/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.4)
- * Copyright (C) 2008 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Development Version 2.4.1)
+ * Copyright (C) 2009 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle
*
* This program is free software; you can redistribute it and/or
* modify it under the terms of the GNU General Public License
showConsensus = Boolean.valueOf(param).booleanValue();
}
+ param = applet.getParameter("showUnconserved");
+ if (param != null)
+ {
+ this.showUnconserved = Boolean.valueOf(param).booleanValue();
+ }
+
param = applet.getParameter("upperCase");
if (param != null)
{
upperCasebold = true;
}
}
+ param = applet.getParameter("sortByTree");
+ if (param != null)
+ {
+ sortByTree=Boolean.valueOf(param).booleanValue();
+ }
}
public boolean getFollowHighlight() {
return followHighlight;
}
+ /**
+ * show non-conserved residues only
+ */
+ public boolean showUnconserved=false;
+
+ /**
+ * when set, alignment should be reordered according to a newly opened tree
+ */
+ public boolean sortByTree=false;
+
+ /**
+ * @return the showUnconserved
+ */
+ public boolean getShowunconserved()
+ {
+ return showUnconserved;
+ }
+
+ /**
+ * @param showUnconserved the showUnconserved to set
+ */
+ public void setShowunconserved(boolean displayNonconserved)
+ {
+ this.showUnconserved = displayNonconserved;
+ }
}