From: Jim Procter <jprocter@issues.jalview.org>
Date: Fri, 13 Dec 2019 15:42:06 +0000 (+0000)
Subject: JAL-1236 CLUSTAL_HEADER property to configure the header for Clustal format files
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=f1cb5d86bc54dadbf405830444d04418b62488b8;p=jalview.git

JAL-1236 CLUSTAL_HEADER property to configure the header for Clustal format files
---

diff --git a/src/jalview/io/ClustalFile.java b/src/jalview/io/ClustalFile.java
index afb2009..537c154 100755
--- a/src/jalview/io/ClustalFile.java
+++ b/src/jalview/io/ClustalFile.java
@@ -36,17 +36,28 @@ public class ClustalFile extends AlignFile
 
   public ClustalFile()
   {
+    _initHeader();
   }
 
   public ClustalFile(String inFile, DataSourceType sourceType)
           throws IOException
   {
     super(inFile, sourceType);
+    _initHeader();
   }
 
   public ClustalFile(FileParse source) throws IOException
   {
     super(source);
+    _initHeader();
+  }
+
+  private void _initHeader()
+  {
+    try {
+	clustalHeader = jalview.bin.Cache.getDefault("CLUSTAL_HEADER","CLUSTAL");
+    } catch (Error e) {};
+
   }
 
   @Override
@@ -196,11 +207,15 @@ public class ClustalFile extends AlignFile
       }
     }
   }
-
+  /**
+   * clustal header - customise if needed
+   */
+  public String clustalHeader = "CLUSTAL";
+  
   @Override
   public String print(SequenceI[] s, boolean jvsuffix)
   {
-    StringBuffer out = new StringBuffer("CLUSTAL" + newline + newline);
+    StringBuffer out = new StringBuffer(clustalHeader + newline + newline);
 
     int max = 0;
     int maxid = 0;