/*
* 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
* 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 (0..) * @return */ public Color findFeatureColour(Color defaultColour, SequenceI seq, int column) { if (noFeaturesDisplayed()) { return defaultColour; } Graphics g = null; /* * if transparency applies, provide a notional 1x1 graphics context * that has been primed with the default colour */ if (featureRenderer.getTransparency() != 1f) { g = offscreenImage.getGraphics(); if (defaultColour != null) { offscreenImage.setRGB(0, 0, defaultColour.getRGB()); } } Color c = featureRenderer.findFeatureColour(seq, column + 1, g); if (c == null) { return defaultColour; } if (g != null) { c = new Color(offscreenImage.getRGB(0, 0)); } 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) { return true; } AlignViewportI av = featureRenderer.getViewport(); if (av.isShowComplementFeatures()) { return false; } if (!av.isShowSequenceFeatures()) { return true; } if (!((FeatureRendererModel) featureRenderer).hasRenderOrder()) { return true; } FeaturesDisplayedI displayed = featureRenderer.getFeaturesDisplayed(); if (displayed == null || displayed.getVisibleFeatureCount() == 0) { return true; } return false; } }