+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+
package jalview.io;
-import jalview.gui.AlignFrame;
+import jalview.api.AlignViewControllerGuiI;
import jalview.schemes.ColourSchemeI;
import java.io.IOException;
String alignmentJsonString = content.val();
JSONFile jsonFile = new JSONFile().parse(alignmentJsonString);
- seqs = jsonFile.seqs;
- seqGroups = jsonFile.seqGroups;
- annotations = jsonFile.annotations;
+ seqs = jsonFile.getSeqs();
+ seqGroups = jsonFile.getSeqGroups();
+ annotations = jsonFile.getAnnotations();
showSeqFeatures = jsonFile.isShowSeqFeatures();
colourScheme = jsonFile.getColourScheme();
} catch (Exception e)
}
}
- public void applySettingsToAlignFrame(AlignFrame af)
+ public void applySettingsToAlignFrame(AlignViewControllerGuiI af)
{
af.setShowSeqFeatures(isShowSeqFeatures());
af.changeColour(getColourScheme());