import os from hashlib import sha1 import numpy as np import matplotlib.pyplot as plt from matplotlib import cm from mpl_toolkits.mplot3d.axes3d import Axes3D from mpl_toolkits.mplot3d import proj3d from atoms_detection.dl_detection import DLDetection from atoms_detection.dataset import CoordinatesDataset from utils.constants import Split, ModelArgs from utils.paths import PT_DATASET, PREDS_PATH, DETECTION_PATH,LANDS_VIS_PATH threshold = 0.89 extension_name = "replicate" detections_path = os.path.join(DETECTION_PATH, f"dl_detection_{extension_name}_{threshold}") inference_cache_path = os.path.join(PREDS_PATH, os.path.basename(detections_path)) def get_pred_map(img_filename: str) -> np.ndarray: img_hash = sha1(img_filename.encode()).hexdigest() prediciton_cache = os.path.join(inference_cache_path, f"{img_hash}.npy") if not os.path.exists(prediciton_cache): detection = DLDetection( model_name=ModelArgs.BASICCNN, ckpt_filename="/home/fpares/PycharmProjects/stem_atoms/models/basic_replicate.ckpt", dataset_csv="/home/fpares/PycharmProjects/stem_atoms/dataset/Coordinate_image_pairs.csv", threshold=threshold, detections_path=detections_path ) img = DLDetection.open_image(image_path) pred_map = detection.image_to_pred_map(img) np.save(prediciton_cache, pred_map) else: pred_map = np.load(prediciton_cache) return pred_map def short_proj(): return np.dot(Axes3D.get_proj(ax), scale) if not os.path.exists(LANDS_VIS_PATH): os.makedirs(LANDS_VIS_PATH) coordinates_dataset = CoordinatesDataset(PT_DATASET) for image_path, coordinates_path in coordinates_dataset.iterate_data(Split.TEST): pred_map = get_pred_map(image_path) """ Scaling is done from here... """ x_scale = 1 y_scale = 1 z_scale = 0.1 scale = np.diag([x_scale, y_scale, z_scale, 1.0]) scale = scale * (1.0 / scale.max()) scale[3, 3] = 1.0 X = np.arange(0, 512, 1) Y = np.arange(0, 512, 1) X, Y = np.meshgrid(X, Y) # fig, ax = plt.subplots(subplot_kw={"projection": "3d"}) fig = plt.figure(figsize=(10, 10)) ax = fig.gca(projection='3d') ax.get_proj = short_proj surf = ax.plot_surface(X, Y, pred_map, cmap=cm.coolwarm, rstride=2, cstride=2, linewidth=0.2, antialiased=True) ax.set_axis_off() img_name = os.path.splitext(os.path.basename(image_path))[0] landscape_output_path = os.path.join(LANDS_VIS_PATH, f"{img_name}_landscape_{extension_name}_{threshold}.png") plt.savefig(landscape_output_path, bbox_inches='tight', pad_inches=0.0, transparent=True) # plt.show()