class allowing properties changed to properly reflect object properties

converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/annotation/NoteField.java

 package lcsb.mapviewer.converter.model.celldesigner.annotation;
 
-import lcsb.mapviewer.converter.model.celldesigner.structure.CellDesignerElement;
-import lcsb.mapviewer.converter.model.celldesigner.structure.CellDesignerSpecies;
 import lcsb.mapviewer.model.map.BioEntity;
 import lcsb.mapviewer.model.map.Drawable;
 import lcsb.mapviewer.model.map.MiriamType;
@@ -16,197 +14,197 @@ import lcsb.mapviewer.model.map.species.Species;
  * 
  */
 public enum NoteField {
-	/**
-	 * List of {@link MiriamType#HGNC} identifiers.
-	 */
-	HGNC("HGNC_ID", BioEntity.class, MiriamType.HGNC),
-
-	/**
-	 * List of {@link MiriamType#REFSEQ} identifiers.
-	 */
-	REFSEQ("RefSeq_ID", BioEntity.class, MiriamType.REFSEQ),
-
-	/**
-	 * List of {@link MiriamType#ENTREZ} identifiers.
-	 */
-	ENTREZ("EntrezGene_ID", BioEntity.class, MiriamType.ENTREZ),
-
-	/**
-	 * List of {@link MiriamType#REACTOME} identifiers.
-	 */
-	REACTOME("Reactome_ID", BioEntity.class, MiriamType.REACTOME),
-
-	/**
-	 * List of {@link MiriamType#PUBMED} identifiers.
-	 */
-	PUBMED("Pubmed_ID", BioEntity.class, MiriamType.PUBMED),
-
-	/**
-	 * List of {@link MiriamType#KEGG_GENES} identifiers.
-	 */
-	KEGG_GENES("KEGG_ID", BioEntity.class, MiriamType.KEGG_GENES),
-
-	/**
-	 * List of {@link MiriamType#PANTHER} identifiers.
-	 */
-	PANTHER("PANTHER", BioEntity.class, MiriamType.PANTHER),
-
-	/**
-	 * {@link Element#symbol}.
-	 */
-	SYMBOL("Symbol", CellDesignerElement.class, null),
-
-	/**
-	 * {@link Element#fullName}.
-	 */
-	NAME("Name", CellDesignerElement.class, null),
-
-	/**
-	 * {@link Element#notes} or {@link Reaction#notes} .
-	 */
-	DESCRIPTION("Description", BioEntity.class, null),
-
-	/**
-	 * {@link Element#formerSymbols}.
-	 */
-	PREVIOUS_SYMBOLS("Previous Symbols", CellDesignerElement.class, null),
-
-	/**
-	 * {@link Element#synonyms} or {@link Reaction#synonyms}.
-	 */
-	SYNONYMS("Synonyms", BioEntity.class, null),
-
-	/**
-	 * {@link Element#abbreviation} or {@link Reaction#abbreviation}.
-	 */
-	ABBREVIATION("Abbreviation", BioEntity.class, null),
-
-	/**
-	 * {@link Reaction#formula}.
-	 */
-	FORMULA("Formula", Reaction.class, null),
-
-	/**
-	 * {@link Reaction#mechanicalConfidenceScore}.
-	 */
-	MECHANICAL_CONFIDENCE_SCORE("MechanicalConfidenceScore", Reaction.class, null),
-
-	/**
-	 * {@link Reaction#lowerBound}.
-	 */
-	LOWER_BOUND("LowerBound", Reaction.class, null),
-
-	/**
-	 * {@link Reaction#upperBound}.
-	 */
-	UPPER_BOUND("UpperBound", Reaction.class, null),
-
-	/**
-	 * {@link Reaction#subsystem}.
-	 */
-	SUBSYSTEM("Subsystem", Reaction.class, null),
-
-	/**
-	 * {@link Reaction#geneProteinReaction}.
-	 */
-	GENE_PROTEIN_REACTION("GeneProteinReaction", Reaction.class, null),
-
-	/**
-	 * {@link Element#formula}.
-	 */
-	CHARGED_FORMULA("ChargedFormula", CellDesignerElement.class, null),
-
-	/**
-	 * {@link Species#charge}.
