JavaDoc added

converter-sbml/src/main/java/lcsb/mapviewer/converter/model/sbml/SbmlBioEntityParser.java

@@ -30,14 +30,38 @@ import lcsb.mapviewer.model.map.model.Model;
 import lcsb.mapviewer.model.map.species.Element;
 
 public class SbmlBioEntityParser extends XmlParser {
-  Logger logger = Logger.getLogger(SbmlBioEntityParser.class);
 
+  /**
+   * Default class logger.
+   */
+  private static Logger logger = Logger.getLogger(SbmlBioEntityParser.class);
+
+  /**
+   * SBML layout attached to parsed {@link #sbmlModel}.
+   */
   private Layout layout;
+
+  /**
+   * SBML model that we will parse;
+   */
   private org.sbml.jsbml.Model sbmlModel;
+
+  /**
+   * Our model to which we parse data.
+   */
   private lcsb.mapviewer.model.map.model.Model minervaModel;
 
+  /**
+   * Counter for identifiers that cannot be inferred from SBML. 
+   */
   private int idCounter = 0;
 
+  /**
+   * Default constructor.
+   * 
+   * @param sbmlModel SBML model that we are parsing
+   * @param minervaModel Minerva model to which we are extracting data
+   */
   public SbmlBioEntityParser(org.sbml.jsbml.Model sbmlModel, Model minervaModel) {
     super();
     this.sbmlModel = sbmlModel;
@@ -173,7 +197,6 @@ public class SbmlBioEntityParser extends XmlParser {
     return sbmlModel;
   }
 
-
   protected Layout getLayout() {
     return layout;
   }
@@ -199,6 +222,4 @@ public class SbmlBioEntityParser extends XmlParser {
     return layout;
   }
 
-
-
 }
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