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stmt |
bran |
cond |
sub |
pod |
time |
code |
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package Tree::Cladogram; |
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3
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876
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use File::Slurper 'read_lines'; |
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10200
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1
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47
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463
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use Moo; |
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8529
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1710
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use Tree::DAG_Node; |
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9831
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1
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535
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use Types::Standard qw/Any Int Str/; |
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46842
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has branch_color => |
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( |
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default => sub{return '#7e7e7e'}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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has branch_width => |
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( |
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default => sub{return 3}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has draw_frame => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has debug => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has final_x_step => |
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( |
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default => sub{return 30}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has frame_color => |
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( |
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default => sub{return '#0000ff'}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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has input_file => |
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default => sub{return ''}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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has leaf_font_color => |
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( |
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default => sub{return '#0000ff'}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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has leaf_font_file => |
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( |
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default => sub{return '/usr/share/fonts/truetype/freefont/FreeMono.ttf'}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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has leaf_font_size => |
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( |
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default => sub{return 16}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has left_margin => |
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( |
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default => sub{return 15}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has maximum_x => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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107
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has maximum_y => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has minimum_sister_separation => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has minimum_y => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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has output_file => |
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( |
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default => sub{return ''}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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139
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has print_tree => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
145
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); |
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147
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has root => |
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( |
149
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default => sub{return ''}, |
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is => 'rw', |
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isa => Any, |
152
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required => 0, |
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); |
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155
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has title => |
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( |
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default => sub{return ''}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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163
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has title_font_color => |
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( |
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default => sub{return '#000000'}, |
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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171
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has title_font_file => |
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( |
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default => sub{return '/usr/share/fonts/truetype/freefont/FreeMono.ttf'}, |
174
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is => 'rw', |
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isa => Str, |
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required => 0, |
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); |
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has title_font_size => |
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( |
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default => sub{return 16}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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187
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has title_width => |
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( |
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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195
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has top_margin => |
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( |
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default => sub{return 15}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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203
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has uid => |
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( |
205
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default => sub{return 0}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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211
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has x_step => |
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( |
213
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default => sub{return 50}, |
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is => 'rw', |
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isa => Int, |
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required => 0, |
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); |
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219
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has y_step => |
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( |
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default => sub{return 36}, |
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is => 'rw', |
223
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isa => Int, |
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required => 0, |
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); |
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227
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our $VERSION = '1.03'; |
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229
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# ------------------------------------------------ |
