X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fappletgui%2FRotatableCanvas.java;h=f38d2916026022de4668b085425f586cc64fddf2;hb=17e77c3f2949a0729322b4a8d907f3f34b6a9914;hp=8d22f375f1593a0d9653023d2bd9dc8de8fe0f68;hpb=4ebc6d5b362bc093c39312aa1a69836e3dd6ae84;p=jalview.git diff --git a/src/jalview/appletgui/RotatableCanvas.java b/src/jalview/appletgui/RotatableCanvas.java index 8d22f37..f38d291 100755 --- a/src/jalview/appletgui/RotatableCanvas.java +++ b/src/jalview/appletgui/RotatableCanvas.java @@ -1,616 +1,661 @@ -/* - * 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.appletgui; - -import java.util.*; - -import java.awt.*; -import java.awt.event.*; - -import jalview.datamodel.*; -import jalview.math.*; -import jalview.util.*; - -public class RotatableCanvas - extends Panel implements MouseListener, - MouseMotionListener, - KeyListener -//RubberbandListener, -//SequenceSelectionListener -{ - RotatableMatrix idmat = new RotatableMatrix(3, 3); - RotatableMatrix objmat = new RotatableMatrix(3, 3); - RotatableMatrix rotmat = new RotatableMatrix(3, 3); - - //RubberbandRectangle rubberband; - - boolean drawAxes = true; - - int omx = 0; - int mx = 0; - int omy = 0; - int my = 0; - - Image img; - Graphics ig; - - Dimension prefsize; - - float centre[] = new float[3]; - float width[] = new float[3]; - - float max[] = new float[3]; - float min[] = new float[3]; - - float maxwidth; - float scale; - - int npoint; - - Vector points; - float[][] orig; - float[][] axes; - - int startx; - int starty; - - int lastx; - int lasty; - - int rectx1; - int recty1; - int rectx2; - int recty2; - - float scalefactor = 1; - - AlignViewport av; -// Controller controller; - - - public RotatableCanvas(AlignViewport av, - Vector points, int npoint) - { - this.points = points; - this.npoint = npoint; - this.av = av; - PaintRefresher.Register(this); -// - prefsize = getPreferredSize(); - orig = new float[npoint][3]; - - for (int i = 0; i < npoint; i++) - { - SequencePoint sp = (SequencePoint) points.elementAt(i); - for (int j = 0; j < 3; j++) - { - orig[i][j] = sp.coord[j]; - } - } - //Initialize the matrices to identity - - for (int i = 0; i < 3; i++) - { - for (int j = 0; j < 3; j++) - { - if (i != j) - { - idmat.addElement(i, j, 0); - objmat.addElement(i, j, 0); - rotmat.addElement(i, j, 0); - } - else - { - idmat.addElement(i, j, 0); - objmat.addElement(i, j, 0); - rotmat.addElement(i, j, 0); - } - } - } - - axes = new float[3][3]; - initAxes(); - - findCentre(); - findWidth(); - - scale = findScale(); - - // System.out.println("Scale factor = " + scale); - - addMouseListener(this); - addKeyListener(this); - // if (getParent() != null) { - // getParent().addKeyListener(this); - //} - addMouseMotionListener(this); - - // Add rubberband - // rubberband = new RubberbandRectangle(this); - // rubberband.setActive(true); - // rubberband.addListener(this); - } - - /* public boolean handleSequenceSelectionEvent(SequenceSelectionEvent evt) { - redrawneeded = true; - repaint(); - return true; - } - - public void removeNotify() { - controller.removeListener(this); - super.removeNotify(); - }*/ - - public void initAxes() - { - for (int i = 0; i < 3; i++) - { - for (int j = 0; j < 3; j++) - { - if (i != j) - { - axes[i][j] = 0; - } - else - { - axes[i][j] = 1; - } - } - } - } - - public void findWidth() - { - max = new float[3]; - min = new float[3]; - - max[0] = (float) - 1e30; - max[1] = (float) - 1e30; - max[2] = (float) - 