# -*- coding: utf-8 -*- import os import numpy as np import umap from iss.tools import Tools from iss.clustering import AbstractClustering from sklearn.cluster import KMeans from sklearn.metrics import silhouette_samples from sklearn.externals import joblib class N2DClustering(AbstractClustering): """ Cf: https://github.com/rymc/n2d """ def __init__(self, config, pictures_id = None, pictures_np = None): super().__init__(config, pictures_id, pictures_np) self.umap_args = self.config['umap'] self.umap_fit = None self.umap_embedding = None self.kmeans_fit = None self.kmeans_args = self.config['kmeans'] self.kmeans_labels = None self.kmeans_centers = [] self.kmeans_save_name = "kmeans_model_v%s.pkl" % (self.config['version']) def compute_umap(self): self.umap_fit = umap.UMAP(**self.umap_args) self.umap_embedding = self.umap_fit.fit_transform(self.pictures_np) return self def compute_kmeans(self): self.kmeans_fit = KMeans(**self.kmeans_args) self.kmeans_fit.fit(self.umap_embedding) self.kmeans_labels = self.kmeans_fit.labels_ return self def compute_final_labels(self): self.final_labels = self.kmeans_labels return self def compute_silhouette_score(self): self.silhouette_score = silhouette_samples(self.pictures_np, self.final_labels) self.silhouette_score_labels = {cluster: np.mean(self.silhouette_score[self.final_labels == cluster]) for cluster in np.unique(self.final_labels)} return self.silhouette_score_labels