230
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231
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sub BUILD |
232
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{ |
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0
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0
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0
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my($self) = @_; |
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235
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0
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$self -> root($self -> new_node('0', {place => 'middle'}) ); |
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237
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} # End of BUILD. |
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239
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# ------------------------------------------------ |
240
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241
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sub _adjust_minimum_sister_separation |
242
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{ |
243
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0
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0
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my($self) = @_; |
244
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0
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my($minimum_y) = 0; |
245
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0
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my($minimum_sister_separation) = $self -> minimum_sister_separation; |
246
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247
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0
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my(@attributes, $actual_sister_separation); |
248
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0
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my(@bounds); |
249
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0
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my(@daughters); |
250
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0
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my(@names, $new_sister_separation); |
251
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252
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$self -> root -> walk_down |
253
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({ |
254
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callback => |
255
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sub |
256
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{ |
257
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0
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0
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my($node) = @_; |
258
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0
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@daughters = $node -> daughters; |
259
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260
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0
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0
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if ($#daughters == 2) |
261
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{ |
262
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0
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@attributes = map{$_ -> attributes} @daughters; |
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0
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263
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0
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@names = map{$_ -> name} @daughters; |
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0
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264
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265
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0
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return 1 if ($names[2] =~ /^\d+$/); |
266
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267
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0
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$actual_sister_separation = ${$attributes[2]}{y} - ${$attributes[1]}{y}; |
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0
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0
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268
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269
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0
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if ($actual_sister_separation >= $minimum_sister_separation) |
270
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{ |
271
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0
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0
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$new_sister_separation = ($actual_sister_separation == $minimum_sister_separation) ? 6 : int( ($actual_sister_separation - $minimum_sister_separation) / 2); |
272
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0
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${$attributes[1]}{y} += $new_sister_separation; |
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0
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273
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${$attributes[2]}{y} -= $new_sister_separation; |
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0
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274
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@bounds = map{$$_{bounds} } @attributes; |
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275
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${$bounds[1]}[1] += $new_sister_separation; |
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0
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276
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0
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${$bounds[1]}[3] += $new_sister_separation; |
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0
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277
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0
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${$bounds[2]}[1] -= $new_sister_separation; |
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0
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278
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0
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${$bounds[2]}[3] -= $new_sister_separation; |
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0
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279
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280
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# What's really scary is that I don't have to do this: |
281
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# ${$attributes[1]}{bounds} = $bounds[1]; |
282
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# ${$attributes[2]}{bounds} = $bounds[2]; |
283
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284
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0
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$daughters[1] -> attributes($attributes[1]); |
285
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0
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$daughters[2] -> attributes($attributes[2]); |
286
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} |
287
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} |
288
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289
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0
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|
return 1; # Keep walking. |
290
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}, |
291
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0
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|
_depth => 0, |
292
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}); |
293
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294
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} # End of _adjust_minimum_sister_separation. |
295
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296
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|
# ------------------------------------------------ |
297
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298
|
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|
|
|
sub _calculate_basic_attributes |
299
|
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|
{ |
300
|
0
