removed all dasobert code and begun to replace with Jdas calls.

[jalview.git] / src / org / biojava / dasobert / das2 / Das2SourceImpl.java

diff --git a/src/org/biojava/dasobert/das2/Das2SourceImpl.java b/src/org/biojava/dasobert/das2/Das2SourceImpl.java
deleted file mode 100755 (executable)
index 2f5a7ed..0000000
--- a/src/org/biojava/dasobert/das2/Das2SourceImpl.java
+++ /dev/null
@@ -1,157 +0,0 @@
-/*
- *                  BioJava development code
- *
- * This code may be freely distributed and modified under the
- * terms of the GNU Lesser General Public Licence.  This should
- * be distributed with the code.  If you do not have a copy,
- * see:
- *
- *      http://www.gnu.org/copyleft/lesser.html
- *
- * Copyright for this code is held jointly by the individual
- * authors.  These should be listed in @author doc comments.
- *
- * For more information on the BioJava project and its aims,
- * or to join the biojava-l mailing list, visit the home page
- * at:
- *
- *      http://www.biojava.org/
- *
- * Created on Feb 9, 2006
- *
- */
-package org.biojava.dasobert.das2;
-
-import org.biojava.dasobert.dasregistry.*;
-
-public class Das2SourceImpl extends Das1Source implements Das2Source
-
-{
-
-  Das2Capability[] capabilities;
-
-  public Das2SourceImpl()
-  {
-    super();
-
-    capabilities = new Das2Capability[0];
-  }
-
-  /**
-   * compare if two DasSources are identical
-   * 
-   */
-  public boolean equals(DasSource other)
-  {
-
-    if (this == other)
-    {
-      return true;
-    }
-
-    if ((other == null) || (other.getClass() != this.getClass()))
-    {
-      return false;
-    }
-
-    // to compare if two Das2Sources are identical we do the following:
-    // we check the capabilities
-
-    Das2SourceImpl d2o = (Das2SourceImpl) other;
-
-    if (nickname.equals(d2o.getNickname()))
-    {
-      return true;
-    }
-
-    Das2Capability[] othercaps = d2o.getDas2Capabilities();
-
-    if (!(capabilities.length == othercaps.length))
-    {
-      return false;
-    }
-
-    for (int x = 0; x < capabilities.length; x++)
-    {
-      Das2Capability tmpcap = capabilities[x];
-      boolean foundCap = false;
-      for (int y = 0; y < othercaps.length; y++)
-      {
-        Das2Capability tmpcapo = othercaps[y];
-        if (tmpcap.equals(tmpcapo))
-        {
-          foundCap = true;
-        }
-      }
-      if (!foundCap)
-      {
-        return false;
-      }
-    }
-
-    // TODO?
-    // should we add a check for coordinate systems?
-    // but we already check for the endpoints, that should be enough...
-
-    return true;
-
-  }
-
-  public int hashCode()
-  {
-    int h = 7;
-
-    h = 31 * h + (null == nickname ? 0 : nickname.hashCode());
-
-    for (int x = 0; x < capabilities.length; x++)
-    {
-      Das2Capability cap = capabilities[x];
-      h = 31 * h + cap.hashCode();
-    }
-
-    return h;
-  }
-
-  public boolean hasDas1Capabilities()
-  {
-
-    // test if any of the capabilities is a das1 capabilitiy
-
-    for (int i = 0; i < capabilities.length; i++)
-    {
-      Das2Capability cap = capabilities[i];
-      if (cap.isDas1Style())
-      {
-        return true;
-      }
-    }
-    return false;
-
-  }
-
-  public String[] getCapabilities()
-  {
-    // todo mark as not needed / not appropriate ...
-    return super.getCapabilities();
-  }
-
-  public void setCapabilities(String[] u)
-  {
-    // TODO Auto-generated method stub
-    super.setCapabilities(u);
-  }
-
-  public Das2Capability[] getDas2Capabilities()
-  {
-    // TODO Auto-generated method stub
-    return capabilities;
-  }
-
-  public void setDas2Capabilities(Das2Capability[] capabilities)
-  {
-    // TODO Auto-generated method stub
-    this.capabilities = capabilities;
-
-  }
-
-}