X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fvamsas%2Fobjects%2Fsimple%2FSeqSearchResult.java;h=6673fffd3eb5f83c431b6b9838db5791638ea26f;hb=865a855a4ca87eadb3e5ff284ed32ed307d9c34b;hp=19f020bd970e2d8dfb5e75d3165736aa3ab83507;hpb=d423f22792e47dbc800ae220a58677f988971d06;p=jalview.git

diff --git a/src/vamsas/objects/simple/SeqSearchResult.java b/src/vamsas/objects/simple/SeqSearchResult.java
index 19f020b..6673fff 100644
--- a/src/vamsas/objects/simple/SeqSearchResult.java
+++ b/src/vamsas/objects/simple/SeqSearchResult.java
@@ -1,185 +1,186 @@
-/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
- * 
- * 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/>.
- */
-package vamsas.objects.simple;
-
-public class SeqSearchResult extends vamsas.objects.simple.Result implements
-        java.io.Serializable
-{
-  private vamsas.objects.simple.Alignment alignment;
-
-  private java.lang.String annotation;
-
-  private java.lang.String features;
-
-  private java.lang.String newickTree;
-
-  public SeqSearchResult()
-  {
-  }
-
-  public SeqSearchResult(vamsas.objects.simple.Alignment alignment,
-          java.lang.String annotation, java.lang.String features,
-          java.lang.String newickTree)
-  {
-    this.alignment = alignment;
-    this.annotation = annotation;
-    this.features = features;
-    this.newickTree = newickTree;
-  }
-
-  /**
-   * Gets the alignment value for this SeqSearchResult.
-   * 
-   * @return alignment
-   */
-  public vamsas.objects.simple.Alignment getAlignment()
-  {
-    return alignment;
-  }
-
-  /**
-   * Sets the alignment value for this SeqSearchResult.
-   * 
-   * @param alignment
-   */
-  public void setAlignment(vamsas.objects.simple.Alignment alignment)
-  {
-    this.alignment = alignment;
-  }
-
-  /**
-   * Gets the annotation value for this SeqSearchResult.
-   * 
-   * @return annotation
-   */
-  public java.lang.String getAnnotation()
-  {
-    return annotation;
-  }
-
-  /**
-   * Sets the annotation value for this SeqSearchResult.
-   * 
-   * @param annotation
-   */
-  public void setAnnotation(java.lang.String annotation)
-  {
-    this.annotation = annotation;
-  }
-
-  /**
-   * Gets the features value for this SeqSearchResult.
-   * 
-   * @return features
-   */
-  public java.lang.String getFeatures()
-  {
-    return features;
-  }
-
-  /**
-   * Sets the features value for this SeqSearchResult.
-   * 
-   * @param features
-   */
-  public void setFeatures(java.lang.String features)
-  {
-    this.features = features;
-  }
-
-  /**
-   * Gets the newickTree value for this SeqSearchResult.
-   * 
-   * @return newickTree
-   */
-  public java.lang.String getNewickTree()
-  {
-    return newickTree;
-  }
-
-  /**
-   * Sets the newickTree value for this SeqSearchResult.
-   * 
-   * @param newickTree
-   */
-  public void setNewickTree(java.lang.String newickTree)
-  {
-    this.newickTree = newickTree;
-  }
-
-  private java.lang.Object __equalsCalc = null;
-
-  public synchronized boolean equals(java.lang.Object obj)
-  {
-    if (!(obj instanceof SeqSearchResult))
-      return false;
-    SeqSearchResult other = (SeqSearchResult) obj;
-    if (obj == null)
-      return false;
-    if (this == obj)
-      return true;
-    if (__equalsCalc != null)
-    {
-      return (__equalsCalc == obj);
-    }
-    __equalsCalc = obj;
-    boolean _equals;
-    _equals = super.equals(obj)
-            && ((this.alignment == null && other.getAlignment() == null) || (this.alignment != null && this.alignment
-                    .equals(other.getAlignment())))
-            && ((this.annotation == null && other.getAnnotation() == null) || (this.annotation != null && this.annotation
-                    .equals(other.getAnnotation())))
-            && ((this.features == null && other.getFeatures() == null) || (this.features != null && this.features
-                    .equals(other.getFeatures())))
-            && ((this.newickTree == null && other.getNewickTree() == null) || (this.newickTree != null && this.newickTree
-                    .equals(other.getNewickTree())));
-    __equalsCalc = null;
-    return _equals;
-  }
-
-  private boolean __hashCodeCalc = false;
-
-  public synchronized int hashCode()
-  {
-    if (__hashCodeCalc)
-    {
-      return 0;
-    }
-    __hashCodeCalc = true;
-    int _hashCode = super.hashCode();
-    if (getAlignment() != null)
-    {
-      _hashCode += getAlignment().hashCode();
-    }
-    if (getAnnotation() != null)
-    {
-      _hashCode += getAnnotation().hashCode();
-    }
-    if (getFeatures() != null)
-    {
-      _hashCode += getFeatures().hashCode();
-    }
-    if (getNewickTree() != null)
-    {
-      _hashCode += getNewickTree().hashCode();
-    }
-    __hashCodeCalc = false;
-    return _hashCode;
-  }
-
-}
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.0b1)
+ * Copyright (C) 2014 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 vamsas.objects.simple;
+
+public class SeqSearchResult extends vamsas.objects.simple.Result implements
+        java.io.Serializable
+{
+  private vamsas.objects.simple.Alignment alignment;
+
+  private java.lang.String annotation;
+
+  private java.lang.String features;
+
+  private java.lang.String newickTree;
+
+  public SeqSearchResult()
+  {
+  }
+
+  public SeqSearchResult(vamsas.objects.simple.Alignment alignment,
+          java.lang.String annotation, java.lang.String features,
+          java.lang.String newickTree)
+  {
+    this.alignment = alignment;
+    this.annotation = annotation;
+    this.features = features;
+    this.newickTree = newickTree;
+  }
+
+  /**
+   * Gets the alignment value for this SeqSearchResult.
