// Copyright (C) 2008-2009 Christian M. Zmasek
// Copyright (C) 2008-2009 Burnham Institute for Medical Research
// All rights reserved
-//
+//
// This library is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// License as published by the Free Software Foundation; either
// but WITHOUT ANY WARRANTY; without even the implied warranty of
// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
// Lesser General Public License for more details.
-//
+//
// You should have received a copy of the GNU Lesser General Public
// License along with this library; if not, write to the Free Software
// Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
private static final float HALF_PI = ( float ) ( Math.PI / 2.0 );
private static final float ANGLE_ROTATION_UNIT = ( float ) ( Math.PI / 32 );
private static final short OV_BORDER = 10;
- final static Cursor CUT_CURSOR = Cursor
- .getPredefinedCursor( Cursor.CROSSHAIR_CURSOR );
- final static Cursor MOVE_CURSOR = Cursor
- .getPredefinedCursor( Cursor.MOVE_CURSOR );
- final static Cursor ARROW_CURSOR = Cursor
- .getPredefinedCursor( Cursor.DEFAULT_CURSOR );
- final static Cursor HAND_CURSOR = Cursor
- .getPredefinedCursor( Cursor.HAND_CURSOR );
- final static Cursor WAIT_CURSOR = Cursor
- .getPredefinedCursor( Cursor.WAIT_CURSOR );
+ final static Cursor CUT_CURSOR = Cursor.getPredefinedCursor( Cursor.CROSSHAIR_CURSOR );
+ final static Cursor MOVE_CURSOR = Cursor.getPredefinedCursor( Cursor.MOVE_CURSOR );
+ final static Cursor ARROW_CURSOR = Cursor.getPredefinedCursor( Cursor.DEFAULT_CURSOR );
+ final static Cursor HAND_CURSOR = Cursor.getPredefinedCursor( Cursor.HAND_CURSOR );
+ final static Cursor WAIT_CURSOR = Cursor.getPredefinedCursor( Cursor.WAIT_CURSOR );
private final static long serialVersionUID = -978349745916505029L;
private final static int EURO_D = 10;
private final static String NODE_POPMENU_NODE_CLIENT_PROPERTY = "node";
private JTextArea _rollover_popup;
//private final short _skip_counter = 0;
private final StringBuffer _popup_buffer = new StringBuffer();
- final private static Font POPUP_FONT = new Font( Configuration
- .getDefaultFontFamilyName(),
+ final private static Font POPUP_FONT = new Font( Configuration.getDefaultFontFamilyName(),
Font.PLAIN,
12 );
private static final boolean DRAW_MEAN_COUNTS = true; //TODO remove me later
final double r2 = 2.0 * parent_radius;
drawArc( root_x - parent_radius, root_y - parent_radius, r2, r2, ( -angle - arc ), arc, g );
}
- drawLine( c.getXcoord(), c.getYcoord(), root_x + ( Math.cos( angle ) * parent_radius ), root_y
- + ( Math.sin( angle ) * parent_radius ), g );
+ drawLine( c.getXcoord(),
+ c.getYcoord(),
+ root_x + ( Math.cos( angle ) * parent_radius ),
+ root_y + ( Math.sin( angle ) * parent_radius ),
+ g );
paintNodeBox( c.getXcoord(), c.getYcoord(), c, g, to_pdf, to_graphics_file, isInFoundNodes( c ) );
if ( c.isExternal() ) {
final boolean is_in_found_nodes = isInFoundNodes( c );
final double r2 = 2.0 * parent_radius;