|
|
|
0
|
|
|
my($self) = @_; |
301
|
0
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|
|
|
my($x_step) = $self -> x_step; |
302
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0
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|
|
my($y_step) = $self -> y_step; |
303
|
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|
304
|
0
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|
|
|
my($attributes); |
305
|
|
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|
|
|
|
my($parent_attributes); |
306
|
0
|
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|
|
|
my($scale); |
307
|
|
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|
|
|
|
|
308
|
|
|
|
|
|
|
$self -> root -> walk_down |
309
|
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|
|
({ |
310
|
|
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|
|
|
callback => |
311
|
|
|
|
|
|
|
sub |
312
|
|
|
|
|
|
|
{ |
313
|
0
|
|
|
0
|
|
|
my($node, $options) = @_; |
314
|
0
|
|
|
|
|
|
$attributes = $node -> attributes; |
315
|
|
|
|
|
|
|
|
316
|
|
|
|
|
|
|
# Set defaults if steps are not provided. |
317
|
|
|
|
|
|
|
|
318
|
0
|
|
0
|
|
|
|
$$attributes{x_step} ||= $x_step; |
319
|
0
|
|
0
|
|
|
|
$$attributes{y_step} ||= $y_step; |
320
|
|
|
|
|
|
|
|
321
|
|
|
|
|
|
|
# Set co-ords. |
322
|
|
|
|
|
|
|
|
323
|
0
|
0
|
|
|
|
|
if ($node -> is_root) |
324
|
|
|
|
|
|
|
{ |
325
|
0
|
|
|
|
|
|
$$attributes{x} = 0; |
326
|
0
|
|
|
|
|
|
$$attributes{y} = 0; |
327
|
|
|
|
|
|
|
} |
328
|
|
|
|
|
|
|
else |
329
|
|
|
|
|
|
|
{ |
330
|
|
|
|
|
|
|
# $scale is a multiplier for the sister step. |
331
|
|
|
|
|
|
|
|
332
|
|
|
|
|
|
|
$scale = $$attributes{place} eq 'above' |
333
|
|
|
|
|
|
|
? -1 |
334
|
0
|
0
|
|
|
|
|
: $$attributes{place} eq 'middle' |
|
|
0
|
|
|
|
|
|
335
|
|
|
|
|
|
|
? 0 |
336
|
|
|
|
|
|
|
: 1; |
337
|
0
|
|
|
|
|
|
$parent_attributes = $node -> mother -> attributes; |
338
|
0
|
|
|
|
|
|
$$attributes{x} = $$parent_attributes{x} + $$attributes{x_step}; |
339
|
0
|
|
|
|
|
|
$$attributes{y} = $$parent_attributes{y} + $scale * $$attributes{y_step}; |
340
|
|
|
|
|
|
|
} |
341
|
|
|
|
|
|
|
|
342
|
0
|
|
|
|
|
|
$node -> attributes($attributes); |
343
|
|
|
|
|
|
|
|
344
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
345
|
|
|
|
|
|
|
}, |
346
|
0
|
|
|
|
|
|
_depth => 0, |
347
|
|
|
|
|
|
|
}); |
348
|
|
|
|
|
|
|
|
349
|
|
|
|
|
|
|
} # End of _calculate_basic_attributes. |
350
|
|
|
|
|
|
|
|
351
|
|
|
|
|
|
|
# ------------------------------------------------ |
352
|
|
|
|
|
|
|
|
353
|
|
|
|
|
|
|
sub _calculate_minimum_sister_separation |
354
|
|
|
|
|
|
|
{ |
355
|
0
|
|
|
0
|
|
|
my($self) = @_; |
356
|
0
|
|
|
|
|
|
my($minimum_y) = 0; |
357
|
0
|
|
|
|
|
|
my($minimum_sister_separation) = $self -> maximum_y; |
358
|
|
|
|
|
|
|
|
359
|
0
|
|
|
|
|
|
$self -> minimum_sister_separation($minimum_sister_separation); |
360
|
|
|
|
|
|
|
|
361
|
0
|
|
|
|
|
|
my(@attributes); |
362
|
|
|
|
|
|
|
my(@daughters); |
363
|
0
|
|
|
|
|
|
my(@names); |
364
|
0
|
|
|
|
|
|
my($sister_separation); |
365
|
|
|
|
|
|
|
|
366
|
|
|
|
|
|
|
$self -> root -> walk_down |
367
|
|
|
|
|
|
|
({ |
368
|
|
|
|
|
|
|
callback => |
369
|
|
|
|
|
|
|
sub |
370
|
|
|
|
|
|
|
{ |
371
|
0
|
|
|
0
|
|
|
my($node) = @_; |
372
|
0
|
|
|
|
|
|
@daughters = $node -> daughters; |
373
|
|
|
|
|
|
|
|
374
|
0
|
0
|
|
|
|
|
if ($#daughters == 2) |
375
|
|
|
|
|
|
|
{ |
376
|
0
|
|
|
|
|
|
@attributes = map{$_ -> attributes} @daughters; |
|
0
|
|
|
|
|
|
|
377
|
0
|
|
|
|
|
|
@names = map{$_ -> name} @daughters; |
|
0
|
|
|
|
|
|
|
378
|
|
|
|
|
|
|
|
379
|
0
|
0
|
|
|
|
|
return 1 if ($names[2] =~ /^\d+$/); |
380
|
|
|
|
|
|
|
|
381
|
0
|
|
|
|
|
|
$sister_separation = ${$attributes[2]}{y} - ${$attributes[1]}{y}; |
|
0
|
|
|
|
|
|
|
|
0
|
|
|
|
|
|
|
382
|
|
|
|
|
|
|
|
383
|
0
|
0
|
|
|
|
|
if ($sister_separation < $minimum_sister_separation) |
384
|
|
|
|
|
|
|
{ |
385
|
0
|
|
|
|
|
|
$minimum_sister_separation = $sister_separation; |
386
|
|
|
|
|
|
|
} |
387
|
|
|
|
|
|
|
} |
388
|
|
|
|
|
|
|
|
389
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
390
|
|
|
|
|
|
|
}, |
391
|
0
|
|
|
|
|
|
_depth => 0, |
392
|
|
|
|
|
|
|
}); |
393
|
|
|
|
|
|
|
|
394
|
0
|
|
|
|
|
|
$self -> minimum_sister_separation($minimum_sister_separation); |
395
|
0
|
|
|
|
|
|
$self -> _adjust_minimum_sister_separation; |
396
|
|
|
|
|
|
|
|
397
|
|
|
|
|
|
|
} # End of _calculate_minimum_sister_separation. |
398
|
|
|
|
|
|
|
|
399
|
|
|
|
|
|
|
# ------------------------------------------------ |
400
|
|
|
|
|
|
|
|
401
|
|
|
|
|
|
|
sub _check_point_within_rectangle |
402
|
|
|
|
|
|
|
{ |
403
|
0
|
|
|
0
|
|
|
my($self, $bounds_1, $x, $y) = @_; |
404
|
0
|
|
|
|
|
|
my($result) = 0; |
405
|
0
|
|
|
|
|
|
my($x_min) = $$bounds_1[0]; |
406
|
0
|
|
|
|
|
|
my($y_min) = $$bounds_1[1]; |
407
|
0
|
|
|
|
|
|
my($x_max) = $$bounds_1[2]; |
408
|
0
|
|
|
|
|
|
my($y_max) = $$bounds_1[3]; |
409
|
|
|
|
|
|
|
|
410
|
0
|
0
|
0
|
|
|
|
if ( ($x >= $x_min) && ($x <= $x_max) |
|
|
|
0
|
|
|
|
|
|
|
|
0
|
|
|
|
|
411
|
|
|
|
|
|
|
&& ($y >= $y_min) && ($y <= $y_max) ) |
412
|
|
|
|
|
|
|
{ |
413
|
0
|
|
|
|
|
|
$result = 1; |
414
|
|
|
|
|
|
|
} |
415
|
|
|
|
|
|
|
|
416
|
0
|
|
|
|
|
|
return $result; |
417
|
|
|
|
|
|
|
|
418
|
|
|
|
|
|
|
} # End of _check_point_within_rectangle. |
419
|
|
|
|
|
|
|
|
420
|
|
|
|
|
|
|
# ------------------------------------------------ |
421
|
|
|
|
|
|
|
|
422
|
|
|
|
|
|
|
sub _check_rectangle_within_rectangle |
423
|
|
|
|
|
|
|
{ |
424
|
0
|
|
|
0
|
|
|
my($self, $bounds_1, $bounds_2) = @_; |
425
|
0
|
|
|
|
|
|
my($result) = 0; |
426
|
0
|
|
|
|
|
|
my($x_min_2) = $$bounds_2[0]; |
427
|
0
|
|
|
|
|
|
my($y_min_2) = $$bounds_2[1]; |
428
|
0
|
|
|
|
|
|
my($x_max_2) = $$bounds_2[2]; |
429
|
0
|
|
|
|
|
|
my($y_max_2) = $$bounds_2[3]; |
430
|
|
|
|
|
|
|
|
431
|
0
|
0
|
0
|
|
|
|
if ($self -> _check_point_within_rectangle($bounds_1, $x_min_2, $y_min_2) |
|
|
|
0
|
|
|
|
|
|
|
|
0
|
|
|
|
|
432
|
|
|
|
|
|
|
|| $self -> _check_point_within_rectangle($bounds_1, $x_max_2, $y_min_2) |
433
|
|
|
|
|
|
|
|| $self -> _check_point_within_rectangle($bounds_1, $x_min_2, $y_max_2) |
434
|
|
|
|
|
|
|
|| $self -> _check_point_within_rectangle($bounds_1, $x_max_2, $y_max_2) ) |
435
|
|
|
|
|
|
|
{ |
436
|
0
|
|
|
|
|
|
$result = 1; |
437
|
|
|
|
|
|
|
} |
438
|
|
|
|
|
|
|
|
439
|
0
|
|
|
|
|
|
return $result; |
440
|
|
|
|
|
|
|
|
441
|
|
|
|
|
|
|
} # End of _check_rectangle_within_rectangle. |
442
|
|
|
|
|
|
|
|
443
|
|
|
|
|
|
|
# ------------------------------------------------ |
444
|
|
|
|
|
|
|
|
445
|
|
|
|
|
|
|
sub _check_node_bounds |
446
|
|
|
|
|
|
|
{ |
447
|
0
|
|
|
0
|
|
|
my($self, $node_1) = @_; |
448
|
0
|
|
|
|
|
|
my($leaf_font_size) = $self -> leaf_font_size; |
449
|
0
|
|
|
|
|
|
my($attributes_1) = $node_1 -> attributes; |
450
|
0
|
|
|
|
|
|
my($bounds_1) = $$attributes_1{bounds}; |
451
|
0
|
|
|
|
|
|
my($uid_1) = $$attributes_1{uid}; |
452
|
|
|
|
|
|
|
|
453
|
0
|
|
|
|
|
|
my($attributes_2); |
454
|
|
|
|
|
|
|
my($bounds_2); |
455
|
0
|
|
|
|
|
|
my($candidate_step); |
456
|
0
|
|
|
|
|
|
my($parent_attributes); |
457
|
0
|
|
|
|
|
|
my($uid_2); |
458
|
|
|
|
|
|
|
|
459
|
|
|
|
|
|
|
$self -> root -> walk_down |
460
|
|
|
|
|
|
|
({ |
461
|
|
|
|
|
|
|
callback => |
462
|
|
|
|
|
|
|
sub |
463
|
|
|
|
|
|
|
{ |
464
|
0
|
|
|
0
|
|
|
my($node_2) = @_; |
465
|
0
|
|
|
|
|
|
$attributes_2 = $node_2 -> attributes; |
466
|
0
|
|
|
|
|
|
$bounds_2 = $$attributes_2{bounds}; |
467
|
0
|
|
|
|
|
|
$uid_2 = $$attributes_2{uid}; |
468
|
|
|
|
|
|
|
|
469
|
0
|
0
|
|
|
|
|
if ($uid_1 < $uid_2) |
470
|
|
|
|
|
|
|
{ |
471
|
0
|
0
|
|
|
|
|
if ($self -> _check_rectangle_within_rectangle($bounds_1, $bounds_2) ) |
472
|
|
|
|
|
|
|
{ |
473
|
|
|
|
|
|
|
# Move the node down to avoid the overlap. |
474
|
|
|
|
|
|
|
# This assumes it's an 'above' node. |
475
|
|
|
|
|
|
|
# The formula for $candidate_step is my own invention, |
476
|
|
|
|
|
|
|
# selected after many experiments. |
477
|
|
|
|
|
|
|
|
478
|
0
|
|
|
|
|
|
$candidate_step = int($leaf_font_size / 2) + 8; |
479
|
0
|
|
|
|
|
|
$$bounds_2[1] += $candidate_step; |
480
|
0
|
|
|
|
|
|
$$bounds_2[3] += $candidate_step; |
481
|
0
|
|
|
|
|
|
$$attributes_2{bounds} = $bounds_2; |
482
|
0
|
|
|
|
|
|
$$attributes_2{y} += $candidate_step; |
483
|
|
|
|
|
|
|
|
484
|
0
|
|
|
|
|
|
$node_2 -> attributes($attributes_2); |
485
|
|
|
|
|
|
|
} |
486
|
|
|
|
|
|
|
} |
487
|
|
|
|
|
|
|
|
488
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
489
|
|
|
|
|
|
|
}, |
490
|
0
|
|
|
|
|
|
_depth => 0, |
491
|
|
|
|
|
|
|
}); |
492
|
|
|
|
|
|
|
|
493
|
|