+   * 
+   * @return alignment
+   */
+  public vamsas.objects.simple.Alignment getAlignment()
+  {
+    return alignment;
+  }
+
+  /**
+   * Sets the alignment value for this SeqSearchResult.
+   * 
+   * @param alignment
+   */
+  public void setAlignment(vamsas.objects.simple.Alignment alignment)
+  {
+    this.alignment = alignment;
+  }
+
+  /**
+   * Gets the annotation value for this SeqSearchResult.
+   * 
+   * @return annotation
+   */
+  public java.lang.String getAnnotation()
+  {
+    return annotation;
+  }
+
+  /**
+   * Sets the annotation value for this SeqSearchResult.
+   * 
+   * @param annotation
+   */
+  public void setAnnotation(java.lang.String annotation)
+  {
+    this.annotation = annotation;
+  }
+
+  /**
+   * Gets the features value for this SeqSearchResult.
+   * 
+   * @return features
+   */
+  public java.lang.String getFeatures()
+  {
+    return features;
+  }
+
+  /**
+   * Sets the features value for this SeqSearchResult.
+   * 
+   * @param features
+   */
+  public void setFeatures(java.lang.String features)
+  {
+    this.features = features;
+  }
+
+  /**
+   * Gets the newickTree value for this SeqSearchResult.
+   * 
+   * @return newickTree
+   */
+  public java.lang.String getNewickTree()
+  {
+    return newickTree;
+  }
+
+  /**
+   * Sets the newickTree value for this SeqSearchResult.
+   * 
+   * @param newickTree
+   */
+  public void setNewickTree(java.lang.String newickTree)
+  {
+    this.newickTree = newickTree;
+  }
+
+  private java.lang.Object __equalsCalc = null;
+
+  public synchronized boolean equals(java.lang.Object obj)
+  {
+    if (!(obj instanceof SeqSearchResult))
+      return false;
+    SeqSearchResult other = (SeqSearchResult) obj;
+    if (obj == null)
+      return false;
+    if (this == obj)
+      return true;
+    if (__equalsCalc != null)
+    {
+      return (__equalsCalc == obj);
+    }
+    __equalsCalc = obj;
+    boolean _equals;
+    _equals = super.equals(obj)
+            && ((this.alignment == null && other.getAlignment() == null) || (this.alignment != null && this.alignment
+                    .equals(other.getAlignment())))
+            && ((this.annotation == null && other.getAnnotation() == null) || (this.annotation != null && this.annotation
+                    .equals(other.getAnnotation())))
+            && ((this.features == null && other.getFeatures() == null) || (this.features != null && this.features
+                    .equals(other.getFeatures())))
+            && ((this.newickTree == null && other.getNewickTree() == null) || (this.newickTree != null && this.newickTree
+                    .equals(other.getNewickTree())));
+    __equalsCalc = null;
+    return _equals;
+  }
+
+  private boolean __hashCodeCalc = false;
+
+  public synchronized int hashCode()
+  {
+    if (__hashCodeCalc)
+    {
+      return 0;
+    }
+    __hashCodeCalc = true;
+    int _hashCode = super.hashCode();
+    if (getAlignment() != null)
+    {
+      _hashCode += getAlignment().hashCode();
+    }
+    if (getAnnotation() != null)
+    {
+      _hashCode += getAnnotation().hashCode();
+    }
+    if (getFeatures() != null)
+    {
+      _hashCode += getFeatures().hashCode();
+    }
+    if (getNewickTree() != null)
+    {
+      _hashCode += getNewickTree().hashCode();
+    }
+    __hashCodeCalc = false;
+    return _hashCode;
+  }
+
+}