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lidm/config.json

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+{
+  "_class_name": "UNet2DConditionModel",
+  "_diffusers_version": "0.32.2",
+  "act_fn": "silu",
+  "addition_embed_type": null,
+  "addition_embed_type_num_heads": 64,
+  "addition_time_embed_dim": null,
+  "attention_head_dim": 8,
+  "attention_type": "default",
+  "block_out_channels": [
+    128,
+    256,
+    256,
+    512
+  ],
+  "center_input_sample": false,
+  "class_embed_type": null,
+  "class_embeddings_concat": false,
+  "conv_in_kernel": 3,
+  "conv_out_kernel": 3,
+  "cross_attention_dim": 1,
+  "cross_attention_norm": null,
+  "decay": 0.9999,
+  "down_block_types": [
+    "AttnDownBlock2D",
+    "AttnDownBlock2D",
+    "AttnDownBlock2D",
+    "DownBlock2D"
+  ],
+  "downsample_padding": 1,
+  "dropout": 0.0,
+  "dual_cross_attention": false,
+  "encoder_hid_dim": null,
+  "encoder_hid_dim_type": null,
+  "flip_sin_to_cos": true,
+  "freq_shift": 0,
+  "in_channels": 4,
+  "inv_gamma": 1.0,
+  "layers_per_block": 2,
+  "mid_block_only_cross_attention": null,
+  "mid_block_scale_factor": 1,
+  "mid_block_type": "UNetMidBlock2DCrossAttn",
+  "min_decay": 0.0,
+  "norm_eps": 1e-05,
+  "norm_num_groups": 32,
+  "num_attention_heads": null,
+  "num_class_embeds": null,
+  "only_cross_attention": false,
+  "optimization_step": 4800,
+  "out_channels": 4,
+  "power": 0.6666666666666666,
+  "projection_class_embeddings_input_dim": null,
+  "resnet_out_scale_factor": 1.0,
+  "resnet_skip_time_act": false,
+  "resnet_time_scale_shift": "default",
+  "reverse_transformer_layers_per_block": null,
+  "sample_size": 14,
+  "time_cond_proj_dim": null,
+  "time_embedding_act_fn": null,
+  "time_embedding_dim": null,
+  "time_embedding_type": "positional",
+  "timestep_post_act": null,
+  "transformer_layers_per_block": 1,
+  "up_block_types": [
+    "UpBlock2D",
+    "AttnUpBlock2D",
+    "AttnUpBlock2D",
+    "AttnUpBlock2D"
+  ],
+  "upcast_attention": false,
+  "update_after_step": 0,
+  "use_ema_warmup": false,
+  "use_linear_projection": false
+}

lidm/config.yaml

@@ -0,0 +1,108 @@
+wandb_group: lidm_cardiacnet
+output_dir: /nfs/usrhome/khmuhammad/Echodream/experiments/lidm_cardiacnet
+vae_path: /nfs/usrhome/khmuhammad/Echodream/models/vae
+globals:
+  target_fps: 32
+  target_nframes: 64
+  outputs:
+  - image
+  - class_id
+datasets:
+- name: CardiacNetLatent
+  active: true
+  params:
+    root: /nfs/usrhome/khmuhammad/Echodream/data/latents/cardiacnet
+    target_fps: ${globals.target_fps}
+    target_nframes: ${globals.target_nframes}
+    target_resolution: 14
+    outputs: ${globals.outputs}
+unet:
+  _class_name: UNet2DConditionModel
+  sample_size: 14
+  in_channels: 4
+  out_channels: 4
+  center_input_sample: false
+  time_embedding_type: positional
+  freq_shift: 0
+  flip_sin_to_cos: true
+  down_block_types:
+  - AttnDownBlock2D
+  - AttnDownBlock2D
+  - AttnDownBlock2D
+  - DownBlock2D
+  up_block_types:
+  - UpBlock2D
+  - AttnUpBlock2D
+  - AttnUpBlock2D
+  - AttnUpBlock2D
+  block_out_channels:
+  - 128
+  - 256
+  - 256
+  - 512
+  layers_per_block: 2
+  mid_block_scale_factor: 1
+  downsample_padding: 1
+  dropout: 0.0
+  act_fn: silu
+  cross_attention_dim: 1
+  norm_eps: 1.0e-05
+noise_scheduler:
+  _class_name: DDPMScheduler
+  num_train_timesteps: 1000
+  beta_start: 0.0001
+  beta_end: 0.02
+  beta_schedule: linear
+  variance_type: fixed_small
+  clip_sample: true
+  clip_sample_range: 4.0
+  prediction_type: v_prediction
+  thresholding: false
+  dynamic_thresholding_ratio: 0.995
+  sample_max_value: 1.0
+  timestep_spacing: leading
+  steps_offset: 0
+training_mode: diffusion
+train_batch_size: 256
+dataloader_num_workers: 16
+max_train_steps: 5000
+training_conditioning_type: class_id
+learning_rate: 0.0003
+lr_warmup_steps: 500
+scale_lr: false
+lr_scheduler: constant
+use_8bit_adam: false
+gradient_accumulation_steps: 1
+noise_offset: 0.0
+drop_conditionning: 0.1
+gradient_checkpointing: false
+use_ema: true
+enable_xformers_memory_efficient_attention: false
+allow_tf32: true
+adam_beta1: 0.9
+adam_beta2: 0.999
+adam_weight_decay: 0.01
+adam_epsilon: 1.0e-08
+max_grad_norm: 1.0
+logging_dir: logs
+mixed_precision: fp16
+validation_timesteps: 128
+validation_fps: ${globals.target_fps}
+validation_frames: ${globals.target_nframes}
+validation_count: 4
+validation_guidance: 1.0
+validation_steps: 100
+validation_conditioning_type: class_id
+report_to: wandb
+checkpointing_steps: 100
+checkpoints_total_limit: 50
+resume_from_checkpoint: null
+tracker_project_name: echo-dream
+seed: 42
+text_encoder_path: openai/clip-vit-large-patch14
+pretrained_model_name_or_path: openai/clip-vit-large-patch14
+tokenizer_path: openai/clip-vit-large-patch14
+train_text_encoder: false
+condition_guidance_scale: 5.0
+num_validation_samples: 4
+num_train_epochs: 5000

