JAL-2388 Hidden cols separated from column selection (almost complete)

[jalview.git] / src / jalview / io / HTMLOutput.java

diff --git a/src/jalview/io/HTMLOutput.java b/src/jalview/io/HTMLOutput.java
index 68f3e2c..77006db 100755 (executable)
--- a/src/jalview/io/HTMLOutput.java
+++ b/src/jalview/io/HTMLOutput.java
@@ -91,8 +91,8 @@ public abstract class HTMLOutput implements Runnable
     String bioJSON = new FormatAdapter(ap, exportData.getSettings())
             .formatSequences(FileFormat.Json, exportData.getAlignment(),
                     exportData.getOmitHidden(), exportData
-                            .getStartEndPostions(), ap.getAlignViewport()
-                            .getColumnSelection());
+.getStartEndPostions(), ap.getAlignViewport()
+                            .getAlignment().getHiddenColumns());
     return bioJSON;
   }