|
|
|
|
|
} # End of _check_node_bounds. |
494
|
|
|
|
|
|
|
|
495
|
|
|
|
|
|
|
# ------------------------------------------------ |
496
|
|
|
|
|
|
|
|
497
|
|
|
|
|
|
|
sub _check_for_overlap |
498
|
|
|
|
|
|
|
{ |
499
|
0
|
|
|
0
|
|
|
my($self) = @_; |
500
|
|
|
|
|
|
|
|
501
|
|
|
|
|
|
|
$self -> root -> walk_down |
502
|
|
|
|
|
|
|
({ |
503
|
|
|
|
|
|
|
callback => |
504
|
|
|
|
|
|
|
sub |
505
|
|
|
|
|
|
|
{ |
506
|
0
|
|
|
0
|
|
|
my($node) = @_; |
507
|
|
|
|
|
|
|
|
508
|
0
|
|
|
|
|
|
$self -> _check_node_bounds($node); |
509
|
|
|
|
|
|
|
|
510
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
511
|
|
|
|
|
|
|
}, |
512
|
0
|
|
|
|
|
|
_depth => 0, |
513
|
|
|
|
|
|
|
}); |
514
|
|
|
|
|
|
|
|
515
|
|
|
|
|
|
|
} # End of _check_for_overlap. |
516
|
|
|
|
|
|
|
|
517
|
|
|
|
|
|
|
# ------------------------------------------------ |
518
|
|
|
|
|
|
|
|
519
|
|
|
|
|
|
|
sub draw_image |
520
|
|
|
|
|
|
|
{ |
521
|
0
|
|
|
0
|
0
|
|
my($self) = @_; |
522
|
0
|
|
|
|
|
|
my($final_x_step) = $self -> final_x_step; |
523
|
0
|
|
|
|
|
|
my($maximum_x) = $self -> maximum_x + $self -> left_margin; |
524
|
0
|
|
|
|
|
|
my($maximum_y) = $self -> maximum_y + $self -> top_margin; |
525
|
0
|
|
|
|
|
|
my($image) = $self -> create_image($maximum_x, $maximum_y); |
526
|
0
|
|
|
|
|
|
my($x_step) = $self -> x_step; |
527
|
|
|
|
|
|
|
|
528
|
0
|
0
|
|
|
|
|
if ($self -> title_width > $maximum_x) |
529
|
|
|
|
|
|
|
{ |
530
|
0
|
|
|
|
|
|
$maximum_x = $self -> title_width + $self -> left_margin; |
531
|
0
|
|
|
|
|
|
$image = $self -> create_image($maximum_x, $maximum_y); |
532
|
|
|
|
|
|
|
|
533
|
0
|
|
|
|
|
|
$self -> maximum_x($maximum_x); |
534
|
|
|
|
|
|
|
} |
535
|
|
|
|
|
|
|
|
536
|
0
|
|
|
|
|
|
my($attributes); |
537
|
0
|
|
|
|
|
|
my(@daughters, @daughter_attributes, $daughter_attributes); |
538
|
0
|
|
|
|
|
|
my(@final_daughters, $final_offset); |
539
|
0
|
|
|
|
|
|
my($index); |
540
|
0
|
|
|
|
|
|
my($middle_attributes); |
541
|
0
|
|
|
|
|
|
my($name); |
542
|
0
|
|
|
|
|
|
my($place, %place); |
543
|
|
|
|
|
|
|
|
544
|
|
|
|
|
|
|
$self -> root -> walk_down |
545
|
|
|
|
|
|
|
({ |
546
|
|
|
|
|
|
|
callback => |
547
|
|
|
|
|
|
|
sub |
548
|
|
|
|
|
|
|
{ |
549
|
0
|
|
|
0
|
|
|
my($node) = @_; |
550
|
0
|
|
|
|
|
|
$attributes = $node -> attributes; |
551
|
0
|
|
|
|
|
|
@daughters = $node -> daughters; |
552
|
0
|
|
|
|
|
|
%place = (); |
553
|
|
|
|
|
|
|
|
554
|
0
|
|
|
|
|
|
for (0 .. $#daughters) |
555
|
|
|
|
|
|
|
{ |
556
|
0
|
|
|
|
|
|
$daughter_attributes[$_] = $daughters[$_] -> attributes; |
557
|
0
|
|
|
|
|
|
$place = $daughter_attributes[$_]{place}; |
558
|
0
|
|
|
|
|
|
$place{$place} = $_; |
559
|
0
|
0
|
|
|
|
|
$middle_attributes = $daughter_attributes[$_] if ($place eq 'middle'); |
560
|
|
|
|
|
|
|
} |
561
|
|
|
|
|
|
|
|
562
|
|
|
|
|
|
|
# Connect above and below daughters to middle daughter. |
563
|
|
|
|
|
|
|
|
564
|
0
|
|
|
|
|
|
for $place (keys %place) |
565
|
|
|
|
|
|
|
{ |
566
|
0
|
|
|
|
|
|
$index = $place{$place}; |
567
|
0
|
|
|
|
|
|
$name = $daughters[$index] -> name; |
568
|
0
|
|
|
|
|
|
$daughter_attributes = $daughter_attributes[$index]; |
569
|
|
|
|
|
|
|
|
570
|
0
|
|
|
|
|
|
$self -> draw_vertical_branch($image, $middle_attributes, $daughter_attributes); |
571
|
|
|
|
|
|
|
|
572
|
0
|
0
|
0
|
|
|
|
if ( ($node -> name ne $name) && ($name ne 'root') ) |
573
|
|
|
|
|
|
|
{ |
574
|
|
|
|
|
|
|
# Stretch the horizontal lines, but only for leaves. |
575
|
|
|
|
|
|
|
|
576
|
0
|
|
|
|
|
|
@final_daughters = $daughters[$index] -> daughters; |
577
|
0
|
0
|
|
|
|
|
$final_offset = $#final_daughters < 0 ? $final_x_step : 0; |
578
|
|
|
|
|
|
|
|
579
|
0
|
|
|
|
|
|
$self -> draw_horizontal_branch($image, $middle_attributes, $daughter_attributes, $final_offset); |
580
|
0
|
|
|
|
|
|
$self -> draw_leaf_name($image, $name, $daughter_attributes, $final_offset); |
581
|
|
|
|
|
|
|
|
582
|
|
|
|
|
|
|
} |
583
|
|
|
|
|
|
|
} |
584
|
|
|
|
|
|
|
|
585
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
586
|
|
|
|
|
|
|
}, |
587
|
0
|
|
|
|
|
|
_depth => 0, |
588
|
|
|
|
|
|
|
}); |
589
|
|
|
|
|
|
|
|
590
|
|
|
|
|
|
|
# Draw a line off to the left of the middle daughter of the root. |
591
|
|
|
|
|
|
|
|
592
|
0
|
|
|
|
|
|
$self -> draw_root_branch($image); |
593
|
0
|
|
|
|
|
|
$self -> draw_title($image, $maximum_x, $maximum_y); |
594
|
|
|
|
|
|
|
|
595
|
0
|
|
|
|
|
|
my($output_file) = $self -> output_file; |
596
|
|
|
|
|
|
|
|
597
|
0
|
0
|
|
|
|
|
$self -> write($image, $output_file) if (length($output_file) ); |
598
|
|
|
|
|
|
|
|
599
|
|
|
|
|
|
|
} # End of draw_image. |
600
|
|
|
|
|
|
|
|
601
|
|
|
|
|
|
|
# ------------------------------------------------ |
602
|
|
|
|
|
|
|
|
603
|
|
|
|
|
|
|
sub find_maximum_x |
604
|
|
|
|
|
|
|
{ |
605
|
0
|
|
|
0
|
0
|
|
my($self) = @_; |
606
|
0
|
|
|
|
|
|
my($maximum_x) = 0; |
607
|
|
|
|
|
|
|
|
608
|
0
|
|
|
|
|
|
my($attributes); |
609
|
|
|
|
|
|
|
my($bounds); |
610
|
|
|
|
|
|
|
|
611
|
|
|
|
|
|
|
$self -> root -> walk_down |
612
|
|
|
|
|
|
|
({ |
613
|
|
|
|
|
|
|
callback => |
614
|
|
|
|
|
|
|
sub |
615
|
|
|
|
|
|
|
{ |
616
|
0
|
|
|
0
|
|
|
my($node) = @_; |
617
|
0
|
|
|
|
|
|
$attributes = $node -> attributes; |
618
|
0
|
|
|
|
|
|
$bounds = $$attributes{bounds}; |
619
|
0
|
0
|
|
|
|
|
$maximum_x = $$bounds[2] if ($$bounds[2] > $maximum_x); |
620
|
|
|
|
|
|
|
|
621
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
622
|
|
|
|
|
|
|
}, |
623
|
0
|
|
|
|
|
|
_depth => 0, |
624
|
|
|
|
|
|
|
}); |
625
|
|
|
|
|
|
|
|
626
|
0
|
|
|
|
|
|
$maximum_x += $self -> final_x_step; |
627
|
0
|
0
|
|
|
|
|
$maximum_x = $self -> title_width if ($self -> title_width > $maximum_x); |
628
|
|
|
|
|
|
|
|
629
|
0
|
|
|
|
|
|
$self -> maximum_x($maximum_x); |
630
|
|
|
|
|
|
|
|
631
|
|
|
|
|
|
|
} # End of find_maximum_x. |
632
|
|
|
|
|
|
|
|
633
|
|
|
|
|
|
|
# ------------------------------------------------ |
634
|
|
|
|
|
|
|
|
635
|
|
|
|
|
|
|
sub find_maximum_y |
636
|
|
|
|
|
|
|
{ |
637
|
0
|
|
|
0
|
0
|
|
my($self) = @_; |
638
|
0
|
|
|
|
|
|
my($maximum_y) = 0; |
639
|
|
|
|
|
|
|
|
640
|
0
|
|
|
|
|
|
my($attributes); |
641
|
|
|
|
|
|
|
my($bounds); |
642
|
|
|
|
|
|
|
|
643
|
|
|
|
|
|
|
$self -> root -> walk_down |
644
|
|
|
|
|
|
|
({ |
645
|
|
|
|
|
|
|
callback => |
646
|
|
|
|
|
|
|
sub |
647
|
|
|
|
|
|
|
{ |
648
|
0
|
|
|
0
|
|
|
my($node) = @_; |
649
|
0
|
|
|
|
|
|
$attributes = $node -> attributes; |
650
|
0
|
|
|
|
|
|
$bounds = $$attributes{bounds}; |
651
|
0
|
0
|
|
|
|
|
$maximum_y = $$bounds[3] if ($$bounds[3] > $maximum_y); |
652
|
|
|
|
|
|
|
|
653
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
654
|
|
|
|
|
|
|
}, |
655
|
0
|
|
|
|
|
|
_depth => 0, |
656
|
|
|
|
|
|
|
}); |
657
|
|
|
|
|
|
|
|
658
|
0
|
|
|
|
|
|
$self -> maximum_y($maximum_y + 2 * $self -> title_font_size); |
659
|
|
|
|
|
|
|
|
660
|
|
|
|
|
|
|
} # End of find_maximum_y. |
661
|
|
|
|
|
|
|
|
662
|
|
|
|
|
|
|
# ------------------------------------------------ |
663
|
|
|
|
|
|
|
|
664
|
|
|
|
|
|
|
sub find_minimum_y |
665
|
|
|
|
|
|
|
{ |
666
|
0
|
|
|
0
|
0
|
|
my($self) = @_; |
667
|
0
|
|
|
|
|
|
my($minimum_y) = 0; |
668
|
|
|
|
|
|
|
|
669
|
0
|
|
|
|
|
|
my($attributes); |
670
|
|
|
|
|
|
|
|
671
|
|
|
|
|
|
|
$self -> root -> walk_down |
672
|
|
|
|
|
|
|
({ |
673
|
|
|
|
|
|
|
callback => |
674
|
|
|
|
|
|
|
sub |
675
|
|
|
|
|
|
|
{ |
676
|
0
|
|
|
0
|
|
|
my($node) = @_; |
677
|
0
|
|
|
|
|
|
$attributes = $node -> attributes; |
678
|
0
|
0
|
|
|
|
|
$minimum_y = $$attributes{y} if ($$attributes{y} < $minimum_y); |
679
|
|
|
|
|
|
|
|
680
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
681
|
|
|
|
|
|
|
}, |
682
|
0
|
|
|
|
|
|
_depth => 0, |
683
|
|
|
|
|
|
|
}); |
684
|
|
|
|
|
|
|
|
685
|
0
|
|
|
|
|
|
$self -> minimum_y($minimum_y); |
686
|
|
|
|
|
|
|
|
687
|
|
|
|
|
|
|
} # End of find_minimum_y. |
688
|
|
|
|
|
|
|
|
689
|
|
|
|
|
|
|
# ------------------------------------------------ |
690
|
|
|
|
|
|
|
|
691
|
|
|
|
|
|
|
sub log |
692
|
|
|
|
|
|
|
{ |
693
|
0
|
|
|
0
|
0
|
|
my($self, $message) = @_; |
694
|
|
|
|
|
|
|
|
695
|
0
|
|
|
|
|
|
print "$message\n"; |
696
|
|
|
|
|
|
|
|
697
|
|
|
|
|
|
|
} # End of log. |
698
|
|
|
|
|
|
|
|
699
|
|
|
|
|
|
|
# ------------------------------------------------ |
700
|
|
|
|
|
|
|
|
701
|
|
|
|
|
|
|
sub move_away_from_frame |
702
|
|
|
|
|
|
|
{ |
703
|
0
|
|
|
0
|
0
|
|
my($self) = @_; |
704
|
0
|
|
|
|
|
|
my($minimum_y) = $self -> minimum_y; |
705
|
0
|
|
|
|
|
|
my($top_margin) = $self -> top_margin; |
706
|
0
|
|
|
|
|
|
my($x_offset) = $self -> left_margin; |
707
|
0
|
0
|
|
|
