X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fgui%2FOverviewPanel.java;h=cad0fc15614d40ca8c3b43edeec4605aaf514e1e;hb=5010b95e8e250e744eefc5a1c976d70c044be32f;hp=a55af89927680bf3ee2f996ddef240d0d80a92e4;hpb=99c58ee0ae2a848f982552e53feaf6d5cb9925e5;p=jalview.git diff --git a/src/jalview/gui/OverviewPanel.java b/src/jalview/gui/OverviewPanel.java index a55af89..9d0a55d 100755 --- a/src/jalview/gui/OverviewPanel.java +++ b/src/jalview/gui/OverviewPanel.java @@ -1,279 +1,415 @@ -/* -* Jalview - A Sequence Alignment Editor and Viewer -* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle -* -* This program 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 2 -* of the License, or (at your option) any later version. -* -* This program 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 this program; if not, write to the Free Software -* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA -*/ - -package jalview.gui; - -import javax.swing.*; -import java.awt.event.*; -import java.awt.image.*; -import java.awt.*; - -public class OverviewPanel extends JPanel implements Runnable -{ - BufferedImage miniMe; - AlignViewport av; - AlignmentPanel ap; - float scalew = 1f; - float scaleh = 1f; - - int width, sequencesHeight; - int graphHeight=30; - int boxX=-1, boxY=-1, boxWidth=-1, boxHeight=-1; - - boolean resizing = false; - - public OverviewPanel(AlignmentPanel ap) - { - this.av = ap.av; - this.ap = ap; - setLayout(null); - - // scale the initial size of overviewpanel to shape of alignment - float initialScale = (float)av.alignment.getWidth()/(float)av.alignment.getHeight(); - if(av.alignment.getWidth() > av.alignment.getHeight()) - { - // wider - width = 400; - sequencesHeight = (int)(400f/initialScale); - } - else - { - // taller - width = (int)(400f*initialScale); - sequencesHeight = 300; - if(width<120) - width = 120; - } - - addComponentListener(new ComponentAdapter() - { - - public void componentResized(ComponentEvent evt) - { - if( getWidth()!=width || getHeight()!=sequencesHeight+graphHeight) - { - updateOverviewImage(); - } - } - }); - - addMouseMotionListener(new MouseMotionAdapter() - { - public void mouseDragged(MouseEvent evt) - { doMouseDragged(evt);} - }); - - addMouseListener(new MouseAdapter() - { - public void mousePressed(MouseEvent evt) - { doMousePressed(evt);} - public void mouseReleased(MouseEvent evt) - { doMouseReleased(evt);} - }); - - updateOverviewImage(); - - } - - public void doMousePressed(MouseEvent evt) - { - boxX = evt.getX(); - boxY = evt.getY(); - - checkValid(); - repaint(); - } - - public void doMouseReleased(MouseEvent evt) - { - boxX = evt.getX(); - boxY = evt.getY(); - checkValid(); - if(!resizing) - ap.setScrollValues( (int)(boxX/scalew/av.getCharWidth()), - (int)(boxY/scaleh/av.getCharHeight()) ); - } - - public void doMouseDragged(MouseEvent evt) - { - boxX = evt.getX(); - boxY = evt.getY(); - checkValid(); - if(!resizing) - ap.setScrollValues( (int)(boxX/scalew/av.getCharWidth()), - (int)(boxY/scaleh/av.getCharHeight()) ); - } - - void checkValid() - { - if (boxY < 0) - boxY = 0; - - if (boxY > sequencesHeight - boxHeight) - boxY = sequencesHeight - boxHeight+1; - - if (boxX < 0) - boxX = 0; - - if (boxX > width - boxWidth) - boxX = width - boxWidth; - } - - public void updateOverviewImage() - { - if(resizing) - { - return; - } - - resizing = true; - Thread thread = new Thread(this); - thread.start(); - repaint(); - } - - public void run() - { - miniMe = null; - int alwidth = av.alignment.getWidth(); - int alheight = av.alignment.getHeight(); - - if(getWidth()>0 && getHeight()>0) - { - width = getWidth(); - sequencesHeight = getHeight() - graphHeight; - } - - setPreferredSize (new Dimension(width, sequencesHeight+graphHeight)); - - int fullsizeWidth = alwidth * av.getCharWidth(); - int fullsizeHeight = alheight * av.getCharHeight(); - - scalew = (float) width / (float) fullsizeWidth; - scaleh = (float) sequencesHeight / (float) fullsizeHeight; - - miniMe = new BufferedImage(width, sequencesHeight + graphHeight, - BufferedImage.TYPE_INT_RGB); - - Graphics mg = miniMe.getGraphics(); - BufferedImage consensus = new BufferedImage(fullsizeWidth, - 60, - BufferedImage.TYPE_3BYTE_BGR); - Graphics g = consensus.getGraphics(); - ap.annotationPanel.drawGraph(g, av.conservation, fullsizeWidth, 60); - mg.drawImage(consensus, 0, sequencesHeight, width, - sequencesHeight + graphHeight, 0, 0, fullsizeWidth, 60, this); - - - boolean oldRenderGaps = av.renderGaps; - try{ - // We'll have to draw the full size alignment in chunks, as an image of the - // whole alignment requires too much memory - - // Max size depends on the font size, the following is a - // guess at a size which works - int maxSize = 2000 / av.getFont().getSize(); - BufferedImage block; - int blockx=0, blocky=0, blockw=0, blockh=0, eRes=0, eSeq=0; - - av.setRenderGaps(false); - for(int sRes=0, chunkx=0; sResalwidth) - eRes = alwidth; - - for(int sSeq=0, chunky=0; sSeqalheight) - eSeq = alheight; - - blocky = 0; - blockx = (int)((float)sRes/(float)alwidth * width); - - block = new BufferedImage((eRes-sRes)*av.charWidth, - (eSeq-sSeq)*av.charHeight, - BufferedImage.TYPE_3BYTE_BGR); - g = block.getGraphics(); - - ap.seqPanel.seqCanvas.drawPanel(g, sRes, eRes, sSeq, eSeq, sRes, sSeq, 0); - - blockh = (int)( (float)(eSeq-sSeq)/(float)alheight * sequencesHeight )+1 ; - blockw = (int)( (float)(eRes-sRes)/(float)alwidth * width )+1; - - blocky += (int) ((float)sSeq/(float)alheight* sequencesHeight); - - mg.drawImage(block, blockx, - blocky , - blockx + blockw, - blocky + blockh, - - 0, 0, block.getWidth(),block.getHeight(), this); - - block = null; - } - - } - - }catch(OutOfMemoryError error) - { System.err.println("Out of memory when trying to calculate the overview window image!"); } - - - av.setRenderGaps(oldRenderGaps); - resizing = false; - - setBoxPosition(); - } - - public void setBoxPosition() - { - boxX = (int) (av.getStartRes() * av.getCharWidth() * scalew); - boxY = (int) (av.getStartSeq() * av.getCharHeight() * scaleh); - boxWidth = (int) ((av.getEndRes()-av.getStartRes()+1)* av.getCharWidth() * scalew) ; - boxHeight = (int) (av.getEndSeq() * av.getCharHeight() * scaleh) - boxY; - repaint(); - } - - - public void paintComponent(Graphics g) - { - g.setColor(Color.white); - g.fillRect(0,0,getWidth(),getHeight()); - g.setColor(Color.black); - - if(resizing) - { - g.setFont(new Font("Verdana", Font.BOLD, 15)); - g.drawString("Recalculating", 5, sequencesHeight/2); - g.drawString("Overview.....", 5, sequencesHeight/2 +20); - } - else - { - if(miniMe!=null) - g.drawImage(miniMe, 0,0,this); - - g.setColor(Color.red); - g.drawRect(boxX, boxY, boxWidth, boxHeight); - g.drawRect(boxX+1, boxY+1, boxWidth-2, boxHeight-2); - } - } - -} +/* + * 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 . + * The Jalview Authors are detailed in the 'AUTHORS' file. + */ +package jalview.gui; + +import jalview.bin.Cache; +import jalview.renderer.OverviewRenderer; +import jalview.util.MessageManager; +import jalview.util.Platform; +import jalview.viewmodel.OverviewDimensions; +import jalview.viewmodel.OverviewDimensionsHideHidden; +import jalview.viewmodel.OverviewDimensionsShowHidden; +import jalview.viewmodel.ViewportListenerI; + +import java.awt.BorderLayout; +import java.awt.Cursor; +import java.awt.Dimension; +import java.awt.event.ActionEvent; +import java.awt.event.ActionListener; +import java.awt.event.ComponentAdapter; +import java.awt.event.ComponentEvent; +import java.awt.event.MouseAdapter; +import java.awt.event.MouseEvent; +import java.awt.event.MouseMotionAdapter; +import java.beans.PropertyChangeEvent; +import java.beans.PropertyVetoException; + +import javax.swing.JCheckBoxMenuItem; +import javax.swing.JInternalFrame; +import javax.swing.JPanel; +import javax.swing.JPopupMenu; +import javax.swing.SwingUtilities; + +/** + * Panel displaying an overview of the full alignment, with an interactive box + * representing the viewport onto the alignment. + * + * @author $author$ + * @version $Revision$ + */ +public class