/*\r
* Jalview - A Sequence Alignment Editor and Viewer\r
- * Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
*\r
* This program is free software; you can redistribute it and/or\r
* modify it under the terms of the GNU General Public License\r
for (int i = 0; i < entryCount; i++)\r
{\r
jarentry = jin.getNextJarEntry();\r
-\r
}\r
\r
-\r
class NoDescIDResolver implements IDResolver\r
{\r
public Object resolve(String idref)\r
Viewport[] views = jms.getViewport();\r
Viewport view = views[0]; // DEAL WITH MULTIPLE VIEWPORTS LATER\r
\r
- AlignFrame af = new AlignFrame(al);\r
+ AlignFrame af = new AlignFrame(al, view.getWidth(), view.getHeight());\r
\r
\r
// af.changeColour() );\r
groups[i].getColour());\r
}\r
\r
- cs.setThreshold(groups[i].getPidThreshold(), true);\r
+ if(cs!=null)\r
+ cs.setThreshold(groups[i].getPidThreshold(), true);\r
+\r
}\r
\r
Vector seqs = new Vector();\r
if(cs!=null)\r
{\r
cs.setThreshold(view.getPidThreshold(), true);\r
- cs.setConsensus(af.viewport.vconsensus);\r
+ cs.setConsensus(af.viewport.hconsensus);\r
}\r
}\r
\r