1e30; - - min[0] = (float) 1e30; - min[1] = (float) 1e30; - min[2] = (float) 1e30; - - for (int i = 0; i < 3; i++) - { - for (int j = 0; j < npoint; j++) - { - SequencePoint sp = (SequencePoint) points.elementAt(j); - if (sp.coord[i] >= max[i]) - { - max[i] = sp.coord[i]; - } - if (sp.coord[i] <= min[i]) - { - min[i] = sp.coord[i]; - } - } - } - - // System.out.println("xmax " + max[0] + " min " + min[0]); - //System.out.println("ymax " + max[1] + " min " + min[1]); - //System.out.println("zmax " + max[2] + " min " + min[2]); - - width[0] = Math.abs(max[0] - min[0]); - width[1] = Math.abs(max[1] - min[1]); - width[2] = Math.abs(max[2] - min[2]); - - maxwidth = width[0]; - - if (width[1] > width[0]) - { - maxwidth = width[1]; - } - if (width[2] > width[1]) - { - maxwidth = width[2]; - } - - //System.out.println("Maxwidth = " + maxwidth); - } - - public float findScale() - { - int dim, width, height; - if (getSize().width != 0) - { - width = getSize().width; - height = getSize().height; - } - else - { - width = prefsize.width; - height = prefsize.height; - } - - if (width < height) - { - dim = width; - } - else - { - dim = height; - } - - return (float) (dim * scalefactor / (2 * maxwidth)); - } - - public void findCentre() - { - //Find centre coordinate - findWidth(); - - centre[0] = (max[0] + min[0]) / 2; - centre[1] = (max[1] + min[1]) / 2; - centre[2] = (max[2] + min[2]) / 2; - - // System.out.println("Centre x " + centre[0]); - //System.out.println("Centre y " + centre[1]); - //System.out.println("Centre z " + centre[2]); - } - - public Dimension getPreferredSize() - { - if (prefsize != null) - { - return prefsize; - } - else - { - return new Dimension(400, 400); - } - } - - public Dimension getMinimumSize() - { - return getPreferredSize(); - } - - public void paint(Graphics g) - { - //Only create the image at the beginning - - if ( (img == null) || (prefsize.width != getSize().width) || - (prefsize.height != getSize().height)) - { - prefsize.width = getSize().width; - prefsize.height = getSize().height; - - scale = findScale(); - - // System.out.println("New scale = " + scale); - img = createImage(getSize().width, getSize().height); - ig = img.getGraphics(); - - } - - drawBackground(ig, Color.black); - drawScene(ig); - if (drawAxes == true) - { - drawAxes(ig); - } - - g.drawImage(img, 0, 0, this); - } - - public void drawAxes(Graphics g) - { - - g.setColor(Color.yellow); - for (int i = 0; i < 3; i++) - { - g.drawLine(getSize().width / 2, getSize().height / 2, - (int) (axes[i][0] * scale * max[0] + getSize().width / 2), - (int) (axes[i][1] * scale * max[1] + getSize().height / 2)); - } - } - - public void drawBackground(Graphics g, Color col) - { - g.setColor(col); - g.fillRect(0, 0, prefsize.width, prefsize.height); - } - - public void drawScene(Graphics g) - { - boolean darker = false; - - int halfwidth = getSize().width / 2; - int halfheight = getSize().height / 2; - - for (int i = 0; i < npoint; i++) - { - SequencePoint sp = (SequencePoint) points.elementAt(i); - int x = (int) ( (float) (sp.coord[0] - centre[0]) * scale) + halfwidth; - int y = (int) ( (float) (sp.coord[1] - centre[1]) * scale) + halfheight; - float z = sp.coord[1] - centre[2]; - - if (sp.sequence.getColor() == Color.black) - { - g.setColor(Color.white); - } - else - { - g.setColor(sp.sequence.getColor()); - } - - if (av.getSelectionGroup() != null) - { - if (av.getSelectionGroup().sequences.contains( ( (SequencePoint) points. - elementAt(i)).sequence)) - { - g.setColor(Color.gray); - } - } - if (z < 0) - { - g.setColor(g.getColor().darker()); - } - - g.fillRect(x - 3, y - 3, 6, 6); - g.setColor(Color.red); - } -// //Now the rectangle -// if (rectx2 != -1 && recty2 != -1) { -// g.setColor(Color.white); -// -// g.drawRect(rectx1,recty1,rectx2-rectx1,recty2-recty1); -// } - } - - public Dimension minimumsize() - { - return prefsize; - } - - public Dimension preferredsize() - { - return prefsize; - } - - public void keyTyped(KeyEvent evt) - {} - - public void keyReleased(KeyEvent evt) - {} - - public void keyPressed(KeyEvent evt) - { - requestFocus(); - if (evt.getKeyCode() == KeyEvent.VK_UP) - { - scalefactor = (float) (scalefactor * 1.1); - scale = findScale(); - } - else if (evt.getKeyCode() == KeyEvent.VK_DOWN) - { - scalefactor = (float) (scalefactor * 0.9); - scale = findScale(); - } - else if (evt.getKeyChar() == 's') - { - System.err.println("DEBUG: Rectangle selection"); // log.debug - if (rectx2 != -1 && recty2 != -1) - { - rectSelect(rectx1, recty1, rectx2, recty2); - - } - } - repaint(); - } - - public void printPoints() - { - for (int i = 0; i < npoint; i++) - { - SequencePoint sp = (SequencePoint) points.elementAt(i); - Format.print(System.out, "%5d ", i); - for (int j = 0; j < 3; j++) - { - Format.print(System.out, "%13.3f ", sp.coord[j]); - } - System.out.println(); - } - } - - public void mouseClicked(MouseEvent evt) - {} - - public void mouseEntered(MouseEvent evt) - {} - - public void mouseExited(MouseEvent evt) - {} - - public void mouseReleased(MouseEvent evt) - {} - - public void mousePressed(MouseEvent evt) - { - int x = evt.getX(); - int y = evt.getY(); - - mx = x; - my = y; - - omx = mx; - omy = my; - - startx = x; - starty = y; - - rectx1 = x; - recty1 = y; - - rectx2 = -1; - recty2 = -1; - - SequenceI found = findPoint(x, y); - - if (found != null) - { - if (av.getSelectionGroup() != null) - { - av.getSelectionGroup().addOrRemove(found, true); - PaintRefresher.Refresh(this); - } - else - { - av.setSelectionGroup(new SequenceGroup()); - av.getSelectionGroup().addOrRemove(found, true); - av.getSelectionGroup().setEndRes(av.alignment.getWidth()); - - } - } - repaint(); - } - - // private void fireSequenceSelectionEvent(Selection sel) { - // controller.handleSequenceSelectionEvent(new SequenceSelectionEvent(this,sel)); - //} - - public void mouseMoved(MouseEvent evt) - { - // SequenceI found = findPoint(evt.getX(), evt.getY()); - } - - public void mouseDragged(MouseEvent evt) - { - mx = evt.getX(); - my = evt.getY(); - //Check if this is a rectangle drawing drag - if ( (evt.getModifiers() & InputEvent.BUTTON2_MASK) != 0) - { -// rectx2 = evt.getX(); -// recty2 = evt.getY(); - } - else - { - rotmat.setIdentity(); - - rotmat.rotate( (float) (my - omy), 'x'); - rotmat.rotate( (float) (mx - omx), 'y'); - - for (int i = 0; i < npoint; i++) - { - SequencePoint sp = (SequencePoint) points.elementAt(i); - sp.coord[0] -= centre[0]; - sp.coord[1] -= centre[1]; - sp.coord[2] -= centre[2]; - - //Now apply the rotation matrix - sp.coord = rotmat.vectorMultiply(sp.coord); - - //Now translate back again - sp.coord[0] += centre[0]; - sp.coord[1] += centre[1]; - sp.coord[2] += centre[2]; - } - - for (int i = 0; i < 3; i++) - { - axes[i] = rotmat.vectorMultiply(axes[i]); - } - omx = mx; - omy = my; - - paint(this.getGraphics()); - } - - } - - public void rectSelect(int x1, int y1, int x2, int y2) - { - boolean changedSel = false; - for (int i = 0; i < npoint; i++) - { - SequencePoint sp = (SequencePoint) points.elementAt(i); - int tmp1 = (int) ( (sp.coord[0] - centre[0]) * scale + - (float) getSize().width / 2.0); - int tmp2 = (int) ( (sp.coord[1] - centre[1]) * scale + - (float) getSize().height / 2.0); - - if (tmp1 > x1 && tmp1 < x2 && tmp2 > y1 && tmp2 < y2) - { - if (av != null) - { - if (!av.getSelectionGroup().sequences.contains(sp.sequence)) - { - av.getSelectionGroup().addSequence(sp.sequence, true); - } - } - } - } - } - - public SequenceI findPoint(int x, int y) - { - - int halfwidth = getSize().width / 2; - int halfheight = getSize().height / 2; - - int found = -1; - - for (int i = 0; i < npoint; i++) - { - - SequencePoint sp = (SequencePoint) points.elementAt(i); - int px = (int) ( (float) (sp.coord[0] - centre[0]) * scale) + halfwidth; - int py = (int) ( (float) (sp.coord[1] - centre[1]) * scale) + halfheight; - - if (Math.abs(px - x) < 3 && Math.abs(py - y) < 3) - { - found = i; - } - } - if (found != -1) - { - return ( (SequencePoint) points.elementAt(found)).sequence; - } - else - { - return null; - } - } - /* public boolean handleRubberbandEvent(RubberbandEvent evt) { - System.out.println("Rubberband handler called in RotatableCanvas with " + - evt.getBounds()); - - Rubberband rb = (Rubberband)evt.getSource(); - - // Clear the current selection (instance variable) - //if ((rb.getModifiers() & Event.SHIFT_MASK) == 0) { - // clearSelection(); - //} - - if (rb.getComponent() == this) { - Rectangle bounds = evt.getBounds(); - rectSelect(bounds.x,bounds.y,bounds.x+bounds.width,bounds.y+bounds.height); - } - - redrawneeded = true; - paint(this.getGraphics()); - - return true; - }*/ - -} +/* + * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9) + * Copyright (C) 2015 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.appletgui; + +import jalview.api.RotatableCanvasI; +import jalview.datamodel.SequenceGroup; +import jalview.datamodel.SequenceI; +import jalview.datamodel.SequencePoint; +import jalview.math.RotatableMatrix; +import jalview.util.Format; +import jalview.util.MessageManager; +import jalview.viewmodel.AlignmentViewport; + +import java.awt.Color; +import java.awt.Dimension; +import java.awt.Font; +import java.awt.Graphics; +import java.awt.Image; +import java.awt.Panel; +import java.awt.event.KeyEvent; +import java.awt.event.KeyListener; +import java.awt.event.MouseEvent; +import java.awt.event.MouseListener; +import java.awt.event.MouseMotionListener; +import java.util.Vector; + +public class RotatableCanvas extends Panel implements MouseListener, + MouseMotionListener, KeyListener, RotatableCanvasI +{ + RotatableMatrix idmat = new RotatableMatrix(3, 3); + + RotatableMatrix objmat = new RotatableMatrix(3, 3); + + RotatableMatrix rotmat = new RotatableMatrix(3, 3); + + String tooltip; + + int toolx, tooly; + + // RubberbandRectangle rubberband; + + boolean drawAxes = true; + + int omx = 0; + + int mx = 0; + + int omy = 0; + + int my = 0; + + Image img; + + Graphics ig; + + Dimension prefsize; + + float centre[] = new float[3]; + + float width[] = new float[3]; + + float max[] = new float[3]; + + float min[] = new float[3]; + + float maxwidth; + + float scale; + + int npoint; + + Vector points; + + float[][] orig; + + float[][] axes; + + int startx; + + int starty; + + int lastx; + + int lasty; + + int rectx1; + + int recty1; + + int rectx2; + + int recty2; + + float scalefactor = 1; + + AlignmentViewport