lidm/diffusion_pytorch_model.safetensors

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lvdm/config.json

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+{
+  "_class_name": "UNetSpatioTemporalConditionModel",
+  "_diffusers_version": "0.32.2",
+  "addition_time_embed_dim": 1,
+  "block_out_channels": [
+    128,
+    256,
+    256,
+    512
+  ],
+  "cross_attention_dim": 1,
+  "decay": 0.9999,
+  "down_block_types": [
+    "CrossAttnDownBlockSpatioTemporal",
+    "CrossAttnDownBlockSpatioTemporal",
+    "CrossAttnDownBlockSpatioTemporal",
+    "DownBlockSpatioTemporal"
+  ],
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+  "inv_gamma": 1.0,
+  "layers_per_block": 2,
+  "min_decay": 0.0,
+  "num_attention_heads": [
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+    32
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+  "num_frames": 64,
+  "optimization_step": 100000,
+  "out_channels": 4,
+  "power": 0.6666666666666666,
+  "projection_class_embeddings_input_dim": 1,
+  "sample_size": 14,
+  "transformer_layers_per_block": 1,
+  "up_block_types": [
+    "UpBlockSpatioTemporal",
+    "CrossAttnUpBlockSpatioTemporal",
+    "CrossAttnUpBlockSpatioTemporal",
+    "CrossAttnUpBlockSpatioTemporal"
+  ],
+  "update_after_step": 0,
+  "use_ema_warmup": false
+}

lvdm/config.yaml

@@ -0,0 +1,125 @@
+wandb_group: lvdm_cardiacnet
+output_dir: /nfs/usrhome/khmuhammad/Echodream/experiments/cardiacnet_with_both_cfg
+vae_path: /nfs/usrhome/khmuhammad/Echodream/models/vae
+globals:
+  target_fps: 32
+  target_nframes: 64
+  outputs:
+  - video
+  - class_id
+  - image
+datasets:
+- name: CardiacNetLatent
+  active: true
+  params:
+    root: /nfs/usrhome/khmuhammad/Echodream/data/latents/cardiacnet
+    target_fps: ${globals.target_fps}
+    target_nframes: ${globals.target_nframes}
+    target_resolution: 14
+    outputs: ${globals.outputs}
+unet:
+  _class_name: UNetSpatioTemporalConditionModel
+  addition_time_embed_dim: 1
+  block_out_channels:
+  - 128
+  - 256
+  - 256
+  - 512
+  cross_attention_dim: 1
+  down_block_types:
+  - CrossAttnDownBlockSpatioTemporal
+  - CrossAttnDownBlockSpatioTemporal
+  - CrossAttnDownBlockSpatioTemporal
+  - DownBlockSpatioTemporal
+  in_channels: 8
+  layers_per_block: 2
+  num_attention_heads:
+  - 8
+  - 16
+  - 16
+  - 32
+  num_frames: ${globals.target_nframes}
+  out_channels: 4
+  projection_class_embeddings_input_dim: 1
+  sample_size: 14
+  transformer_layers_per_block: 1
+  up_block_types:
+  - UpBlockSpatioTemporal
+  - CrossAttnUpBlockSpatioTemporal
+  - CrossAttnUpBlockSpatioTemporal
+  - CrossAttnUpBlockSpatioTemporal
+noise_scheduler:
+  _class_name: DDPMScheduler
+  num_train_timesteps: 1000
+  beta_start: 0.0001
+  beta_end: 0.02
+  beta_schedule: linear
+  variance_type: fixed_small
+  clip_sample: true
+  clip_sample_range: 4.0
+  prediction_type: v_prediction
+  thresholding: false
+  dynamic_thresholding_ratio: 0.995
+  sample_max_value: 1.0
+  timestep_spacing: leading
+  steps_offset: 0
+training_mode: diffusion
+train_batch_size: 4
+dataloader_num_workers: 16
+max_train_steps: 100000
+training_conditioning_type: class_id
+learning_rate: 1.0e-05
+lr_warmup_steps: 500
+scale_lr: false
+lr_scheduler: constant
+use_8bit_adam: false
+gradient_accumulation_steps: 1
+noise_offset: 0.1
+drop_conditionning: 0.1
+gradient_checkpointing: false
+use_ema: true
+enable_xformers_memory_efficient_attention: false
+allow_tf32: true
+adam_beta1: 0.9
+adam_beta2: 0.999
+adam_weight_decay: 0.01
+adam_epsilon: 1.0e-08
+max_grad_norm: 1.0
+logging_dir: logs
+mixed_precision: fp16
+validation_timesteps: 128
+validation_fps: ${globals.target_fps}
+validation_frames: ${globals.target_nframes}
+validation_lvefs:
+- 0.0
+- 0.4
+- 0.7
+- 1.0
+validation_class_ids:
+- 0
+- 1
+- 2
+- 2
+validation_texts:
+- '0.0'
+- '0.4'
+- '0.7'
+- '1.0'
+num_validation_samples: 4
+validation_guidance: 1.0
+validation_steps: 1000
+validation_conditioning_type: class_id
+report_to: wandb
+checkpointing_steps: 1000
+checkpoints_total_limit: 50
+resume_from_checkpoint: null
+tracker_project_name: echo-dream
+seed: 42
+text_encoder_path: openai/clip-vit-large-patch14
+pretrained_model_name_or_path: openai/clip-vit-large-patch14
+tokenizer_path: openai/clip-vit-large-patch14
+train_text_encoder: false
+guidance_scale_class: 5.0
+guidance_scale_frame: 1.0
+use_separate_guidance: true
+num_train_epochs: 2858

