import os.path from cellpose import io, models, train from pathlib import Path from omegaconf import OmegaConf CONFIG_PATH = Path(__file__).parent / "config.yaml" cfg = OmegaConf.load(CONFIG_PATH) cfg.data.root_dir = str((CONFIG_PATH.parent / cfg.data.root_dir).resolve()) BASE_DIR = cfg.data.root_dir TEST_TRAIN_DIR = cfg.data.train.test_train_dir TEST_TEST_DIR = cfg.data.train.test_test_dir class Cptrain: @classmethod def train_test(cls): train_dir = TEST_TRAIN_DIR test_dir = TEST_TEST_DIR os.makedirs(train_dir, exist_ok=True) os.makedirs(test_dir, exist_ok=True) io.logger_setup() output = io.load_train_test_data(train_dir, test_dir, image_filter="_img", mask_filter="_masks", look_one_level_down=False) images, labels, image_names, test_images, test_labels, image_names_test = output model = models.CellposeModel(gpu=True) model_path, train_losses, test_losses = train.train_seg(model.net, train_data=images, train_labels=labels, test_data=test_images, test_labels=test_labels, weight_decay=0.1, learning_rate=1e-5, n_epochs=100, model_name="my_new_model")