|
|
my($y_offset) = $minimum_y <= 0 |
|
|
0
|
|
|
|
|
|
708
|
|
|
|
|
|
|
? $top_margin - $minimum_y |
709
|
|
|
|
|
|
|
: $minimum_y < $top_margin |
710
|
|
|
|
|
|
|
? $top_margin - $minimum_y |
711
|
|
|
|
|
|
|
: - $minimum_y + $top_margin; |
712
|
|
|
|
|
|
|
|
713
|
0
|
|
|
|
|
|
my($attributes); |
714
|
|
|
|
|
|
|
|
715
|
|
|
|
|
|
|
$self -> root -> walk_down |
716
|
|
|
|
|
|
|
({ |
717
|
|
|
|
|
|
|
callback => |
718
|
|
|
|
|
|
|
sub |
719
|
|
|
|
|
|
|
{ |
720
|
0
|
|
|
0
|
|
|
my($node) = @_; |
721
|
0
|
|
|
|
|
|
$attributes = $node -> attributes; |
722
|
0
|
|
|
|
|
|
$$attributes{x} += $x_offset; |
723
|
0
|
|
|
|
|
|
$$attributes{y} += $y_offset; |
724
|
|
|
|
|
|
|
|
725
|
0
|
|
|
|
|
|
return 1; # Keep walking. |
726
|
|
|
|
|
|
|
}, |
727
|
0
|
|
|
|
|
|
_depth => 0, |
728
|
|
|
|
|
|
|
}); |
729
|
|
|
|
|
|
|
|
730
|
0
|
|
|
|
|
|
$self -> minimum_y($minimum_y); |
731
|
|
|
|
|
|
|
|
732
|
|
|
|
|
|
|
} # End of move_away_from_frame. |
733
|
|
|
|
|
|
|
|
734
|
|
|
|
|
|
|
# ------------------------------------------------ |
735
|
|
|
|
|
|
|
|
736
|
|
|
|
|
|
|
sub new_node |
737
|
|
|
|
|
|
|
{ |
738
|
0
|
|
|
0
|
0
|
|
my($self, $name, $attributes) = @_; |
739
|
0
|
|
|
|
|
|
$$attributes{bounds} = []; |
740
|
0
|
|
|
|
|
|
$$attributes{uid} = $self -> uid($self -> uid + 1); |
741
|
|
|
|
|
|
|
|
742
|
0
|
|
|
|
|
|
return Tree::DAG_Node -> new({name => $name, attributes => $attributes}); |
743
|
|
|
|
|
|
|
|
744
|
|
|
|
|
|
|
} # End of new_node. |
745
|
|
|
|
|
|
|
|
746
|
|
|
|
|
|
|
# ------------------------------------------------ |
747
|
|
|
|
|
|
|
|
748
|
|
|
|
|
|
|
sub read |
749
|
|
|
|
|
|
|
{ |
750
|
0
|
|
|
0
|
0
|
|
my($self) = @_; |
751
|
0
|
|
|
|
|
|
my($count) = 0; |
752
|
0
|
|
|
|
|
|
my($parent) = $self -> root; |
753
|
|
|
|
|
|
|
|
754
|
0
|
|
|
|
|
|
my(%cache); |
755
|
|
|
|
|
|
|
my(@field); |
756
|
0
|
|
|
|
|
|
my($node); |
757
|
0
|
|
|
|
|
|
my(%seen); |
758
|
|
|
|
|
|
|
|
759
|
0
|
|
|
|
|
|
for my $line (read_lines($self -> input_file) ) |
760
|
|
|
|
|
|
|
{ |
761
|
0
|
|
|
|
|
|
$line =~ s/^\s+//; |
762
|
0
|
|
|
|
|
|
$line =~ s/\s+$//; |
763
|
|
|
|
|
|
|
|
764
|
0
|
0
|
0
|
|
|
|
next if ( (length($line) == 0) || ($line =~ /^\s*#/) ); |
765
|
|
|
|
|
|
|
|
766
|
0
|
|
|
|
|
|
$count++; |
767
|
|
|
|
|
|
|
|
768
|
|
|
|
|
|
|
# Format expected (see data/wikipedia.01.clad): |
769
|
|
|
|
|
|
|
# |
770
|
|
|
|
|
|
|
# Parent Place Node |
771
|
|
|
|
|
|
|
# Root above Beetles |
772
|
|
|
|
|
|
|
# Root below 1 |
773
|
|
|
|
|
|
|
# 1 above Wasps, bees, ants |
774
|
|
|
|
|
|
|
# 1 below 2 |
775
|
|
|
|
|
|
|
# 2 above Butterflies, moths |
776
|
|
|
|
|
|
|
# 2 below Flies |
777
|
|
|
|
|
|
|
|
778
|
0
|
|
|
|
|
|
@field = split(/\s+/, $line, 3); |
779
|
0
|
|
|
|
|
|
$field[$_] = lc $field[$_] for (0 .. 1); |
780
|
|
|
|
|
|
|
|
781
|
0
|
0
|
|
|
|
|
if ($count == 1) |
782
|
|
|
|
|
|
|
{ |
783
|
0
|
|
|
|
|
|
$field[2] = lc $field[2]; |
784
|
|
|
|
|
|
|
|
785
|
0
|
0
|
0
|
|
|
|
if ( ($field[0] ne 'parent') || ($field[1] ne 'place') || ($field[2] ne 'node') ) |
|
|
|
0
|
|
|
|
|
786
|
|
|
|
|
|
|
{ |
787
|
0
|
|
|
|
|
|
die "Error. Input file line $count is in the wrong format. It must be 'Parent Place Node'\n"; |
788
|
|
|
|
|
|
|
} |
789
|
|
|
|
|
|
|
|
790
|
0
|
|
|
|
|
|
next; |
791
|
|
|
|
|
|
|
} |
792
|
|
|
|
|
|
|
|
793
|
0
|
0
|
|
|
|
|
if ($#field <= 1) |
794
|
|
|
|
|
|
|
{ |
795
|
0
|
|
|
|
|
|
die "Error. Input file line $count does not have enough columns\n"; |
796
|
|
|
|
|
|
|
} |
797
|
|
|
|
|
|
|
|
798
|
|
|
|
|
|
|
# Count the # of times each node appears. This serves several purposes. |
799
|
|
|
|
|
|
|
|
800
|
0
|
0
|
|
|
|
|
$seen{$field[0]} = 0 if (! defined $seen{$field[0]}); |
801
|
0
|
|
|
|
|
|
$seen{$field[0]}++; |
802
|
|
|
|
|
|
|
|
803
|
0
|
0
|
|
|
|
|
if ($seen{$field[0]} > 2) |
|
|
0
|
|
|
|
|
|
804
|
|
|
|
|
|
|
{ |
805
|
0
|
|
|
|
|
|
die "Error. Input file line $count has $seen{$field[0]} copies of $field[0], but the maximum must be 2\n"; |
806
|
|
|
|
|
|
|
} |
807
|
|
|
|
|
|
|
elsif ($field[1] !~ /above|below/) |
808
|
|
|
|
|
|
|
{ |
809
|
0
|
|
|
|
|
|
die "Error. Input file line $count has a unknown place: '$field[1]'. It must be 'above' or 'below'\n"; |
810
|
|
|
|
|
|
|
} |
811
|
|
|
|
|
|
|
|
812
|
|
|
|
|
|
|
# The first time each node appears, give its parent a middle daughter. |
813
|
|
|
|
|
|
|
# Note: The node called 'root' is not cached. |
814
|
|
|
|
|
|
|
|
815
|
0
|
0
|
|
|
|
|
if ($seen{$field[0]} == 1) |
816
|
|
|
|
|
|
|
{ |
817
|
0
|
|
|
|
|
|
$node = $self -> new_node($field[0], {place => 'middle'}); |
818
|
|
|
|
|
|
|
|
819
|
0
|
0
|
|
|
|
|
if ($cache{$field[0]}) |
820
|
|
|
|
|
|
|
{ |
821
|
0
|
|
|
|
|
|
$parent = $cache{$field[0]}; |
822
|
|
|
|
|
|
|
|
823
|
0
|
|
|
|
|
|
$parent -> add_daughter($node); |
824
|
|
|
|
|
|
|
} |
825
|
|
|
|
|
|
|
else |
826
|
|
|
|
|
|
|
{ |
827
|
0
|
|
|
|
|
|
$parent -> add_daughter($node); |
828
|
|
|
|
|
|
|
} |
829
|
|
|
|
|
|
|
} |
830
|
|
|
|
|
|
|
|
831
|
|
|
|
|
|
|
# Now give the middle daughter its above and below sisters, one each time thru the loop. |
832
|
|
|
|
|
|
|
|
833
|
0
|
|
|
|
|
|
$cache{$field[2]} = $self -> new_node($field[2], {place => $field[1]}); |
834
|
|
|
|
|
|
|
|
835
|
0
|
|
|
|
|
|
$parent -> add_daughter($cache{$field[2]}); |
836
|
|
|
|
|
|
|
} |
837
|
|
|
|
|
|
|
|
838
|
|
|
|
|
|
|
} # End of read. |
839
|
|
|
|
|
|
|
|
840
|
|
|
|
|
|
|
# ------------------------------------------------ |
841
|
|
|
|
|
|
|
|
842
|
|
|
|
|
|
|
sub run |
843
|
|
|
|
|
|
|
{ |
844
|
0
|
|
|
0
|
1
|
|
my($self) = @_; |
845
|
|
|
|
|
|
|
|
846
|
0
|
|
|
|
|
|
$self -> read; |
847
|
0
|
|
|
|
|
|
$self -> _calculate_basic_attributes; |
848
|
0
|
|
|
|
|
|
$self -> find_minimum_y; |
849
|
0
|
0
|
|
|
|
|
$self -> move_away_from_frame if ($self -> minimum_y <= $self -> top_margin); |
850
|
0
|
|
|
|
|
|
$self -> _calculate_leaf_name_bounds; |
851
|
0
|
|
|
|
|
|
$self -> _check_for_overlap; |
852
|
0
|
|
|
|
|
|
$self -> find_maximum_x; |
853
|
0
|
|
|
|
|
|
$self -> find_maximum_y; |
854
|
0
|
|
|
|
|
|
$self -> _calculate_minimum_sister_separation; |
855
|
0
|
|
|
|
|
|
$self -> draw_image; |
856
|
|
|
|
|
|
|
|
857
|
0
|
0
|
|
|
|
|
$self -> log(join('', map("$_\n", @{$self -> root -> tree2string}) ) ) if ($self -> print_tree); |
|
0
|
|
|
|
|
|
|
858
|
|
|
|
|
|
|
|
859
|
|
|
|
|
|
|
# Return 0 for success and 1 for failure. |
860
|
|
|
|
|
|
|
|
861
|
0
|
|
|
|
|
|
return 0; |
862
|
|
|
|
|
|
|
|
863
|
|
|
|
|
|
|
} # End of run. |
864
|
|
|
|
|
|
|
|
865
|
|
|
|
|
|
|
# ------------------------------------------------ |
866
|
|
|
|
|
|
|
|
867
|
|
|
|
|
|
|
1; |
868
|
|
|
|
|
|
|
|
869
|
|
|
|
|
|
|
=pod |
870
|
|
|
|
|
|
|
|
871
|
|
|
|
|
|
|
=head1 NAME |
872
|
|
|
|
|
|
|
|
873
|
|
|
|
|
|
|
C - Render a cladogram using Imager or Image::Magick |
874
|
|
|
|
|
|
|
|
875
|
|
|
|
|
|
|
=head1 Synopsis |
876
|
|
|
|
|
|
|
|
877
|
|
|
|
|
|
|
This is scripts/imager.pl: |
878
|
|
|
|
|
|
|
|
879
|
|
|
|
|
|
|
#!/usr/bin/env perl |
880
|
|
|
|
|
|
|
|
881
|
|
|
|
|
|
|
use strict; |
882
|
|
|
|
|
|
|
use warnings; |
883
|
|
|
|
|
|
|
|
884
|
|
|
|
|
|
|
use Getopt::Long; |
885
|
|
|
|
|
|
|
|
886
|
|
|
|
|
|
|
use Pod::Usage; |
887
|
|
|
|
|
|
|
|
888
|
|
|
|
|
|
|
use Tree::Cladogram::Imager; # Or Tree::Cladogram::ImageMagick. |
889
|
|
|
|
|
|
|
|
890
|
|
|
|
|
|
|
# ---------------------------------------------- |
891
|
|
|
|
|
|
|
|
892
|
|
|
|
|
|
|
my($option_parser) = Getopt::Long::Parser -> new; |
893
|
|
|
|
|
|
|
|
894
|
|
|
|
|
|
|
my(%option); |
895
|
|
|
|
|
|
|
|
896
|
|
|
|
|
|
|
if ($option_parser -> getoptions |
897
|
|
|
|
|
|
|
( |
898
|
|
|
|
|
|
|
\%option, |
899
|
|
|
|
|
|
|
'draw_frame=i', |
900
|
|
|
|
|
|
|
'frame_color=s', |
901
|
|
|
|
|
|
|
'help', |
902
|
|
|
|
|
|
|
'input_file=s', |
903
|
|
|
|
|
|
|
'leaf_font_file=s', |
904
|
|
|
|
|
|
|
'leaf_font_size=i', |
905
|
|
|
|
|
|
|
'output_file=s', |
906
|
|
|
|
|
|
|
'print_tree=i', |
907
|
|
|
|
|
|
|
'title=s', |
908
|
|
|
|
|
|
|
'title_font_file=s', |
909
|
|
|
|
|
|
|
'title_font_size=s', |
910
|
|
|
|
|
|
|
) ) |
911
|
|
|
|
|
|
|
{ |
912
|
|
|
|
|
|
|
pod2usage(1) if ($option{'help'}); |
913
|
|
|
|
|
|
|
|
914
|
|
|
|
|
|
|
exit Tree::Cladogram::Imager -> new(%option) -> run; |
915
|
|
|
|
|
|
|
} |
916
|
|
|
|
|
|
|
else |
917
|
|
|
|
|
|
|
{ |
918
|
|
|
|
|
|
|
pod2usage(2); |
919
|
|
|
|
|
|
|
} |
920
|
|
|
|
|
|
|
|
921
|
|
|
|
|
|
|
See also scripts/image.magick.pl. |
922
|
|
|
|
|
|
|
|
923
|
|
|
|
|
|
|
As you can see, you create an object and then call L. |
924
|
|
|
|
|
|
|
|
925
|
|
|
|
|
|
|
And this is the heart of scripts/imager.sh: |
