From 37382e89e23d86a2e728c61899904dd97dd07298 Mon Sep 17 00:00:00 2001
From: amwaterhouse <Andrew Waterhouse>
Date: Thu, 10 Nov 2005 11:02:26 +0000
Subject: [PATCH] Get and set PDBEntrys

---
 src/jalview/datamodel/Sequence.java  |   16 +++++++++++-----
 src/jalview/datamodel/SequenceI.java |    4 ++--
 2 files changed, 13 insertions(+), 7 deletions(-)

diff --git a/src/jalview/datamodel/Sequence.java b/src/jalview/datamodel/Sequence.java
index 8e821a2..d90c231 100755
--- a/src/jalview/datamodel/Sequence.java
+++ b/src/jalview/datamodel/Sequence.java
@@ -39,7 +39,7 @@ public class Sequence implements SequenceI
     int start;
     int end;
     Color color = Color.white;
-    String pdbId;
+    Vector pdbIds;
     String vamsasId;
     Vector dbrefs;
 
@@ -96,6 +96,7 @@ public class Sequence implements SequenceI
            {
              if (st.countTokens() == 2)
              {
+
                shortName = st.nextToken();
 
                limits = st.nextToken();
@@ -108,6 +109,10 @@ public class Sequence implements SequenceI
                  setEnd(Integer.valueOf(st.nextToken()).intValue());
                }
              }
+
+             // If we're still in this loop, parsing of start and end was ok
+             // Therefore remove it from the sequence name
+             name = name.substring(0, name.indexOf("/"));
            }
            catch (NumberFormatException ex)
            {
@@ -116,6 +121,7 @@ public class Sequence implements SequenceI
              shortName += "/" + limits;
            }
          }
+
     }
 
     void checkValidRange()
@@ -196,9 +202,9 @@ public class Sequence implements SequenceI
      *
      * @param id DOCUMENT ME!
      */
-    public void setPDBId(String id)
+    public void setPDBId(Vector id)
     {
-        pdbId = id;
+        pdbIds = id;
     }
 
     /**
@@ -206,9 +212,9 @@ public class Sequence implements SequenceI
      *
      * @return DOCUMENT ME!
      */
-    public String getPDBId()
+    public Vector getPDBId()
     {
-        return pdbId;
+        return pdbIds;
     }
 
     /**
diff --git a/src/jalview/datamodel/SequenceI.java b/src/jalview/datamodel/SequenceI.java
index fe2a859..20aed83 100755
--- a/src/jalview/datamodel/SequenceI.java
+++ b/src/jalview/datamodel/SequenceI.java
@@ -224,14 +224,14 @@ public interface SequenceI
      *
      * @param id DOCUMENT ME!
      */
-    public void setPDBId(String id);
+    public void setPDBId(Vector ids);
 
     /**
      * DOCUMENT ME!
      *
      * @return DOCUMENT ME!
      */
-    public String getPDBId();
+    public Vector getPDBId();
 
     public String getVamsasId();
 
-- 
1.7.10.2