+/*
+ * 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.renderer.seqfeatures;
+import jalview.api.FeatureRenderer;
import jalview.api.FeaturesDisplayedI;
import jalview.datamodel.SequenceI;
import jalview.viewmodel.seqfeatures.FeatureRendererModel;
/*
* the class we delegate feature finding to
*/
- private jalview.api.FeatureRenderer featureRenderer;
+ private FeatureRenderer featureRenderer;
/*
* a 1-pixel image on which features can be drawn, for the case where
*
* @param fr
*/
- public FeatureColourFinder(jalview.api.FeatureRenderer fr)
+ public FeatureColourFinder(FeatureRenderer fr)
{
featureRenderer = fr;
offscreenImage = new BufferedImage(1, 1, BufferedImage.TYPE_INT_ARGB);
* transparency, this class provides a dummy 'offscreen' graphics context
* where multiple feature colours can be overlaid and the combined colour read
* back.
+ * <p>
+ * This method is not thread-safe when transparency is applied, since a shared
+ * BufferedImage would be used by all threads to hold the composite colour at
+ * a position. Each thread should use a separate instance of this class.
*
* @param defaultColour
* @param seq
* @param column
- * alignment column position (base zero)
+ * alignment column position (0..)
* @return
*/
public Color findFeatureColour(Color defaultColour, SequenceI seq,
int column)
{
- if (!((FeatureRendererModel) featureRenderer).hasRenderOrder())
+ if (noFeaturesDisplayed())
{
return defaultColour;
}
- FeaturesDisplayedI displayed = featureRenderer.getFeaturesDisplayed();
- if (displayed == null || displayed.getVisibleFeatureCount() == 0)
+ Graphics g = null;
+
+ /*
+ * if transparency applies, provide a notional 1x1 graphics context
+ * that has been primed with the default colour
+ */
+ if (featureRenderer.getTransparency() != 1f)
{
- return defaultColour; // nothing to see here folks
+ g = offscreenImage.getGraphics();
+ if (defaultColour != null)
+ {
+ offscreenImage.setRGB(0, 0, defaultColour.getRGB());
+ }
}
- Graphics g = featureRenderer.getTransparency() == 1f ? null
- : offscreenImage.getGraphics();
+ Color c = featureRenderer.findFeatureColour(seq, column + 1, g);
+ if (c == null)
+ {
+ return defaultColour;
+ }
- Color c = featureRenderer.findFeatureColour(seq, column, g);
- if (c != null && g != null)
+ if (g != null)
{
c = new Color(offscreenImage.getRGB(0, 0));
}
- return c == null ? defaultColour : c;
+ return c;
+ }
+
+ /**
+ * Answers true if feature display is turned off, or there are no features
+ * configured to be visible
+ *
+ * @return
+ */
+ boolean noFeaturesDisplayed()
+ {
+ if (featureRenderer == null
+ || !featureRenderer.getViewport().isShowSequenceFeatures())
+ {
+ return true;
+ }
+
+ if (!((FeatureRendererModel) featureRenderer).hasRenderOrder())
+ {
+ return true;
+ }
+
+ FeaturesDisplayedI displayed = featureRenderer.getFeaturesDisplayed();
+ if (displayed == null || displayed.getVisibleFeatureCount() == 0)
+ {
+ return true;
+ }
+
+ return false;
}
}