import os join = os.path.join import torch import torch.nn as nn from segment_anything.modeling import Sam class MedSAM(nn.Module): """MedSAM implementation freeze image encoder and prompt encoder, tune mask decoder Args: sam: segment anything model, see 'segment_anything' dir """ def __init__(self, sam: Sam): super().__init__() # freeze SAM image and prompt encoder for param in sam.image_encoder.parameters(): param.requires_grad = False for param in sam.prompt_encoder.parameters(): param.requires_grad = False self.sam = sam def save_parameters(self) -> dict: r"""save both image encoder and mask decoder parameters. """ if isinstance(self.sam, torch.nn.DataParallel) or isinstance(self.sam, torch.nn.parallel.DistributedDataParallel): state_dict = self.sam.module.state_dict() else: state_dict = self.sam.state_dict() # save image encoder parameters image_encoder_tensors = {} # for key, value in state_dict.items(): # if 'image_encoder' in key: # image_encoder_tensors[key] = value # save prompt encoder parameters prompt_encoder_tensors = {} # for key, value in state_dict.items(): # if 'prompt_encoder' in key: # prompt_encoder_tensors[key] = value # save mask decoder parameters mask_decoder_tensors = {} for key, value in state_dict.items(): if 'mask_decoder' in key: mask_decoder_tensors[key] = value merged_dict = {**image_encoder_tensors, **prompt_encoder_tensors, **mask_decoder_tensors} return merged_dict def load_parameters(self, state_dict) -> None: r"""load both image encoder and mask decoder parameters. """ sam_dict = self.sam.state_dict() sam_keys = sam_dict.keys() # load image encoder parameters # image_encoder_keys = [k for k in sam_keys if 'image_encoder' in k] # image_encoder_values = [state_dict[k] for k in image_encoder_keys] # image_encoder_new_state_dict = {k: v for k, v in zip(image_encoder_keys, image_encoder_values)} # sam_dict.update(image_encoder_new_state_dict) # load prompt encoder parameters # prompt_encoder_keys = [k for k in sam_keys if 'prompt_encoder' in k] # prompt_encoder_values = [state_dict[k] for k in prompt_encoder_keys] # prompt_encoder_new_state_dict = {k: v for k, v in zip(prompt_encoder_keys, prompt_encoder_values)} # sam_dict.update(prompt_encoder_new_state_dict) # load mask decoder parameters mask_decoder_keys = [k for k in sam_keys if 'mask_decoder' in k] mask_decoder_values = [state_dict[k] for k in mask_decoder_keys] mask_decoder_new_state_dict = {k: v for k, v in zip(mask_decoder_keys, mask_decoder_values)} sam_dict.update(mask_decoder_new_state_dict) self.sam.load_state_dict(sam_dict) def forward(self, data): img, box = data['img'], data['box'] # prompt encoder if len(box.shape) == 2: box = box[:, None, :] # (B, 1, 4) sparse_embeddings, dense_embeddings = self.sam.prompt_encoder( points=None, boxes=box, masks=None, ) # image encoder input_image = self.sam.preprocess(img) # (B, 3, 1024, 1024) image_embedding = self.sam.image_encoder(input_image) # (B, 256, 64, 64) # predicted masks mask_predictions, _ = self.sam.mask_decoder( image_embeddings=image_embedding, # (B, 256, 64, 64) image_pe=self.sam.prompt_encoder.get_dense_pe(), # (B, 256, 64, 64) sparse_prompt_embeddings=sparse_embeddings, # (B, 2, 256) dense_prompt_embeddings=dense_embeddings, # (B, 256, 64, 64) multimask_output=True, ) return mask_predictions