926
|
|
|
|
|
|
|
|
927
|
|
|
|
|
|
|
perl -Ilib scripts/plot.pl \ |
928
|
|
|
|
|
|
|
-debug 0 \ |
929
|
|
|
|
|
|
|
-draw_frame $FRAME \ |
930
|
|
|
|
|
|
|
-input_file data/$i.01.clad \ |
931
|
|
|
|
|
|
|
-leaf_font_file $LEAF_FONT_FILE \ |
932
|
|
|
|
|
|
|
-output_file data/$i.01.png \ |
933
|
|
|
|
|
|
|
-title "$TITLE" \ |
934
|
|
|
|
|
|
|
-title_font_file $TITLE_FONT_FILE |
935
|
|
|
|
|
|
|
|
936
|
|
|
|
|
|
|
See also scripts/image.magick.sh. |
937
|
|
|
|
|
|
|
|
938
|
|
|
|
|
|
|
=head1 Description |
939
|
|
|
|
|
|
|
|
940
|
|
|
|
|
|
|
C provides a mechanism to turn a tree into a cladogram image. |
941
|
|
|
|
|
|
|
The image is generated using L or L. |
942
|
|
|
|
|
|
|
|
943
|
|
|
|
|
|
|
The image type created is determined by the suffix of the output file. See |
944
|
|
|
|
|
|
|
L for details. |
945
|
|
|
|
|
|
|
|
946
|
|
|
|
|
|
|
The details of the cladogram are read from a text file. See the L for details. |
947
|
|
|
|
|
|
|
|
948
|
|
|
|
|
|
|
For information about cladograms, see L. |
949
|
|
|
|
|
|
|
|
950
|
|
|
|
|
|
|
For another sample of a cladogram, see |
951
|
|
|
|
|
|
|
L. |
952
|
|
|
|
|
|
|
|
953
|
|
|
|
|
|
|
Sample input is shipped as data/*.clad. |
954
|
|
|
|
|
|
|
The corresponding output is shipped as data/*.png, and is on-line: |
955
|
|
|
|
|
|
|
|
956
|
|
|
|
|
|
|
L |
957
|
|
|
|
|
|
|
|
958
|
|
|
|
|
|
|
L |
959
|
|
|
|
|
|
|
|
960
|
|
|
|
|
|
|
L |
961
|
|
|
|
|
|
|
|
962
|
|
|
|
|
|
|
L |
963
|
|
|
|
|
|
|
|
964
|
|
|
|
|
|
|
=head1 Distributions |
965
|
|
|
|
|
|
|
|
966
|
|
|
|
|
|
|
This module is available as a Unix-style distro (*.tgz). |
967
|
|
|
|
|
|
|
|
968
|
|
|
|
|
|
|
See L |
969
|
|
|
|
|
|
|
for help on unpacking and installing distros. |
970
|
|
|
|
|
|
|
|
971
|
|
|
|
|
|
|
=head1 Installation |
972
|
|
|
|
|
|
|
|
973
|
|
|
|
|
|
|
Install L as you would for any C module: |
974
|
|
|
|
|
|
|
|
975
|
|
|
|
|
|
|
Run: |
976
|
|
|
|
|
|
|
|
977
|
|
|
|
|
|
|
cpanm Tree::Cladogram |
978
|
|
|
|
|
|
|
|
979
|
|
|
|
|
|
|
or run: |
980
|
|
|
|
|
|
|
|
981
|
|
|
|
|
|
|
sudo cpan Tree::Cladogram |
982
|
|
|
|
|
|
|
|
983
|
|
|
|
|
|
|
or unpack the distro, and then: |
984
|
|
|
|
|
|
|
|
985
|
|
|
|
|
|
|
perl Makefile.PL |
986
|
|
|
|
|
|
|
make (or dmake or nmake) |
987
|
|
|
|
|
|
|
make test |
988
|
|
|
|
|
|
|
make install |
989
|
|
|
|
|
|
|
|
990
|
|
|
|
|
|
|
=head1 Constructor and Initialization |
991
|
|
|
|
|
|
|
|
992
|
|
|
|
|
|
|
C is called as |
993
|
|
|
|
|
|
|
C<< my($cladotron) = Tree::Cladogram::Imager -> new(k1 => v1, k2 => v2, ...) >> or as |
994
|
|
|
|
|
|
|
C<< my($cladotron) = Tree::Cladogram::ImageMagick -> new(k1 => v1, k2 => v2, ...) >>. |
995
|
|
|
|
|
|
|
|
996
|
|
|
|
|
|
|
It returns a new object of type C or C. |
997
|
|
|
|
|
|
|
|
998
|
|
|
|
|
|
|
Key-value pairs accepted in the parameter list (see corresponding methods for details |
999
|
|
|
|
|
|
|
[e.g. L]): |
1000
|
|
|
|
|
|
|
|
1001
|
|
|
|
|
|
|
=over 4 |
1002
|
|
|
|
|
|
|
|
1003
|
|
|
|
|
|
|
=item o branch_color => $string |
1004
|
|
|
|
|
|
|
|
1005
|
|
|
|
|
|
|
Specify the color of the branches in the tree. |
1006
|
|
|
|
|
|
|
|
1007
|
|
|
|
|
|
|
See (in the FAQ) L for details about colors. |
1008
|
|
|
|
|
|
|
|
1009
|
|
|
|
|
|
|
Default: '#7e7e7e' (gray). |
1010
|
|
|
|
|
|
|
|
1011
|
|
|
|
|
|
|
=item o branch_width => $integer |
1012
|
|
|
|
|
|
|
|
1013
|
|
|
|
|
|
|
Specify the thickness of the branches. |
1014
|
|
|
|
|
|
|
|
1015
|
|
|
|
|
|
|
Default: 3 (px). |
1016
|
|
|
|
|
|
|
|
1017
|
|
|
|
|
|
|
=item o debug => $Boolean |
1018
|
|
|
|
|
|
|
|
1019
|
|
|
|
|
|
|
Specify non-production effects. |
1020
|
|
|
|
|
|
|
|
1021
|
|
|
|
|
|
|
Currently, the only extra effect is to draw fuchsia boxes around the leaf names. |
1022
|
|
|
|
|
|
|
|
1023
|
|
|
|
|
|
|
Frankly, this helped me debug the L side of things. |
1024
|
|
|
|
|
|
|
|
1025
|
|
|
|
|
|
|
Default: 0 (no extra effects). |
1026
|
|
|
|
|
|
|
|
1027
|
|
|
|
|
|
|
=item o draw_frame => $Boolean |
1028
|
|
|
|
|
|
|
|
1029
|
|
|
|
|
|
|
Specify that you want a frame around the image. |
1030
|
|
|
|
|
|
|
|
1031
|
|
|
|
|
|
|
Default: 0 (no frame). |
1032
|
|
|
|
|
|
|
|
1033
|
|
|
|
|
|
|
=item o final_x_step => $integer |
1034
|
|
|
|
|
|
|
|
1035
|
|
|
|
|
|
|
Specify an extra bit for the length of the final branch leading to the names of the leaves. |
1036
|
|
|
|
|
|
|
|
1037
|
|
|
|
|
|
|
Default: 30 (px). |
1038
|
|
|
|
|
|
|
|
1039
|
|
|
|
|
|
|
=item o frame_color => $string |
1040
|
|
|
|
|
|
|
|
1041
|
|
|
|
|
|
|
Specify the color of the frame, if any. |
1042
|
|
|
|
|
|
|
|
1043
|
|
|
|
|
|
|
See also C. |
1044
|
|
|
|
|
|
|
|
1045
|
|
|
|
|
|
|
Default: '#0000ff' (blue). |
1046
|
|
|
|
|
|
|
|
1047
|
|
|
|
|
|
|
=item o input_file => $string |
1048
|
|
|
|
|
|
|
|
1049
|
|
|
|
|
|
|
Specify the name of the *.clad file to read. Of course, the suffix does not have to be 'clad'. |
1050
|
|
|
|
|
|
|
|
1051
|
|
|
|
|
|
|
The format of this file is specified in the L. |
1052
|
|
|
|
|
|
|
|
1053
|
|
|
|
|
|
|
Default: ''. |
1054
|
|
|
|
|
|
|
|
1055
|
|
|
|
|
|
|
=item o leaf_font_color => $string |
1056
|
|
|
|
|
|
|
|
1057
|
|
|
|
|
|
|
Specify the font color of the name of each leaf. |
1058
|
|
|
|
|
|
|
|
1059
|
|
|
|
|
|
|
Default: '#0000ff' (blue). |
1060
|
|
|
|
|
|
|
|
1061
|
|
|
|
|
|
|
=item o leaf_font_file => $string |
1062
|
|
|
|
|
|
|
|
1063
|
|
|
|
|
|
|
Specify the name of the font file to use for the names of the leaves. |
1064
|
|
|
|
|
|
|
|
1065
|
|
|
|
|
|
|
You can use path names, as per the default, or - using Image::Magick -, you can just use the name |
1066
|
|
|
|
|
|
|
of the font, such as 'DejaVu-Sans-ExtraLight'. |
1067
|
|
|
|
|
|
|
|
1068
|
|
|
|
|
|
|
Default: '/usr/share/fonts/truetype/freefont/FreeMono.ttf'. |
1069
|
|
|
|
|
|
|
|
1070
|
|
|
|
|
|
|
=item o leaf_font_size => $integer |
1071
|
|
|
|
|
|
|
|
1072
|
|
|
|
|
|
|
Specify the size of the text used for the name of each leaf. |
1073
|
|
|
|
|
|
|
|
1074
|
|
|
|
|
|
|
Default: 16 (points). |
1075
|
|
|
|
|
|
|
|
1076
|
|
|
|
|
|
|
=item o left_margin => $integer |
1077
|
|
|
|
|
|
|
|
1078
|
|
|
|
|
|
|
Specify the distance from the left of the image to the left-most point at which something is drawn. |
1079
|
|
|
|
|
|
|
|
1080
|
|
|
|
|
|
|
This also sets the right-hand margin. |
1081
|
|
|
|
|
|
|
|
1082
|
|
|
|
|
|
|
Default: 15 (px). |
1083
|
|
|
|
|
|
|
|
1084
|
|
|
|
|
|
|
=item o output_file => $string |
1085
|
|
|
|
|
|
|
|
1086
|
|
|
|
|
|
|
Specify the name of the image file to write. |
1087
|
|
|
|
|
|
|
|
1088
|
|
|
|
|
|
|
Image formats supported are anything supported by L or L. |
1089
|
|
|
|
|
|
|
See the L for details. |
1090
|
|
|
|
|
|
|
|
1091
|
|
|
|
|
|
|
Default: '' (no output). |
1092
|
|
|
|
|
|
|
|
1093
|
|
|
|
|
|
|
=item o print_tree => $Boolean |
1094
|
|
|
|
|
|
|
|
1095
|
|
|
|
|
|
|
Specify that you want to print the tree constructed by the code. |
1096
|
|
|
|
|
|
|
|
1097
|
|
|
|
|
|
|
This option is really a debugging aid. |
1098
|
|
|
|
|
|
|
|
1099
|
|
|
|
|
|
|
Default: 0 (no tree). |
1100
|
|
|
|
|
|
|
|
1101
|
|
|
|
|
|
|
=item o title => $string |
1102
|
|
|
|
|
|
|
|
1103
|
|
|
|
|
|
|
Specify the title to draw at the bottom of the image. |
1104
|
|
|
|
|
|
|
|
1105
|
|
|
|
|
|
|
Default: '' (no title). |
1106
|
|
|
|
|
|
|
|
1107
|
|
|
|
|
|
|
=item o title_font_color => $string |
1108
|
|
|
|
|
|
|
|
1109
|
|
|
|
|
|
|
Specify the font color of the title. |
1110
|
|
|
|
|
|
|
|
1111
|
|
|
|
|
|
|
Default: '#000000' (black). |
1112
|
|
|
|
|
|
|
|
1113
|
|
|
|
|
|
|
=item o title_font_file => $string |
1114
|
|
|
|
|
|
|
|
1115
|
|
|
|
|
|
|
Specify the name of the font file to use for the title. |
1116
|
|
|
|
|
|
|
|
1117
|
|
|
|
|
|
|
You can use path names, as per the default, or - using Image::Magick -, you can just use the name |
1118
|
|
|
|
|
|
|
of the font, such as 'DejaVu-Sans-ExtraLight'. |
1119
|
|
|
|
|
|
|
|
1120
|
|
|
|
|
|
|
Default: '/usr/share/fonts/truetype/freefont/FreeSansBold.ttf'. |
1121
|
|
|
|
|
|
|
|
1122
|
|
|
|
|
|
|
=item o title_font_size => $integer |
1123
|
|
|
|
|
|
|
|
1124
|
|
|
|
|
|
|
Specify the size of the text used for the name of the title. |
1125
|
|
|
|
|
|
|
|
1126
|
|
|
|
|
|
|
Default: 16 (points). |
1127
|
|
|
|
|
|
|
|
1128
|
|
|
|
|
|
|
=item o top_margin => $integer |
1129
|
|
|
|
|
|
|
|
1130
|
|
|
|
|
|
|
Specify the distance from the top of the image to the top-most point at which something is drawn. |
1131
|
|
|
|
|
|
|
|
1132
|
|
|
|
|
|
|
This also sets the bottom margin. |
1133
|
|
|
|
|
|
|
|
1134
|
|
|
|
|
|
|
Default: 15 (px). |
1135
|
|
|
|
|
|
|
