From f7c0e913b3e0f954655b48d16b64a669c6aad2aa Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Fri, 18 Aug 2006 08:51:58 +0000
Subject: [PATCH] Jalview features format adds links as hrefs

---
 src/jalview/io/FeaturesFile.java |   24 +++++++++++++++++++++++-
 1 file changed, 23 insertions(+), 1 deletion(-)

diff --git a/src/jalview/io/FeaturesFile.java b/src/jalview/io/FeaturesFile.java
index 7299628..4497bc7 100755
--- a/src/jalview/io/FeaturesFile.java
+++ b/src/jalview/io/FeaturesFile.java
@@ -383,7 +383,29 @@ public class FeaturesFile extends AlignFile
                 if(next[j].description==null || next[j].description.equals(""))
                   out.append(next[j].type+"\t");
                 else
-                  out.append(next[j].description + "\t");
+                {
+                  out.append(next[j].description+" ");
+                  if(next[j].links!=null)
+                    {
+                      for(int l=0; l<next[j].links.size(); l++)
+                      {
+                        String label = next[j].links.elementAt(l).toString();
+                        String href = label.substring(label.indexOf("|")+1);
+                        label = label.substring(0, label.indexOf("|"));
+
+                        if(next[j].description.indexOf(href)==-1)
+                        {
+                          out.append("<a href=\""
+                                     + href
+                                     + "\">"
+                                     + label
+                                     + "</a>");
+                        }
+                      }
+                    }
+                   out.append("\t");
+                }
+
 
                 out.append(  seqs[i].getName() + "\t-1\t"
                            + next[j].begin + "\t"
-- 
1.7.10.2