av; + + boolean showLabels = false; + + public RotatableCanvas(AlignmentViewport av) + { + this.av = av; + } + + public void showLabels(boolean b) + { + showLabels = b; + repaint(); + } + + public void setPoints(Vector points, int npoint) + { + this.points = points; + this.npoint = npoint; + PaintRefresher.Register(this, av.getSequenceSetId()); + + prefsize = getPreferredSize(); + orig = new float[npoint][3]; + + for (int i = 0; i < npoint; i++) + { + SequencePoint sp = (SequencePoint) points.elementAt(i); + for (int j = 0; j < 3; j++) + { + orig[i][j] = sp.coord[j]; + } + } + // Initialize the matrices to identity + + for (int i = 0; i < 3; i++) + { + for (int j = 0; j < 3; j++) + { + if (i != j) + { + idmat.addElement(i, j, 0); + objmat.addElement(i, j, 0); + rotmat.addElement(i, j, 0); + } + else + { + idmat.addElement(i, j, 0); + objmat.addElement(i, j, 0); + rotmat.addElement(i, j, 0); + } + } + } + + axes = new float[3][3]; + initAxes(); + + findCentre(); + findWidth(); + + scale = findScale(); + + // System.out.println("Scale factor = " + scale); + + addMouseListener(this); + addKeyListener(this); + // if (getParent() != null) { + // getParent().addKeyListener(this); + // } + addMouseMotionListener(this); + + // Add rubberband + // rubberband = new RubberbandRectangle(this); + // rubberband.setActive(true); + // rubberband.addListener(this); + } + + /* + * public boolean handleSequenceSelectionEvent(SequenceSelectionEvent evt) { + * redrawneeded = true; repaint(); return true; } + * + * public void removeNotify() { controller.removeListener(this); + * super.removeNotify(); } + */ + + public void initAxes() + { + for (int i = 0; i < 3; i++) + { + for (int j = 0; j < 3; j++) + { + if (i != j) + { + axes[i][j] = 0; + } + else + { + axes[i][j] = 1; + } + } + } + } + + public void findWidth() + { + max = new float[3]; + min = new float[3]; + + max[0] = (float) -1e30; + max[1] = (float) -1e30; + max[2] = (float) -1e30; + + min[0] = (float) 1e30; + min[1] = (float) 1e30; + min[2] = (float) 1e30; + + for (int i = 0; i < 3; i++) + { + for (int j = 0; j < npoint; j++) + { + SequencePoint sp = (SequencePoint) points.elementAt(j); + if (sp.coord[i] >= max[i]) + { + max[i] = sp.coord[i]; + } + if (sp.coord[i] <= min[i]) + { + min[i] = sp.coord[i]; + } + } + } + + // System.out.println("xmax " + max[0] + " min " + min[0]); + // System.out.println("ymax " + max[1] + " min " + min[1]); + // System.out.println("zmax " + max[2] + " min " + min[2]); + + width[0] = Math.abs(max[0] - min[0]); + width[1] = Math.abs(max[1] - min[1]); + width[2] = Math.abs(max[2] - min[2]); + + maxwidth = width[0]; + + if (width[1] > width[0]) + { + maxwidth = width[1]; + } + if (width[2] > width[1]) + { + maxwidth = width[2]; + } + + // System.out.println("Maxwidth = " + maxwidth); + } + + public float findScale() + { + int dim, width, height; + if (getSize().width != 0) + { + width = getSize().width; + height = getSize().height; + } + else + { + width = prefsize.width; + height = prefsize.height; + } + + if (width < height) + { + dim = width; + } + else + { + dim = height; + } + + return (float) (dim * scalefactor / (2 * maxwidth)); + } + + public void findCentre() + { + // Find centre coordinate + findWidth(); + + centre[0] = (max[0] + min[0]) / 2; + centre[1] = (max[1] + min[1]) / 2; + centre[2] = (max[2] + min[2]) / 2; + + // System.out.println("Centre x " + centre[0]); + // System.out.println("Centre y " + centre[1]); + // System.out.println("Centre z " + centre[2]); + } + + public Dimension getPreferredSize() + { + if (prefsize != null) + { + return prefsize; + } + else + { + return new Dimension(400, 400); + } + } + + public Dimension getMinimumSize() + { + return getPreferredSize(); + } + + public void update(Graphics g) + { + paint(g); + } + + public void paint(Graphics g) + { + if (points == null) + { + g.setFont(new Font("Verdana", Font.PLAIN, 18)); + g.drawString(MessageManager.getString("label.calculating_pca") + + "....", 20, getSize().height / 2); + } + else + { + + // Only create the image at the beginning - + if ((img == null) || (prefsize.width != getSize().width) + || (prefsize.height != getSize().height)) + { + prefsize.width = getSize().width; + prefsize.height = getSize().height; + + scale = findScale(); + + // System.out.println("New scale = " + scale); + img = createImage(getSize().width, getSize().height); + ig = img.getGraphics(); + + } + + drawBackground(ig, Color.black); + drawScene(ig); + if (drawAxes == true) + { + drawAxes(ig); + } + + if (tooltip != null) + { + ig.setColor(Color.red); + ig.drawString(tooltip, toolx, tooly); + } + + g.drawImage(img, 0, 0, this); + } + } + + public void drawAxes(Graphics g) + { + + g.setColor(Color.yellow); + for (int i = 0; i < 3; i++) + { + g.drawLine(getSize().width / 2, getSize().height / 2, + (int) (axes[i][0] * scale * max[0] + getSize().width / 2), + (int) (axes[i][1] * scale * max[1] + getSize().height / 2)); + } + } + + public void drawBackground(Graphics g, Color col) + { + g.setColor(col); + g.fillRect(0, 0, prefsize.width, prefsize.height); + } + + public void drawScene(Graphics g) + { + // boolean darker = false; + + int halfwidth = getSize().width / 2; + int halfheight = getSize().height / 2; + + for (int i = 0; i < npoint; i++) + { + SequencePoint sp = (SequencePoint) points.elementAt(i); + int x = (int) ((float) (sp.coord[0] - centre[0]) * scale) + halfwidth; + int y = (int) ((float) (sp.coord[1] - centre[1]) * scale) + + halfheight; + float z = sp.coord[1] - centre[2]; + + if (av.getSequenceColour(sp.sequence) == Color.black) + { + g.setColor(Color.white); + } + else + { + g.setColor(av.getSequenceColour(sp.sequence)); + } + + if (av.getSelectionGroup() != null) + { + if (av.getSelectionGroup().getSequences(null) + .contains(((SequencePoint) points.elementAt(i)).sequence)) + { + g.setColor(Color.gray); + } + } + if (z < 0) + { + g.setColor(g.getColor().darker()); + } + + g.fillRect(x - 3, y - 3, 6, 6); + if (showLabels) + { + g.setColor(Color.red); + g.drawString( + ((SequencePoint) points.elementAt(i)).sequence.getName(), + x - 3, y - 4); + } + } + } + + public Dimension minimumsize() + { + return prefsize; + } + + public Dimension preferredsize() + { + return prefsize; + } + + public void keyTyped(KeyEvent evt) + { + } + + public void keyReleased(KeyEvent evt) + { + } + + public void keyPressed(KeyEvent evt) + { + if (evt.getKeyCode() == KeyEvent.VK_UP) + { + scalefactor = (float) (scalefactor * 1.1); + scale = findScale(); + } + else if (evt.getKeyCode() == KeyEvent.VK_DOWN) + { + scalefactor = (float) (scalefactor * 0.9); + scale = findScale(); + } + else if (evt.getKeyChar() == 's') + { + System.err.println("DEBUG: Rectangle selection"); // log.debug + if (rectx2 != -1 && recty2 != -1) + { + rectSelect(rectx1, recty1, rectx2, recty2); + + } + } + repaint(); + } + + public void printPoints() + { + for (int i = 0; i < npoint; i++) + { + SequencePoint