OverviewPanel extends JPanel + implements Runnable, ViewportListenerI +{ + private OverviewDimensions od; + + private OverviewCanvas oviewCanvas; + + private AlignViewport av; + + private AlignmentPanel ap; + + private JCheckBoxMenuItem displayToggle; + + private boolean showHidden = true; + + private boolean draggingBox = false; + + private ProgressPanel progressPanel; + + /** + * Creates a new OverviewPanel object. + * + * @param alPanel + * The alignment panel which is shown in the overview panel + */ + public OverviewPanel(AlignmentPanel alPanel) + { + this.av = alPanel.av; + this.ap = alPanel; + + showHidden = Cache.getDefault(Preferences.SHOW_OV_HIDDEN_AT_START, + false); + if (showHidden) + { + od = new OverviewDimensionsShowHidden(av.getRanges(), + (av.isShowAnnotation() + && av.getAlignmentConservationAnnotation() != null)); + } + else + { + od = new OverviewDimensionsHideHidden(av.getRanges(), + (av.isShowAnnotation() + && av.getAlignmentConservationAnnotation() != null)); + } + + setLayout(new BorderLayout()); + progressPanel = new ProgressPanel(OverviewRenderer.UPDATE, + MessageManager.getString("label.oview_calc"), getWidth()); + this.add(progressPanel, BorderLayout.SOUTH); + oviewCanvas = new OverviewCanvas(od, av, progressPanel); + + add(oviewCanvas, BorderLayout.CENTER); + + av.getRanges().addPropertyChangeListener(this); + + // without this the overview window does not size to fit the overview canvas + setPreferredSize(new Dimension(od.getWidth(), od.getHeight())); + + addComponentListener(new ComponentAdapter() + { + @Override + public void componentResized(ComponentEvent evt) + { + // Resize is called on the initial display of the overview. + // This code adjusts sizes to account for the progress bar if it has not + // already been accounted for, which triggers another resize call for + // the correct sizing, at which point the overview image is updated. + // (This avoids a double recalculation of the image.) + if (getWidth() == od.getWidth() && getHeight() == od.getHeight() + + progressPanel.getHeight()) + { + updateOverviewImage(); + } + else + { + if ((getWidth() > 0) && (getHeight() > 0)) + { + od.setWidth(getWidth()); + od.setHeight(getHeight() - progressPanel.getHeight()); + } + + setPreferredSize(new Dimension(od.getWidth(), + od.getHeight() + progressPanel.getHeight())); + } + } + + }); + + addMouseMotionListener(new MouseMotionAdapter() + { + @Override + public void mouseDragged(MouseEvent evt) + { + if (!SwingUtilities.isRightMouseButton(evt)) + { + if (draggingBox) + { + // set the mouse position as a fixed point in the box + // and drag relative to that position + od.adjustViewportFromMouse(evt.getX(), evt.getY(), + av.getAlignment().getHiddenSequences(), + av.getAlignment().getHiddenColumns()); + } + else + { + od.updateViewportFromMouse(evt.getX(), evt.getY(), + av.getAlignment().getHiddenSequences(), + av.getAlignment().getHiddenColumns()); + } + } + } + + @Override + public void mouseMoved(MouseEvent evt) + { + if (od.isPositionInBox(evt.getX(), evt.getY())) + { + /* + * using HAND_CURSOR rather than DRAG_CURSOR + * as the latter is not supported on Mac + */ + getParent().setCursor( + Cursor.getPredefinedCursor(Cursor.HAND_CURSOR)); + } + else + { + // reset cursor + getParent().setCursor( + Cursor.getPredefinedCursor(Cursor.CROSSHAIR_CURSOR)); + } + } + + }); + + addMouseListener(new MouseAdapter() + { + @Override + public void mousePressed(MouseEvent evt) + { + if (SwingUtilities.isRightMouseButton(evt)) + { + if (!Platform.isAMac()) + { + showPopupMenu(evt); + } + } + else + { + // don't do anything if the mouse press is in the overview's box + // (wait to see if it's a drag instead) + // otherwise update the viewport + if (!od.isPositionInBox(evt.getX(), evt.getY())) + { + draggingBox = false; + + // display drag cursor at mouse position + setCursor(Cursor.getPredefinedCursor(Cursor.MOVE_CURSOR)); + + od.updateViewportFromMouse(evt.getX(), evt.getY(), + av.getAlignment().getHiddenSequences(), + av.getAlignment().getHiddenColumns()); + getParent().setCursor( + Cursor.getPredefinedCursor(Cursor.HAND_CURSOR)); + } + else + { + draggingBox = true; + od.setDragPoint(evt.getX(), evt.getY(), + av.getAlignment().getHiddenSequences(), + av.getAlignment().getHiddenColumns()); + } + } + } + + @Override + public void mouseClicked(MouseEvent evt) + { + if (SwingUtilities.isRightMouseButton(evt)) + { + showPopupMenu(evt); + } + } + + @Override + public void mouseReleased(MouseEvent evt) + { + draggingBox = false; + } + + }); + } + + /* + * Displays the popup menu and acts on user input + */ + private void showPopupMenu(MouseEvent e) + { + JPopupMenu popup = new JPopupMenu(); + ActionListener menuListener = new ActionListener() + { + @Override + public void actionPerformed(ActionEvent event) + { + // switch on/off the hidden columns view + toggleHiddenColumns(); + displayToggle.setSelected(showHidden); + } + }; + displayToggle = new JCheckBoxMenuItem( + MessageManager.getString("label.togglehidden")); + displayToggle.setEnabled(true); + displayToggle.setSelected(showHidden); + popup.add(displayToggle); + displayToggle.addActionListener(menuListener); + popup.show(this, e.getX(), e.getY()); + } + + /* + * Toggle overview display between showing hidden columns and hiding hidden columns + */ + private void toggleHiddenColumns() + { + if (showHidden) + { + showHidden = false; + od = new OverviewDimensionsHideHidden(av.getRanges(), + (av.isShowAnnotation() + && av.getAlignmentConservationAnnotation() != null)); + } + else + { + showHidden = true; + od = new OverviewDimensionsShowHidden(av.getRanges(), + (av.isShowAnnotation() + && av.getAlignmentConservationAnnotation() != null)); + } + oviewCanvas.resetOviewDims(od); + updateOverviewImage(); + setBoxPosition(); + } + + /** + * Updates the overview image when the related alignment panel is updated + */ + public void updateOverviewImage() + { + if (oviewCanvas == null) + { + /* + * panel has been disposed + */ + return; + } + + if ((getWidth() > 0) && (getHeight() > 0)) + { + od.setWidth(getWidth()); + od.setHeight(getHeight() - progressPanel.getHeight()); + } + + setPreferredSize(new Dimension(od.getWidth(), + od.getHeight() + progressPanel.getHeight())); + + if (oviewCanvas.restartDraw()) + { + return; + } + + Thread thread = new Thread(this); + thread.start(); + repaint(); + + + } + + @Override + public void run() + { + if (oviewCanvas != null) + { + oviewCanvas.draw(av.isShowSequenceFeatures(), + (av.isShowAnnotation() + && av.getAlignmentConservationAnnotation() != null), + ap.getSeqPanel().seqCanvas.getFeatureRenderer()); + setBoxPosition(); + } + } + + /** + * Update the overview panel box when the associated alignment panel is + * changed + * + */ + private void setBoxPositionOnly() + { + if (od != null) + { + int oldX = od.getBoxX(); + int oldY = od.getBoxY(); + int oldWidth = od.getBoxWidth(); + int oldHeight = od.getBoxHeight(); + od.setBoxPosition(av.getAlignment().getHiddenSequences(), + av.getAlignment().getHiddenColumns()); + repaint(oldX - 1, oldY - 1, oldWidth + 2, oldHeight + 2); + repaint(od.getBoxX(), od.getBoxY(), od.getBoxWidth(), + od.getBoxHeight()); + } + } + + private void setBoxPosition() + { + if (od != null) + { + od.setBoxPosition(av.getAlignment().getHiddenSequences(), + av.getAlignment().getHiddenColumns()); + repaint(); + } + } + + @Override + public void propertyChange(PropertyChangeEvent evt) + { + setBoxPositionOnly(); + } + + /** + * Removes this object as a property change listener, and nulls references + */ + protected void dispose() + { + try + { + if (av != null) + { + av.getRanges().removePropertyChangeListener(this); + } + + oviewCanvas.dispose(); + + /* + * close the parent frame (which also removes it from the + * Desktop Windows menu) + */ + ((JInternalFrame) SwingUtilities.getAncestorOfClass( + JInternalFrame.class, (this))).setClosed(true); + } catch (PropertyVetoException e) + { + // ignore + } finally + { + progressPanel = null; + av = null; + oviewCanvas = null; + ap = null; + od = null; + } + } +}