drawArc( root_x - parent_radius, root_y - parent_radius, r2, r2, ( -angle - arc ), arc, g );
}
- drawLine( c.getXSecondary(), c.getYSecondary(), root_x + ( Math.cos( angle ) * parent_radius ), root_y
- + ( Math.sin( angle ) * parent_radius ), g );
+ drawLine( c.getXSecondary(),
+ c.getYSecondary(),
+ root_x + ( Math.cos( angle ) * parent_radius ),
+ root_y + ( Math.sin( angle ) * parent_radius ),
+ g );
if ( isInFoundNodes( c ) ) {
g.setColor( getTreeColorSet().getFoundColor() );
drawRectFilled( c.getXSecondary() - 1, c.getYSecondary() - 1, 3, 3, g );
if ( !node.isRoot() ) {
if ( getPhylogenyGraphicsType() == PHYLOGENY_GRAPHICS_TYPE.EURO_STYLE ) {
TreePanel.drawString( FORMATTER_BRANCH_LENGTH.format( node.getDistanceToParent() ), node.getParent()
- .getXcoord()
- + EURO_D, node.getYcoord() - getTreeFontSet()._small_max_descent, g );
+ .getXcoord() + EURO_D, node.getYcoord() - getTreeFontSet()._small_max_descent, g );
}
else if ( getPhylogenyGraphicsType() == PHYLOGENY_GRAPHICS_TYPE.ROUNDED ) {
TreePanel.drawString( FORMATTER_BRANCH_LENGTH.format( node.getDistanceToParent() ), node.getParent()
- .getXcoord()
- + ROUNDED_D, node.getYcoord() - getTreeFontSet()._small_max_descent, g );
+ .getXcoord() + ROUNDED_D, node.getYcoord() - getTreeFontSet()._small_max_descent, g );
}
else {
TreePanel.drawString( FORMATTER_BRANCH_LENGTH.format( node.getDistanceToParent() ), node.getParent()
boolean draw_vertical = true;
final PhylogenyNode parent = node.getParent();
if ( ( ( getOptions().isShowNodeBoxes() && !to_pdf && !to_graphics_file ) || ( ( getControlPanel()
- .isEvents() )
- && ( parent != null ) && parent.isHasAssignedEvent() ) )
+ .isEvents() ) && ( parent != null ) && parent.isHasAssignedEvent() ) )
&& ( _phylogeny.isRooted() || !( ( parent != null ) && parent.isRoot() ) )
&& !( ( to_pdf || to_graphics_file ) && getOptions().isPrintBlackAndWhite() && !parent
.isDuplication() ) ) {
d = BOX_SIZE;
}
_polygon.reset();
- _polygon.addPoint( ForesterUtil.roundToInt( node.getXcoord() - TreePanel.BOX_SIZE ), ForesterUtil
- .roundToInt( node.getYcoord() ) );
- _polygon.addPoint( ForesterUtil.roundToInt( node.getXcoord() + TreePanel.BOX_SIZE ), ForesterUtil
- .roundToInt( node.getYcoord() - d ) );
- _polygon.addPoint( ForesterUtil.roundToInt( node.getXcoord() + TreePanel.BOX_SIZE ), ForesterUtil
- .roundToInt( node.getYcoord() + d ) );
+ _polygon.addPoint( ForesterUtil.roundToInt( node.getXcoord() - TreePanel.BOX_SIZE ),
+ ForesterUtil.roundToInt( node.getYcoord() ) );
+ _polygon.addPoint( ForesterUtil.roundToInt( node.getXcoord() + TreePanel.BOX_SIZE ),
+ ForesterUtil.roundToInt( node.getYcoord() - d ) );
+ _polygon.addPoint( ForesterUtil.roundToInt( node.getXcoord() + TreePanel.BOX_SIZE ),
+ ForesterUtil.roundToInt( node.getYcoord() + d ) );
g.fillPolygon( _polygon );
paintNodeData( g, node, to_graphics_file, to_pdf, is_in_found_nodes );
}
g.setColor( getTreeColorSet().getConfidenceColor() );
}
TreePanel
- .drawString( conf_str, parent_x
- + ( ( x - parent_x - getTreeFontSet()._fm_small.stringWidth( conf_str ) ) / 2 ), ( node