sp = (SequencePoint) points.elementAt(i); + Format.print(System.out, "%5d ", i); + for (int j = 0; j < 3; j++) + { + Format.print(System.out, "%13.3f ", sp.coord[j]); + } + System.out.println(); + } + } + + public void mouseClicked(MouseEvent evt) + { + } + + public void mouseEntered(MouseEvent evt) + { + } + + public void mouseExited(MouseEvent evt) + { + } + + public void mouseReleased(MouseEvent evt) + { + } + + public void mousePressed(MouseEvent evt) + { + int x = evt.getX(); + int y = evt.getY(); + + mx = x; + my = y; + + omx = mx; + omy = my; + + startx = x; + starty = y; + + rectx1 = x; + recty1 = y; + + rectx2 = -1; + recty2 = -1; + + SequenceI found = findPoint(x, y); + + if (found != null) + { + // TODO: applet PCA is not associatable with multi-panels - only parent + // view + if (av.getSelectionGroup() != null) + { + av.getSelectionGroup().addOrRemove(found, true); + av.getSelectionGroup().setEndRes(av.getAlignment().getWidth() - 1); + } + else + { + av.setSelectionGroup(new SequenceGroup()); + av.getSelectionGroup().addOrRemove(found, true); + av.getSelectionGroup().setEndRes(av.getAlignment().getWidth() - 1); + + } + PaintRefresher.Refresh(this, av.getSequenceSetId()); + av.sendSelection(); + } + repaint(); + } + + public void mouseMoved(MouseEvent evt) + { + SequenceI found = findPoint(evt.getX(), evt.getY()); + if (found == null) + { + tooltip = null; + } + else + { + tooltip = found.getName(); + toolx = evt.getX(); + tooly = evt.getY(); + } + repaint(); + } + + public void mouseDragged(MouseEvent evt) + { + mx = evt.getX(); + my = evt.getY(); + + rotmat.setIdentity(); + + rotmat.rotate((float) (my - omy), 'x'); + rotmat.rotate((float) (mx - omx), 'y'); + + for (int i = 0; i < npoint; i++) + { + SequencePoint sp = (SequencePoint) points.elementAt(i); + sp.coord[0] -= centre[0]; + sp.coord[1] -= centre[1]; + sp.coord[2] -= centre[2]; + + // Now apply the rotation matrix + sp.coord = rotmat.vectorMultiply(sp.coord); + + // Now translate back again + sp.coord[0] += centre[0]; + sp.coord[1] += centre[1]; + sp.coord[2] += centre[2]; + } + + for (int i = 0; i < 3; i++) + { + axes[i] = rotmat.vectorMultiply(axes[i]); + } + omx = mx; + omy = my; + + paint(this.getGraphics()); + } + + public void rectSelect(int x1, int y1, int x2, int y2) + { + // boolean changedSel = false; + for (int i = 0; i < npoint; i++) + { + SequencePoint sp = (SequencePoint) points.elementAt(i); + int tmp1 = (int) ((sp.coord[0] - centre[0]) * scale + (float) getSize().width / 2.0); + int tmp2 = (int) ((sp.coord[1] - centre[1]) * scale + (float) getSize().height / 2.0); + + if (tmp1 > x1 && tmp1 < x2 && tmp2 > y1 && tmp2 < y2) + { + if (av != null) + { + if (!av.getSelectionGroup().getSequences(null) + .contains(sp.sequence)) + { + av.getSelectionGroup().addSequence(sp.sequence, true); + } + } + } + } + } + + public SequenceI findPoint(int x, int y) + { + + int halfwidth = getSize().width / 2; + int halfheight = getSize().height / 2; + + int found = -1; + + for (int i = 0; i < npoint; i++) + { + + SequencePoint sp = (SequencePoint) points.elementAt(i); + int px = (int) ((float) (sp.coord[0] - centre[0]) * scale) + + halfwidth; + int py = (int) ((float) (sp.coord[1] - centre[1]) * scale) + + halfheight; + + if (Math.abs(px - x) < 3 && Math.abs(py - y) < 3) + { + found = i; + } + } + if (found != -1) + { + return ((SequencePoint) points.elementAt(found)).sequence; + } + else + { + return null; + } + } + +}