raise warnings when necessary

CHANGELOG

@@ -17,6 +17,8 @@ minerva (15.1.0) unstable; urgency=medium
     exported to SBGN PD (#1302)
   * Small improvement: Unknown Transition Reaction is exported to GPML as
     CONVERSION (#1300)
+  * Small improvement: when uploading complex map with images warnings are
+    raised if images are not referenced in coords.txt file (#1308)
   * Bug fix: export to image from selected polygon contained all elements
     inside rectangle bounded by the polygon coordinates (#1096)
   * Bug fix: continuous refreshing list of project when uploading/removing

converter/src/main/java/lcsb/mapviewer/converter/OverviewParser.java

 package lcsb.mapviewer.converter;
 
-import java.awt.*;
+import java.awt.Polygon;
 import java.awt.geom.Area;
 import java.awt.geom.Point2D;
 import java.awt.image.BufferedImage;
 import java.io.*;
 import java.util.*;
-import java.util.List;
 import java.util.zip.ZipEntry;
 import java.util.zip.ZipFile;
 
@@ -350,6 +349,30 @@ public class OverviewParser {
       }
     }
 
+    if (images.size() > 1) {
+      Set<OverviewImage> usedImages = new HashSet<>();
+      Set<OverviewImage> childImages = new HashSet<>();
+      for (OverviewImage image : images) {
+        if (image.getLinks().size() > 0) {
+          usedImages.add(image);
+        }
+        for (OverviewLink link : image.getLinks()) {
+          if (link instanceof OverviewImageLink) {
+            usedImages.add(((OverviewImageLink) link).getLinkedOverviewImage());
+            childImages.add(((OverviewImageLink) link).getLinkedOverviewImage());
+          }
+        }
+      }
+      for (OverviewImage image : images) {
+        if (!usedImages.contains(image)) {
+          logger.warn("Image is not referenced in coordinates file: " + image.getFilename());
+        }
+      }
+      if (images.size() > childImages.size() + 1) {
+        logger.warn("In coords.txt, more than one image can be the starting one for 'Show overview',"
+            + " picking at random.");
+      }
+    }
   }
 
   /**

converter/src/test/java/lcsb/mapviewer/converter/OverviewParserTest.java

@@ -230,4 +230,33 @@ public class OverviewParserTest extends ConverterTestFunctions {
     assertEquals(1, oi2.getLinks().size());
   }
 
+  @Test
+  public void testParseValidComplexCoordinatesWithExtraImages() throws Exception {
+    String invalidCoordinates = FileUtils.readFileToString(new File("testFiles/coordinates.txt"), "UTF-8");
+    Set<Model> models = createValidTestMapModel();
+
+    List<OverviewImage> images = new ArrayList<>();
+    OverviewImage oi = new OverviewImage();
+    oi.setFilename("test.png");
+    oi.setWidth(1000);
+    oi.setHeight(1000);
+    images.add(oi);
+
+    OverviewImage oi2 = new OverviewImage();
+    oi2.setFilename("test2.png");
+    oi2.setWidth(1000);
+    oi2.setHeight(1000);
+    images.add(oi2);
+    
+    OverviewImage oi3 = new OverviewImage();
+    oi3.setFilename("test2.png");
+    oi3.setWidth(1000);
+    oi3.setHeight(1000);
+    images.add(oi3);
+
+    parser.processCoordinates(models, images, invalidCoordinates);
+
+    assertEquals(2, super.getWarnings().size());
+  }
+
 }

model/src/test/java/lcsb/mapviewer/model/map/OverviewLinkComparatorTest.java

@@ -4,6 +4,7 @@ import static org.junit.Assert.assertEquals;
 import static org.junit.Assert.assertTrue;
 
 import org.junit.*;
+import org.mockito.Mockito;
 
 import lcsb.mapviewer.ModelTestFunctions;
 import lcsb.mapviewer.common.exception.NotImplementedException;
@@ -33,21 +34,12 @@ public class OverviewLinkComparatorTest extends ModelTestFunctions {
 
   @Test(expected = NotImplementedException.class)
   public void testInvalid() throws Exception {
-    class Tmp extends OverviewLink {
-      private static final long serialVersionUID = 1L;
-
-      @Override
-      public OverviewLink copy() {
-        return null;
-      }
-    }
-    ;
+
     OverviewLinkComparator omlc = new OverviewLinkComparator();
 
-    OverviewLink oml = new Tmp();
-    OverviewLink oml2 = new Tmp();
+    OverviewLink oml = Mockito.mock(OverviewLink.class);
 
-    omlc.compare(oml, oml2);
+    omlc.compare(oml, oml);
   }
 
   @Test