lvdm/diffusion_pytorch_model.safetensors

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reidentification/config.json

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+{
+	"experiment_description": "reidentification_cardiacnet",
+	"resumption": false,
+	"resumption_count": null,
+	"previous_experiment": null,
+	"image_path": "/nfs/usrhome/khmuhammad/Echodream/data/latents/cardiacnet/FileList.csv",
+	"siamese_architecture": "ResNet-50",
+	"data_handling": "balanced",
+	"num_workers": 16,
+	"pin_memory": true,
+	"n_channels": 4,
+	"n_features": 128,
+	"image_size": 14,
+	"loss": "BCEWithLogitsLoss",
+	"optimizer": "Adam",
+	"learning_rate": 0.0001,
+	"batch_size": 128,
+	"max_epochs": 1000,
+	"early_stopping": 50,
+	"transform": "pmone",
+	"n_samples_train": 7465,
+	"n_samples_val": 1288,
+	"n_samples_test": 1277
+}

reidentification/reidentification_cardiacnet_AUC_confidence.txt

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+AUC_mean: 0.8966665273421355
+Confidence interval for the AUC score: 0.8135332564398309 - 0.9645224171539961

reidentification/reidentification_cardiacnet_ROC_metrics.txt

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+FP_rate	TP_rate	Threshold
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+1.0	1.0	0.0038780852

reidentification/reidentification_cardiacnet_best_network.pth

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reidentification/reidentification_cardiacnet_checkpoint.pth

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reidentification/reidentification_cardiacnet_labels_predictions.txt

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reidentification/reidentification_cardiacnet_loss_values.txt

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reidentification/reidentification_cardiacnet_results.txt

@@ -0,0 +1,16 @@
+AUC: 0.8945924764890283
+Accuracy: 0.8725490196078431
+F1-Score: 0.8888888888888888
+Precision: 0.8813559322033898
+Recall: 0.896551724137931
+Classification report:               precision    recall  f1-score   support
+
+         0.0       0.86      0.84      0.85        44
+         1.0       0.88      0.90      0.89        58
+
+    accuracy                           0.87       102
+   macro avg       0.87      0.87      0.87       102
+weighted avg       0.87      0.87      0.87       102
+
+Confusion matrix: [[37  7]
+ [ 6 52]]

vae/config.json

@@ -0,0 +1,31 @@
+{
+  "_class_name": "AutoencoderKL",
+  "_diffusers_version": "0.23.1",
+  "act_fn": "silu",
+  "block_out_channels": [
+    128,
+    256,
+    256,
+    512
+  ],
+  "down_block_types": [
+    "DownEncoderBlock2D",
+    "DownEncoderBlock2D",
+    "DownEncoderBlock2D",
+    "DownEncoderBlock2D"
+  ],
+  "force_upcast": true,
+  "in_channels": 3,
+  "latent_channels": 4,
+  "layers_per_block": 2,
+  "norm_num_groups": 32,
+  "out_channels": 3,
+  "sample_size": 512,
+  "scaling_factor": 0.18215,
+  "up_block_types": [
+    "UpDecoderBlock2D",
+    "UpDecoderBlock2D",
+    "UpDecoderBlock2D",
+    "UpDecoderBlock2D"
+  ]
+}

vae/diffusion_pytorch_model.safetensors

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+size 249675844