- .getYcoord() + getTreeFontSet()._small_max_ascent ) - 1, g );
+ .drawString( conf_str,
+ parent_x
+ + ( ( x - parent_x - getTreeFontSet()._fm_small.stringWidth( conf_str ) ) / 2 ),
+ ( node.getYcoord() + getTreeFontSet()._small_max_ascent ) - 1,
+ g );
}
}
g.setColor( Color.BLUE );
}
TreePanel
- .drawString( gained, parent_x
- + ( ( x - parent_x - getTreeFontSet()._fm_large.stringWidth( gained ) ) / 2 ), ( node
- .getYcoord() - getTreeFontSet()._fm_large.getMaxDescent() ), g );
+ .drawString( gained,
+ parent_x + ( ( x - parent_x - getTreeFontSet()._fm_large.stringWidth( gained ) ) / 2 ),
+ ( node.getYcoord() - getTreeFontSet()._fm_large.getMaxDescent() ),
+ g );
g.setColor( getTreeColorSet().getLostCharactersColor() );
TreePanel.drawString( lost,
parent_x + ( ( x - parent_x - getTreeFontSet()._fm_large.stringWidth( lost ) ) / 2 ),
x += drawTaxonomyImage( node.getXcoord() + 2 + TreePanel.HALF_BOX_SIZE, node.getYcoord(), node, g );
}
if ( ( getControlPanel().isShowTaxonomyCode() || getControlPanel().isShowTaxonomyScientificNames() || getControlPanel()
- .isShowTaxonomyCommonNames() )
- && node.getNodeData().isHasTaxonomy() ) {
+ .isShowTaxonomyCommonNames() ) && node.getNodeData().isHasTaxonomy() ) {
x += paintTaxonomy( g, node, is_in_found_nodes, to_pdf, to_graphics_file, x );
}
if ( ( to_pdf || to_graphics_file ) && getOptions().isPrintBlackAndWhite() ) {
+ ( getTreeFontSet()._fm_large.getAscent() / down_shift_factor ), g );
}
else {
- TreePanel.drawString( " " + node.getNodeData().getBinaryCharacters().getPresentCount(), node
- .getXcoord()
- + x + 4 + TreePanel.HALF_BOX_SIZE, node.getYcoord()
- + ( getTreeFontSet()._fm_large.getAscent() / down_shift_factor ), g );
+ TreePanel.drawString( " " + node.getNodeData().getBinaryCharacters().getPresentCount(),
+ node.getXcoord() + x + 4 + TreePanel.HALF_BOX_SIZE,
+ node.getYcoord()
+ + ( getTreeFontSet()._fm_large.getAscent() / down_shift_factor ),
+ g );
}
paintGainedAndLostCharacters( g, node, "+"
+ node.getNodeData().getBinaryCharacters().getGainedCount(), "-"
final int x_w = ( int ) ( x + ws + 0.5 );
final int y_h = ( int ) ( my_y + hs + 0.5 );
if ( ( x_w - x > 7 ) && ( y_h - my_y > 7 ) ) {
- g.drawImage( bi, ( int ) ( x + 0.5 + offset ), ( int ) ( my_y + 0.5 ), x_w, y_h, 0, 0, bi
- .getWidth(), bi.getHeight(), null );
+ g.drawImage( bi,
+ ( int ) ( x + 0.5 + offset ),
+ ( int ) ( my_y + 0.5 ),
+ x_w,
+ y_h,
+ 0,
+ 0,
+ bi.getWidth(),
+ bi.getHeight(),
+ null );
ws += 8;
}
else {
_popup_buffer.append( confidence.getType() );
_popup_buffer.append( "] " );
}
- _popup_buffer.append( FORMATTER_CONFIDENCE.format( ForesterUtil
- .round( confidence.getValue(), getOptions()
- .getNumberOfDigitsAfterCommaForConfidenceValues() ) ) );
+ _popup_buffer
+ .append( FORMATTER_CONFIDENCE.format( ForesterUtil.round( confidence.getValue(),
+ getOptions()
+ .getNumberOfDigitsAfterCommaForConfidenceValues() ) ) );
}
}
if ( _popup_buffer.length() > 0 ) {
git://source.jalview.org / jalview.git / blobdiff