92218efd +size 13105690 diff --git a/uni_224/03_spitz_diagnostic_classification/211__uni_224__val_fold-1/training.json b/uni_224/03_spitz_diagnostic_classification/211__uni_224__val_fold-1/training.json new file mode 100644 index 0000000000000000000000000000000000000000..c06978b2082d183cc1b36760a4bc1cb3d8e407fc --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/211__uni_224__val_fold-1/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "211__uni_224__val_fold-1", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-2", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-1" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/03_spitz_diagnostic_classification/212__uni_224__val_fold-2/checkpoint_I0002560.tar b/uni_224/03_spitz_diagnostic_classification/212__uni_224__val_fold-2/checkpoint_I0002560.tar new file mode 100644 index 0000000000000000000000000000000000000000..685f486f070e8c4572c009b2433d8a1140ffbfaf --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/212__uni_224__val_fold-2/checkpoint_I0002560.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:da0f8bb5655d2990500ead86935aa8e4c5141bb1ff1c3ad6c41bb2b3fefd16fa +size 13105690 diff --git a/uni_224/03_spitz_diagnostic_classification/212__uni_224__val_fold-2/training.json b/uni_224/03_spitz_diagnostic_classification/212__uni_224__val_fold-2/training.json new file mode 100644 index 0000000000000000000000000000000000000000..760726da285e556dae8301ca59d3fb295e3d7847 --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/212__uni_224__val_fold-2/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "212__uni_224__val_fold-2", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-3", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-2" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/03_spitz_diagnostic_classification/213__uni_224__val_fold-3/checkpoint_I0003840.tar b/uni_224/03_spitz_diagnostic_classification/213__uni_224__val_fold-3/checkpoint_I0003840.tar new file mode 100644 index 0000000000000000000000000000000000000000..b9c3d37a52462df0e6c94482538b30c69fa88fe7 --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/213__uni_224__val_fold-3/checkpoint_I0003840.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:92f391d361e0115be2048ceba98e630b0dd26f7a99dbe15108606215f7dbef87 +size 13105690 diff --git a/uni_224/03_spitz_diagnostic_classification/213__uni_224__val_fold-3/training.json b/uni_224/03_spitz_diagnostic_classification/213__uni_224__val_fold-3/training.json new file mode 100644 index 0000000000000000000000000000000000000000..678e6468f9282318f28e5d49628357885fb6f8fd --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/213__uni_224__val_fold-3/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "213__uni_224__val_fold-3", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-4", + "fold-5" + ], + "validation": [ + "fold-3" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/03_spitz_diagnostic_classification/214__uni_224__val_fold-4/checkpoint_I0002560.tar b/uni_224/03_spitz_diagnostic_classification/214__uni_224__val_fold-4/checkpoint_I0002560.tar new file mode 100644 index 0000000000000000000000000000000000000000..6264900f57ecc16fea50e4f399e96ec64f34c28f --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/214__uni_224__val_fold-4/checkpoint_I0002560.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:e3e655bd717e35849dcde8b32b8f1b5eb74b71d26e65357f101212bb2d68cd2d +size 13105690 diff --git a/uni_224/03_spitz_diagnostic_classification/214__uni_224__val_fold-4/training.json b/uni_224/03_spitz_diagnostic_classification/214__uni_224__val_fold-4/training.json new file mode 100644 index 0000000000000000000000000000000000000000..e7b47baaea4e14cdfcc57b11dc4519c0e489a4f3 --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/214__uni_224__val_fold-4/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "214__uni_224__val_fold-4", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-5" + ], + "validation": [ + "fold-4" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file diff --git a/uni_224/03_spitz_diagnostic_classification/215__uni_224__val_fold-5/checkpoint_I0005440.tar b/uni_224/03_spitz_diagnostic_classification/215__uni_224__val_fold-5/checkpoint_I0005440.tar new file mode 100644 index 0000000000000000000000000000000000000000..0d4dcb4d82b4aaced988b6018b0f2d5d0b13045f --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/215__uni_224__val_fold-5/checkpoint_I0005440.tar @@ -0,0 +1,3 @@ +version https://git-lfs.github.com/spec/v1 +oid sha256:fdd52f61af30b1992b5d35cbc37348a61f9532c8a69ad6c10a2641b23fab2a51 +size 13105690 diff --git a/uni_224/03_spitz_diagnostic_classification/215__uni_224__val_fold-5/training.json b/uni_224/03_spitz_diagnostic_classification/215__uni_224__val_fold-5/training.json new file mode 100644 index 0000000000000000000000000000000000000000..bbc6835a00aba87f87f08b390b0e35094f41b5c7 --- /dev/null +++ b/uni_224/03_spitz_diagnostic_classification/215__uni_224__val_fold-5/training.json @@ -0,0 +1,84 @@ +{ + "experiment_name": "215__uni_224__val_fold-5", + "config_file": "training.json", + "subsets_file": "subsets.json", + "subsets_config": { + "training": [ + "fold-1", + "fold-2", + "fold-3", + "fold-4" + ], + "validation": [ + "fold-5" + ], + "test": [ + "test" + ] + }, + "variant": "dataset", + "origin": [ + "internal" + ], + "rank": [ + 1, + 2, + 3, + 4, + 5, + 6, + 7, + 8, + 9, + 10, + 11, + 12, + 13, + 14, + 15 + ], + "task": "spitz dignity", + "seed": 1, + "model": "ViT", + "model_config": { + "tile_shape": null, + "model_arguments": { + "input_shape": null, + "patch_shape": null, + "input_dim": 1024, + "embed_dim": 192, + "patient_dim": null, + "n_classes": 3, + "depth": 2, + "n_heads": 4, + "mlp_ratio": 4, + "patient_token": false, + "pos_embed": false, + "learnable_weight": false, + "dropout_prob": 0.0, + "attn_dropout_prob": 0.5, + "drop_path_rate": 0.0, + "pytorch_attn_imp": false + }, + "compile_model": false + }, + "training_config": { + "learning_rate": 5e-05, + "iterations": 32000, + "iterations_per_decay": 6400, + "decay_factor": 0.5, + "iterations_per_checkpoint": 320, + "iterations_per_update": 32, + "eval_repetitions": 1, + "batch_size": 1, + "optimizer": "AdamW", + "loss_function": "CrossEntropyLoss", + "focal_gamma": 0.0, + "class_weights": "balanced", + "section_dropout_prob": 0.0, + "feature_dropout_prob": 0.5, + "maximum_features": 25000, + "patient_mul_factor": 1.0 + }, + "save_all_checkpoints": false +} \ No newline at end of file