-	 */
-	CHARGE("Charge", CellDesignerSpecies.class, null),
-
-	/**
-	 * {@link Element#getSemanticZoomLevelVisibility()}.
-	 */
-    SEMANTIC_ZOOM_LEVEL_VISIBILITY("SemanticZoomLevelVisibility", BioEntity.class, null),
-    
-    /**
-     * {@link Element#getSemanticZoomLevelVisibility()}.
-     */
-    TRANSPARENCY_ZOOM_LEVEL_VISIBILITY("SemanticZoomLevelTransparency", Element.class, null),
-
-    /**
-     * {@link Element#getSemanticZoomLevelVisibility()}.
-     */
-    @Deprecated
-    TRANSPARENCY_ZOOM_LEVEL_VISIBILITY_OLD("TransparencyZoomLevelVisibility", Element.class, null),
-
-    @ImportOnly
-    Z_INDEX("Z-Index", Drawable.class, null),
-
-    ;
-
-	/**
-	 * Name used in the notes to distinguish fields.
-	 */
-	private String		 commonName;
-
-	/**
-	 * What object class can have this field.
-	 */
-	private Class<?>	 clazz;
-
-	/**
-	 * What {@link MiriamType} is associated with the field.
-	 */
-	private MiriamType miriamType;
-
-	/**
-	 * Default constructor.
-	 * 
-	 * @param name
-	 *          {@link #commonName}
-	 * @param clazz
-	 *          {@link #clazz}
-	 */
-	NoteField(String name, Class<?> clazz) {
-		this.commonName = name;
-		this.clazz = clazz;
-	}
-
-	/**
-	 * Default constructor.
-	 * 
-	 * @param name
-	 *          {@link #commonName}
-	 * @param clazz
-	 *          {@link #clazz}
-	 * @param type
-	 *          {@link #miriamType}
-	 */
-	NoteField(String name, Class<?> clazz, MiriamType type) {
-		this(name, clazz);
-		this.miriamType = type;
-	}
-
-	/**
-	 * @return the miriamType
-	 * @see #miriamType
-	 */
-	public MiriamType getMiriamType() {
-		return miriamType;
-	}
-
-	/**
-	 * @return the commonName
-	 * @see #commonName
-	 */
-	public String getCommonName() {
-		return commonName;
-	}
-
-	/**
-	 * @return the clazz
-	 * @see #clazz
-	 */
-	public Class<?> getClazz() {
-		return clazz;
-	}
+  /**
+   * List of {@link MiriamType#HGNC} identifiers.
+   */
+  HGNC("HGNC_ID", BioEntity.class, MiriamType.HGNC),
+
+  /**
+   * List of {@link MiriamType#REFSEQ} identifiers.
+   */
+  REFSEQ("RefSeq_ID", BioEntity.class, MiriamType.REFSEQ),
+
+  /**
+   * List of {@link MiriamType#ENTREZ} identifiers.
+   */
+  ENTREZ("EntrezGene_ID", BioEntity.class, MiriamType.ENTREZ),
+
+  /**
+   * List of {@link MiriamType#REACTOME} identifiers.
+   */
+  REACTOME("Reactome_ID", BioEntity.class, MiriamType.REACTOME),
+
+  /**
+   * List of {@link MiriamType#PUBMED} identifiers.
+   */
+  PUBMED("Pubmed_ID", BioEntity.class, MiriamType.PUBMED),
+
+  /**
+   * List of {@link MiriamType#KEGG_GENES} identifiers.
+   */
+  KEGG_GENES("KEGG_ID", BioEntity.class, MiriamType.KEGG_GENES),
+
+  /**
+   * List of {@link MiriamType#PANTHER} identifiers.
+   */
+  PANTHER("PANTHER", BioEntity.class, MiriamType.PANTHER),
+
+  /**
+   * {@link Element#symbol}.
+   */
+  SYMBOL("Symbol", BioEntity.class, null),
+
+  /**
+   * {@link Element#fullName}.
+   */
+  NAME("Name", BioEntity.class, null),
+
+  /**
+   * {@link Element#notes} or {@link Reaction#notes} .
