depreacted field are not present in the output

converter-CellDesigner/src/test/java/lcsb/mapviewer/converter/model/celldesigner/annotation/RestAnnotationParserTest.java

@@ -6,6 +6,7 @@ import static org.junit.Assert.assertNotNull;
 import static org.junit.Assert.assertTrue;
 import static org.junit.Assert.fail;
 
+import java.lang.reflect.Field;
 import java.util.List;
 import java.util.Set;
 
@@ -293,11 +294,23 @@ public class RestAnnotationParserTest extends CellDesignerTestFunctions {
       assertTrue(str.contains(former2));
 
       for (NoteField field : NoteField.values()) {
+        boolean deprecated = false;
+        try {
+          Field f = NoteField.class.getField(field.name());
+          if (f.isAnnotationPresent(Deprecated.class))
+            deprecated = true;
+
+        } catch (NoSuchFieldException | SecurityException e) {
+        }
+
+        if (!deprecated) {
           if (field.getClazz().isAssignableFrom(element.getClass())
+
               || CellDesignerElement.class.isAssignableFrom(field.getClazz())) {
             assertTrue("Export string doesn't contain info about: " + field.getCommonName(),
                 str.indexOf(field.getCommonName()) >= 0);
           }
+        }
 
       }
 
@@ -318,7 +331,7 @@ public class RestAnnotationParserTest extends CellDesignerTestFunctions {
       for (NoteField field : NoteField.values()) {
         if (field.getClazz().isAssignableFrom(element.getClass())
             || CellDesignerElement.class.isAssignableFrom(field.getClazz())) {
-          assertFalse("Export string contain info about: " + field.getCommonName()+". But shouldn't",
+          assertFalse("Export string contain info about: " + field.getCommonName() + ". But shouldn't",
               str.indexOf(field.getCommonName()) >= 0);
         }
 
@@ -369,8 +382,10 @@ public class RestAnnotationParserTest extends CellDesignerTestFunctions {
 
       Node node = super.getNodeFromXmlString("<notes>\n" +
           "Name: L-cystine\n" +
-          "Synonyms: (R,R)-3,3&apos;-dithiobis(2-aminopropanoic acid), (R-(R*,R*))-3,3&apos;-Dithiobis(2-aminopropanoic acid), 3,3&apos;-Dithiobis-L-alanine, beta,beta&apos;-diamino-beta,beta&apos;-dicarboxydiethyl disulfide, beta,beta&apos;-dithiodialanine, bis(beta-amino-beta-carboxyethyl) disulfide, E921, L-alpha-Diamino-beta-dithiolactic acid, L-Cystine, L-Dicysteine, oxidized L-cysteine, Recon metabolite: mma\n" + 
-          "Description: VMH database: <a xmlns=\"http://www.w3.org/1999/xhtml\" href=\"http://vmh.uni.lu/#metabolite/mma\">mma</a>\n" + 
+          "Synonyms: (R,R)-3,3&apos;-dithiobis(2-aminopropanoic acid), (R-(R*,R*))-3,3&apos;-Dithiobis(2-aminopropanoic acid), 3,3&apos;-Dithiobis-L-alanine, beta,beta&apos;-diamino-beta,beta&apos;-dicarboxydiethyl disulfide, beta,beta&apos;-dithiodialanine, bis(beta-amino-beta-carboxyethyl) disulfide, E921, L-alpha-Diamino-beta-dithiolactic acid, L-Cystine, L-Dicysteine, oxidized L-cysteine, Recon metabolite: mma\n"
+          +
+          "Description: VMH database: <a xmlns=\"http://www.w3.org/1999/xhtml\" href=\"http://vmh.uni.lu/#metabolite/mma\">mma</a>\n"
+          +
           "SemanticZoomLevelVisibility: 5\n" +
           "Charge: 0\n" +
           "</notes>\n" +