add log messages tracking how many cells were removed through filtering

src/sparcscore/pipeline/workflows.py

@@ -951,10 +951,17 @@ def cellpose_segmentation(self, input_image):
 
         else:
 
+            self.log(
+                " Performing filtering to match Cytosol and Nucleus IDs."
+            )
+
             # perform filtering to remove cytosols which do not have a corresponding nucleus
             filter = MatchNucleusCytosolIds(filtering_threshold = self.config["filtering_threshold"])
             masks_nucleus, masks_cytosol = filter.filter(masks_nucleus, masks_cytosol)
 
+            self.log(f"Removed {len(filter.nuclei_discard_list)} nuclei and {len(filter.cytosol_discard_list)} cytosols due to filtering.")
+            self.log(f"After filtering, {len(filter.nucleus_lookup_dict)} matching nuclei and cytosol masks remain.")
+
             if self.debug:
                 # plot nucleus and cytosol masks before and after filtering
                 fig, axs = plt.subplots(2, 2, figsize=(8, 8))