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

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

diff --git a/src/org/biojava/dasobert/das2/DasSourceConverter.java b/src/org/biojava/dasobert/das2/DasSourceConverter.java
deleted file mode 100755 (executable)
index 3e4d8e8..0000000
--- a/src/org/biojava/dasobert/das2/DasSourceConverter.java
+++ /dev/null
@@ -1,92 +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 Mar 23, 2006
- *
- */
-package org.biojava.dasobert.das2;
-
-// import org.biojava.bio.program.das.dasalignment.DASException;
-import org.biojava.dasobert.dasregistry.*;
-
-public class DasSourceConverter
-{
-
-  public DasSourceConverter()
-  {
-    super();
-
-  }
-
-  /**
-   * convert a das2 source to a das 1 source. This only will work if is passes
-   * the Das2Source.isDas1Source() test i.e. this is really a das1 server there
-   * 
-   * @param das2source
-   *                a DAS2Source to be converted
-   * @return a Das1Source
-   * @throws DASException
-   */
-  public static Das1Source toDas1Source(Das2Source das2source)
-          throws Exception
-  {
-    if (!das2source.hasDas1Capabilities())
-    {
-      throw new Exception(
-              "this das source does not have das1 capabilitites");
-    }
-
-    Das1Source ds = new Das1Source();
-    ds.setAdminemail(das2source.getAdminemail());
-    ds.setDescription(das2source.getDescription());
-    ds.setHelperurl(das2source.getHelperurl());
-    ds.setRegisterDate(das2source.getRegisterDate());
-    ds.setLeaseDate(das2source.getLeaseDate());
-    ds.setLabels(das2source.getLabels());
-    ds.setCoordinateSystem(das2source.getCoordinateSystem());
-    ds.setNickname(das2source.getNickname());
-    ds.setId(das2source.getId());
-    ds.setLabels(das2source.getLabels());
-
-    // convert the capabilitites to das1 capabiltities and get the url
-    Das2Capability[] caps = das2source.getDas2Capabilities();
-    String[] das1capabilitites = new String[caps.length];
-    int DASPREFIXLENGTH = Das2CapabilityImpl.DAS1_CAPABILITY_PREFIX
-            .length();
-
-    for (int i = 0; i < caps.length; i++)
-    {
-      Das2Capability cap = caps[i];
-
-      String c = cap.getCapability();
-
-      das1capabilitites[i] = c.substring(DASPREFIXLENGTH, c.length());
-
-      String query_uri = cap.getQueryUri();
-
-      String url = query_uri.substring(0,
-              (query_uri.length() - c.length() + DASPREFIXLENGTH));
-      ds.setUrl(url);
-    }
-    ds.setCapabilities(das1capabilitites);
-
-    return ds;
-  }
-
-}