JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensing glob

[jalview.git] / src / jalview / datamodel / xdb / embl / Qualifier.java

diff --git a/src/jalview/datamodel/xdb/embl/Qualifier.java b/src/jalview/datamodel/xdb/embl/Qualifier.java
index 37a0239..9020bbe 100644 (file)
--- a/src/jalview/datamodel/xdb/embl/Qualifier.java
+++ b/src/jalview/datamodel/xdb/embl/Qualifier.java
@@ -1,73 +1,119 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
 package jalview.datamodel.xdb.embl;
 
-public class Qualifier {
-    String name;
-    String[] values;
-    String[] evidence;
-    /**
-     * @return the name
-     */
-    public String getName() {
-        return name;
-    }
-    /**
-     * @param name the name to set
-     */
-    public void setName(String name) {
-        this.name = name;
-    }
-    /**
-     * @return the values
-     */
-    public String[] getValues() {
-        return values;
-    }
-    /**
-     * @param values the values to set
-     */
-    public void setValues(String[] values) {
-        this.values = values;
-    }
-    public void addEvidence(String qevidence)
+/**
+ * Data model for a &lt;qualifier&gt; child element of a &lt;feature&gt; read
+ * from an EMBL query reply
+ * 
+ * @see embl_mapping.xml
+ */
+public class Qualifier
+{
+  String name;
+
+  String[] values;
+
+  String[] evidence;
+
+  /**
+   * @return the name
+   */
+  public String getName()
+  {
+    return name;
+  }
+
+  /**
+   * @param name
+   *          the name to set
+   */
+  public void setName(String name)
+  {
+    this.name = name;
+  }
+
+  /**
+   * @return the values
+   */
+  public String[] getValues()
+  {
+    return values;
+  }
+
+  /**
+   * @param values
+   *          the values to set
+   */
+  public void setValues(String[] values)
+  {
+    this.values = values;
+  }
+
+  public void addEvidence(String qevidence)
+  {
+    // TODO - not used? can remove?
+    if (evidence == null)
     {
-      if (evidence==null)
-      {
-        evidence = new String[1];
-      }
-      else
-      {
-        String[] temp = new String[evidence.length+1];
-        System.arraycopy(evidence,0,temp,0,evidence.length);
-        evidence = temp;
-      }
-      evidence[evidence.length-1] = qevidence;
+      evidence = new String[1];
     }
-    public void addValues(String value)
+    else
     {
-      if (values==null)
-      {
-        values = new String[1];
-      }
-      else
-      {
-        String[] temp = new String[values.length+1];
-        System.arraycopy(values,0,temp,0,values.length);
-        values = temp;
-      }
-      values[values.length-1] = value;
+      String[] temp = new String[evidence.length + 1];
+      System.arraycopy(evidence, 0, temp, 0, evidence.length);
+      evidence = temp;
     }
-    /**
-     * @return the evidence
-     */
-    public String[] getEvidence()
+    evidence[evidence.length - 1] = qevidence;
+  }
+
+  public void addValues(String value)
+  {
+    // TODO - not used? can remove?
+    if (values == null)
     {
-      return evidence;
+      values = new String[1];
     }
-    /**
-     * @param evidence the evidence to set
-     */
-    public void setEvidence(String[] evidence)
+    else
     {
-      this.evidence = evidence;
+      String[] temp = new String[values.length + 1];
+      System.arraycopy(values, 0, temp, 0, values.length);
+      values = temp;
     }
+    values[values.length - 1] = value;
+  }
+
+  /**
+   * @return the evidence
+   */
+  public String[] getEvidence()
+  {
+    return evidence;
+  }
+
+  /**
+   * @param evidence
+   *          the evidence to set
+   */
+  public void setEvidence(String[] evidence)
+  {
+    this.evidence = evidence;
+  }
 }