|
1136
|
|
|
|
|
|
|
=item o x_step => $integer |
1137
|
|
|
|
|
|
|
|
1138
|
|
|
|
|
|
|
The horizontal length of branches. |
1139
|
|
|
|
|
|
|
|
1140
|
|
|
|
|
|
|
See also L and L. |
1141
|
|
|
|
|
|
|
|
1142
|
|
|
|
|
|
|
Default: 50 (px). |
1143
|
|
|
|
|
|
|
|
1144
|
|
|
|
|
|
|
=item o y_step => $integer |
1145
|
|
|
|
|
|
|
|
1146
|
|
|
|
|
|
|
The vertical length of the branches. |
1147
|
|
|
|
|
|
|
|
1148
|
|
|
|
|
|
|
Note: Some vertical branches will be shortened if the code detects overlapping when leaf names are |
1149
|
|
|
|
|
|
|
drawn. |
1150
|
|
|
|
|
|
|
|
1151
|
|
|
|
|
|
|
See also L. |
1152
|
|
|
|
|
|
|
|
1153
|
|
|
|
|
|
|
Default: 40 (px). |
1154
|
|
|
|
|
|
|
|
1155
|
|
|
|
|
|
|
=back |
1156
|
|
|
|
|
|
|
|
1157
|
|
|
|
|
|
|
=head1 Methods |
1158
|
|
|
|
|
|
|
|
1159
|
|
|
|
|
|
|
=head2 branch_color([$string]) |
1160
|
|
|
|
|
|
|
|
1161
|
|
|
|
|
|
|
Get or set the color used to draw branches. |
1162
|
|
|
|
|
|
|
|
1163
|
|
|
|
|
|
|
See (in the FAQ) L for details about colors. |
1164
|
|
|
|
|
|
|
|
1165
|
|
|
|
|
|
|
C is a parameter to L. |
1166
|
|
|
|
|
|
|
|
1167
|
|
|
|
|
|
|
=head2 branch_width([$integer]) |
1168
|
|
|
|
|
|
|
|
1169
|
|
|
|
|
|
|
Get or set the width of branches. |
1170
|
|
|
|
|
|
|
|
1171
|
|
|
|
|
|
|
C is a parameter to L. |
1172
|
|
|
|
|
|
|
|
1173
|
|
|
|
|
|
|
=head2 debug([$Boolean]) |
1174
|
|
|
|
|
|
|
|
1175
|
|
|
|
|
|
|
Get or set the option to activate debug mode. |
1176
|
|
|
|
|
|
|
|
1177
|
|
|
|
|
|
|
C is a parameter to L. |
1178
|
|
|
|
|
|
|
|
1179
|
|
|
|
|
|
|
=head2 draw_frame([$Boolean]) |
1180
|
|
|
|
|
|
|
|
1181
|
|
|
|
|
|
|
Get or set the option to draw a frame on the image. |
1182
|
|
|
|
|
|
|
|
1183
|
|
|
|
|
|
|
C is a parameter to L. |
1184
|
|
|
|
|
|
|
|
1185
|
|
|
|
|
|
|
=head2 final_x_step([$integer]) |
1186
|
|
|
|
|
|
|
|
1187
|
|
|
|
|
|
|
Get or set a bit extra for the horizontal length of the branch leading to leaf names. |
1188
|
|
|
|
|
|
|
|
1189
|
|
|
|
|
|
|
C is a parameter to L. |
1190
|
|
|
|
|
|
|
|
1191
|
|
|
|
|
|
|
=head2 frame_color([$string]) |
1192
|
|
|
|
|
|
|
|
1193
|
|
|
|
|
|
|
Get or set the color of the frame. |
1194
|
|
|
|
|
|
|
|
1195
|
|
|
|
|
|
|
C is a parameter to L. |
1196
|
|
|
|
|
|
|
|
1197
|
|
|
|
|
|
|
=head2 input_file([$string]) |
1198
|
|
|
|
|
|
|
|
1199
|
|
|
|
|
|
|
Get or set the name of the input file. |
1200
|
|
|
|
|
|
|
|
1201
|
|
|
|
|
|
|
C is a parameter to L. |
1202
|
|
|
|
|
|
|
|
1203
|
|
|
|
|
|
|
=head2 leaf_font_color([$string]) |
1204
|
|
|
|
|
|
|
|
1205
|
|
|
|
|
|
|
Get or set the font color of the text used to draw leaf names. |
1206
|
|
|
|
|
|
|
|
1207
|
|
|
|
|
|
|
C is a parameter to L. |
1208
|
|
|
|
|
|
|
|
1209
|
|
|
|
|
|
|
=head2 leaf_font_file([$string]) |
1210
|
|
|
|
|
|
|
|
1211
|
|
|
|
|
|
|
Get or set the name of the font file used for leaf names. |
1212
|
|
|
|
|
|
|
|
1213
|
|
|
|
|
|
|
You can use path names, as per the default, or - using Image::Magick -, you can just use the name |
1214
|
|
|
|
|
|
|
of the font, such as 'DejaVu-Sans-ExtraLight'. |
1215
|
|
|
|
|
|
|
|
1216
|
|
|
|
|
|
|
C is a parameter to L. |
1217
|
|
|
|
|
|
|
|
1218
|
|
|
|
|
|
|
=head2 leaf_font_size([$integer]) |
1219
|
|
|
|
|
|
|
|
1220
|
|
|
|
|
|
|
Get or set the size of the font used to draw leaf names. |
1221
|
|
|
|
|
|
|
|
1222
|
|
|
|
|
|
|
C is a parameter to L. |
1223
|
|
|
|
|
|
|
|
1224
|
|
|
|
|
|
|
=head2 left_margin([$integer]) |
1225
|
|
|
|
|
|
|
|
1226
|
|
|
|
|
|
|
Get or set the distance from the left edge at which drawing starts. |
1227
|
|
|
|
|
|
|
|
1228
|
|
|
|
|
|
|
This also sets the right margin. |
1229
|
|
|
|
|
|
|
|
1230
|
|
|
|
|
|
|
C is a parameter to L. |
1231
|
|
|
|
|
|
|
|
1232
|
|
|
|
|
|
|
=head2 maximum_x() |
1233
|
|
|
|
|
|
|
|
1234
|
|
|
|
|
|
|
Get the right-most point at which something was drawn. |
1235
|
|
|
|
|
|
|
|
1236
|
|
|
|
|
|
|
This value is determined by examining the bounding boxes of all leaf names. |
1237
|
|
|
|
|
|
|
|
1238
|
|
|
|
|
|
|
In the case that the title is wider that the right-most leaf's name, C reflects this |
1239
|
|
|
|
|
|
|
fact. |
1240
|
|
|
|
|
|
|
|
1241
|
|
|
|
|
|
|
=head2 maximum_y() |
1242
|
|
|
|
|
|
|
|
1243
|
|
|
|
|
|
|
Get the bottom-most point at which something was drawn. |
1244
|
|
|
|
|
|
|
|
1245
|
|
|
|
|
|
|
This value includes the title, if any. |
1246
|
|
|
|
|
|
|
|
1247
|
|
|
|
|
|
|
=head2 new() |
1248
|
|
|
|
|
|
|
|
1249
|
|
|
|
|
|
|
See L for details on the parameters accepted by L. |
1250
|
|
|
|
|
|
|
|
1251
|
|
|
|
|
|
|
=head2 output_file([$string]) |
1252
|
|
|
|
|
|
|
|
1253
|
|
|
|
|
|
|
Get or set the name of the output file. |
1254
|
|
|
|
|
|
|
|
1255
|
|
|
|
|
|
|
The file suffix determines what type of file is written. |
1256
|
|
|
|
|
|
|
|
1257
|
|
|
|
|
|
|
For more on supported image types, see the L. |
1258
|
|
|
|
|
|
|
|
1259
|
|
|
|
|
|
|
C is a parameter to L. |
1260
|
|
|
|
|
|
|
|
1261
|
|
|
|
|
|
|
=head2 print_tree([$Boolean]) |
1262
|
|
|
|
|
|
|
|
1263
|
|
|
|
|
|
|
Get or set the option to print the tree constructed by the code. This is basically a debugging |
1264
|
|
|
|
|
|
|
option. |
1265
|
|
|
|
|
|
|
|
1266
|
|
|
|
|
|
|
C is a parameter to L. |
1267
|
|
|
|
|
|
|
|
1268
|
|
|
|
|
|
|
=head2 root() |
1269
|
|
|
|
|
|
|
|
1270
|
|
|
|
|
|
|
Get the root of the tree built by calling run(). This tree is an object of type L. |
1271
|
|
|
|
|
|
|
|
1272
|
|
|
|
|
|
|
For printing the tree, see L. |
1273
|
|
|
|
|
|
|
|
1274
|
|
|
|
|
|
|
Normally, end-users would never call this method. |
1275
|
|
|
|
|
|
|
|
1276
|
|
|
|
|
|
|
=head2 run() |
1277
|
|
|
|
|
|
|
|
1278
|
|
|
|
|
|
|
After calling L, this is the only other method you would normally call. |
1279
|
|
|
|
|
|
|
|
1280
|
|
|
|
|
|
|
=head2 title([$string]) |
1281
|
|
|
|
|
|
|
|
1282
|
|
|
|
|
|
|
Get or set the title to be drawn at the bottom of the image. |
1283
|
|
|
|
|
|
|
|
1284
|
|
|
|
|
|
|
Note: It's vital you set the title before calling L, since the width of the title might |
1285
|
|
|
|
|
|
|
be greater that the width of the tree, and the width of the title would then be used to determine |
1286
|
|
|
|
|
|
|
the width of the image to create. |
1287
|
|
|
|
|
|
|
|
1288
|
|
|
|
|
|
|
C is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1289">1289</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1290">1290</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 title_font_color([$string]) </td>
</tr>
<tr>
<td class="h" >
<a name="1291">1291</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1292">1292</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Get or set the font color of the text used to draw the title. </td>
</tr>
<tr>
<td class="h" >
<a name="1293">1293</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1294">1294</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> C<title_font_color> is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1295">1295</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1296">1296</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 title_font_file([$string]) </td>
</tr>
<tr>
<td class="h" >
<a name="1297">1297</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1298">1298</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Get or set the name of the font file used for the title. </td>
</tr>
<tr>
<td class="h" >
<a name="1299">1299</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1300">1300</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> You can use path names, as per the default, or - using Image::Magick -, you can just use the name </td>
</tr>
<tr>
<td class="h" >
<a name="1301">1301</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> of the font, such as 'DejaVu-Sans-ExtraLight'. </td>
</tr>
<tr>
<td class="h" >
<a name="1302">1302</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1303">1303</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> C<title_font_file> is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1304">1304</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1305">1305</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 title_font_size([$integer]) </td>
</tr>
<tr>
<td class="h" >
<a name="1306">1306</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1307">1307</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Get or set the size of the font used to draw the title. </td>
</tr>
<tr>
<td class="h" >
<a name="1308">1308</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1309">1309</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> C<title_font_size> is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1310">1310</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1311">1311</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 top_margin([$integer]) </td>
