issues that were discovered during biohackathon 2019 in Paris

model-command/src/main/java/lcsb/mapviewer/commands/layout/ApplySimpleLayoutModelCommand.java

@@ -427,8 +427,14 @@ public class ApplySimpleLayoutModelCommand extends ApplyLayoutModelCommand {
   }
 
   protected Dimension2D estimateDimension(Collection<BioEntity> bioEntites) {
-    double suggestedSize = Math.max(100 * bioEntites.size() / 4,
-        Math.sqrt((SPECIES_WIDTH + 10) * (SPECIES_HEIGHT + 10) * bioEntites.size()));
+    int elementsCount = 0;
+    for (BioEntity bioEntity : bioEntites) {
+      if (bioEntity instanceof Element) {
+        elementsCount++;
+      }
+    }
+    double suggestedSize = Math.max(100 * elementsCount,
+        Math.sqrt((SPECIES_WIDTH + 10) * (SPECIES_HEIGHT + 10) * elementsCount));
     if (bioEntites.size() > 0) {
       suggestedSize = Math.max(suggestedSize, 2 * (SPECIES_WIDTH + 10));
     }