JAL-4004 add the autogenerated whatsNew.html and releases.html to .gitignore

[jalview.git] / src / jalview / api / AlignViewControllerI.java

diff --git a/src/jalview/api/AlignViewControllerI.java b/src/jalview/api/AlignViewControllerI.java
index b868ee5..58a58e9 100644 (file)
--- a/src/jalview/api/AlignViewControllerI.java
+++ b/src/jalview/api/AlignViewControllerI.java
@@ -96,7 +96,19 @@ public interface AlignViewControllerI
    * @return true if parsing resulted in something being imported to the view or
    *         dataset
    */
-  public boolean parseFeaturesFile(String file, DataSourceType sourceType,
+  public boolean parseFeaturesFile(Object file, DataSourceType sourceType,
           boolean relaxedIdMatching);
 
+  /**
+   * mark columns containing highlighted regions (e.g. from search, structure
+   * highlight, or a mouse over event in another viewer)
+   * 
+   * @param invert
+   * @param extendCurrent
+   * @param toggle
+   * @return
+   */
+  boolean markHighlightedColumns(boolean invert, boolean extendCurrent,
+          boolean toggle);
+
 }