JAL-629 suggest not breaking out of the structure processing loop if just one structu...

diff --git a/src/jalview/bin/Commands.java b/src/jalview/bin/Commands.java
index 61ee1be..0c34a16 100644 (file)
--- a/src/jalview/bin/Commands.java
+++ b/src/jalview/bin/Commands.java
@@ -412,7 +412,9 @@ public class Commands
           {
             Console.warn("Could not find sequence for argument --"
                     + Arg.STRUCTURE + "=" + val);
-            break STRUCTURE;
+            // you probably want to continue here, not break
+            // break;
+            continue;
           }
           File structureFile = null;
           if (subId.content != null && subId.content.length() != 0)