From: James Procter <j.procter@dundee.ac.uk>
Date: Wed, 17 May 2023 09:42:43 +0000 (+0100)
Subject: JAL-4184 export description line in stockholm
X-Git-Tag: Release_2_11_4_0~323^2~1^2
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=refs%2Fheads%2Fpatch%2FJAL-4184_description_stockholm;p=jalview.git

JAL-4184 export description line in stockholm
---

diff --git a/src/jalview/io/StockholmFile.java b/src/jalview/io/StockholmFile.java
index a3f7531..eeadcbf 100644
--- a/src/jalview/io/StockholmFile.java
+++ b/src/jalview/io/StockholmFile.java
@@ -1048,9 +1048,18 @@ public class StockholmFile extends AlignFile
       }
     }
 
-    // output annotations
+    // output description and annotations
+
     while (i < slen && (seq = s[i]) != null)
     {
+      if (seq.getDescription()!=null)
+      {
+        // out.append("#=GR ");
+        out.append(new Format("%-" + maxid + "s").form(
+                "#=GS " + printId(seq, jvSuffix) + " DE " + seq.getDescription()));
+        out.append(newline);
+      }
+
       AlignmentAnnotation[] alAnot = seq.getAnnotation();
       if (alAnot != null)
       {