import jalview.analysis.AAFrequency;
import jalview.analysis.AlignmentAnnotationUtils;
-import jalview.analysis.AnnotationSorter;
-import jalview.analysis.AnnotationSorter.SortOrder;
import jalview.analysis.Conservation;
import jalview.commands.ChangeCaseCommand;
import jalview.commands.EditCommand;
copyAnn.visible = true;
}
}
- // TODO: save annotation sort order on AlignViewport
- // do sorting from AlignmentPanel.updateAnnotation()
- new AnnotationSorter(this.ap.getAlignment()).sort(this.ap
- .getAlignment().getAlignmentAnnotation(),
- SortOrder.SEQUENCE_AND_TYPE);
refresh();
}
String choice = chooser.getSelectedFile().getPath();
jalview.bin.Cache.setProperty("LAST_DIRECTORY", choice);
new AssociatePdbFileWithSeq().associatePdbWithSeq(choice,
- jalview.io.AppletFormatAdapter.FILE, sequence, true);
+ jalview.io.AppletFormatAdapter.FILE, sequence, true,
+ Desktop.instance);
}
}