+   */
+  DESCRIPTION("Description", BioEntity.class, null),
+
+  /**
+   * {@link Element#formerSymbols}.
+   */
+  PREVIOUS_SYMBOLS("Previous Symbols", Element.class, null),
+
+  /**
+   * {@link Element#synonyms} or {@link Reaction#synonyms}.
+   */
+  SYNONYMS("Synonyms", BioEntity.class, null),
+
+  /**
+   * {@link Element#abbreviation} or {@link Reaction#abbreviation}.
+   */
+  ABBREVIATION("Abbreviation", BioEntity.class, null),
+
+  /**
+   * {@link Reaction#formula}.
+   */
+  FORMULA("Formula", Reaction.class, null),
+
+  /**
+   * {@link Reaction#mechanicalConfidenceScore}.
+   */
+  MECHANICAL_CONFIDENCE_SCORE("MechanicalConfidenceScore", Reaction.class, null),
+
+  /**
+   * {@link Reaction#lowerBound}.
+   */
+  LOWER_BOUND("LowerBound", Reaction.class, null),
+
+  /**
+   * {@link Reaction#upperBound}.
+   */
+  UPPER_BOUND("UpperBound", Reaction.class, null),
+
+  /**
+   * {@link Reaction#subsystem}.
+   */
+  SUBSYSTEM("Subsystem", Reaction.class, null),
+
+  /**
+   * {@link Reaction#geneProteinReaction}.
+   */
+  GENE_PROTEIN_REACTION("GeneProteinReaction", Reaction.class, null),
+
+  /**
+   * {@link Element#formula}.
+   */
+  CHARGED_FORMULA("ChargedFormula", Element.class, null),
+
+  /**
+   * {@link Species#charge}.
+   */
+  CHARGE("Charge", Species.class, null),
+
+  /**
+   * {@link Element#getSemanticZoomLevelVisibility()}.
+   */
+  SEMANTIC_ZOOM_LEVEL_VISIBILITY("SemanticZoomLevelVisibility", BioEntity.class, null),
+
+  /**
+   * {@link Element#getSemanticZoomLevelVisibility()}.
+   */
+  TRANSPARENCY_ZOOM_LEVEL_VISIBILITY("SemanticZoomLevelTransparency", Element.class, null),
+
+  /**
+   * {@link Element#getSemanticZoomLevelVisibility()}.
+   */
+  @Deprecated
+  TRANSPARENCY_ZOOM_LEVEL_VISIBILITY_OLD("TransparencyZoomLevelVisibility", Element.class, null),
+
+  @ImportOnly
+  Z_INDEX("Z-Index", Drawable.class, null),
+
+  ;
+
+  /**
+   * Name used in the notes to distinguish fields.
+   */
+  private String commonName;
+
+  /**
+   * What object class can have this field.
+   */
+  private Class<? extends Drawable> clazz;
+
+  /**
+   * What {@link MiriamType} is associated with the field.
+   */
+  private MiriamType miriamType;
+
+  /**
+   * Default constructor.
+   * 
+   * @param name
+   *          {@link #commonName}
+   * @param clazz
+   *          {@link #clazz}
+   */
+  NoteField(String name, Class<? extends Drawable> clazz) {
+    this.commonName = name;
+    this.clazz = clazz;
+  }
+
+  /**
+   * Default constructor.
+   * 
+   * @param name
+   *          {@link #commonName}
+   * @param clazz
+   *          {@link #clazz}
+   * @param type
+   *          {@link #miriamType}
+   */
+  NoteField(String name, Class<? extends Drawable> clazz, MiriamType type) {
+    this(name, clazz);
+    this.miriamType = type;
+  }
+
+  /**
+   * @return the miriamType
+   * @see #miriamType
+   */
+  public MiriamType getMiriamType() {
+    return miriamType;
+  }
+
+  /**
+   * @return the commonName
+   * @see #commonName
+   */
+  public String getCommonName() {
+    return commonName;
+  }
+
+  /**
+   * @return the clazz
+   * @see #clazz
+   */
+  public Class<?> getClazz() {
+    return clazz;
+  }
 
 }