</tr>
<tr>
<td class="h" >
<a name="1312">1312</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1313">1313</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Get or set the distance from the top edge at which drawing starts. </td>
</tr>
<tr>
<td class="h" >
<a name="1314">1314</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1315">1315</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This also sets the bottom margin. </td>
</tr>
<tr>
<td class="h" >
<a name="1316">1316</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1317">1317</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> C<top_margin> is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1318">1318</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1319">1319</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 x_step([$integer]) </td>
</tr>
<tr>
<td class="h" >
<a name="1320">1320</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1321">1321</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Get or set the length of horizontal branches. </td>
</tr>
<tr>
<td class="h" >
<a name="1322">1322</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1323">1323</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See also C<final_x_step>. </td>
</tr>
<tr>
<td class="h" >
<a name="1324">1324</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1325">1325</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> C<x_step> is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1326">1326</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1327">1327</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 y_step([$integer]) </td>
</tr>
<tr>
<td class="h" >
<a name="1328">1328</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1329">1329</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Get or set the length of vertical branches. </td>
</tr>
<tr>
<td class="h" >
<a name="1330">1330</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1331">1331</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Note: Some vertical branches will be shortened if the code detects overlapping when leaf names are </td>
</tr>
<tr>
<td class="h" >
<a name="1332">1332</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> drawn. </td>
</tr>
<tr>
<td class="h" >
<a name="1333">1333</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1334">1334</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> C<y_step> is a parameter to L</new()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1335">1335</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1336">1336</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 Scripts and data files shipped with this module </td>
</tr>
<tr>
<td class="h" >
<a name="1337">1337</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1338">1338</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 Scripts </td>
</tr>
<tr>
<td class="h" >
<a name="1339">1339</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1340">1340</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See scripts/*.pl and scripts/*.sh. </td>
</tr>
<tr>
<td class="h" >
<a name="1341">1341</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1342">1342</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =over 4 </td>
</tr>
<tr>
<td class="h" >
<a name="1343">1343</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1344">1344</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Debian.font.list.pl </td>
</tr>
<tr>
<td class="h" >
<a name="1345">1345</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1346">1346</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Outputs to my web server's doc root, which is in Debian's RAM disk, a file called </td>
</tr>
<tr>
<td class="h" >
<a name="1347">1347</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> "$ENV{DR}/misc/Debian.font.list.png". </td>
</tr>
<tr>
<td class="h" >
<a name="1348">1348</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1349">1349</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The output file is not part of the distro (being 3.3 Mb), but is on line at </td>
</tr>
<tr>
<td class="h" >
<a name="1350">1350</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<http://savage.net.au/misc/Debian.font.list.png>. </td>
</tr>
<tr>
<td class="h" >
<a name="1351">1351</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1352">1352</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o image.magick.pl </td>
</tr>
<tr>
<td class="h" >
<a name="1353">1353</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1354">1354</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The program you would normally use to drive Tree::Cladogram::ImageMagick. </td>
</tr>
<tr>
<td class="h" >
<a name="1355">1355</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1356">1356</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See also image.magick.sh. </td>
</tr>
<tr>
<td class="h" >
<a name="1357">1357</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1358">1358</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o image.magick.sh </td>
</tr>
<tr>
<td class="h" >
<a name="1359">1359</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1360">1360</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> A convenient way to run image.magick.pl. </td>
</tr>
<tr>
<td class="h" >
<a name="1361">1361</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1362">1362</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o imager.pl </td>
</tr>
<tr>
<td class="h" >
<a name="1363">1363</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1364">1364</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The program you would normally use to drive Tree::Cladogram::Imager. </td>
</tr>
<tr>
<td class="h" >
<a name="1365">1365</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1366">1366</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See also imager.sh. </td>
</tr>
<tr>
<td class="h" >
<a name="1367">1367</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1368">1368</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o imager.sh </td>
</tr>
<tr>
<td class="h" >
<a name="1369">1369</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1370">1370</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> A convenient way to run imager.pl. </td>
</tr>
<tr>
<td class="h" >
<a name="1371">1371</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1372">1372</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o pod2html.sh </td>
</tr>
<tr>
<td class="h" >
<a name="1373">1373</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1374">1374</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> A simple way for me to convert the docs into HTML. </td>
</tr>
<tr>
<td class="h" >
<a name="1375">1375</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1376">1376</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o test.image.magick.pl </td>
</tr>
<tr>
<td class="h" >
<a name="1377">1377</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1378">1378</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Outputs data/test.image.magick.png. I used this program to experiment with L<Image::Magick> while </td>
</tr>
<tr>
<td class="h" >
<a name="1379">1379</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> converting Tree::Cladogram::Imager into Tree::Cladogram::ImageMagick. </td>
</tr>
<tr>
<td class="h" >
<a name="1380">1380</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1381">1381</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o test.image.magick.sh </td>
</tr>
<tr>
<td class="h" >
<a name="1382">1382</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1383">1383</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> A convenient way to run test.image.magick.pl. </td>
</tr>
<tr>
<td class="h" >
<a name="1384">1384</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1385">1385</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =back </td>
</tr>
<tr>
<td class="h" >
<a name="1386">1386</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1387">1387</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 Data files </td>
</tr>
<tr>
<td class="h" >
<a name="1388">1388</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1389">1389</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See data/*. </td>
</tr>
<tr>
<td class="h" >
<a name="1390">1390</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1391">1391</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =over 4 </td>
</tr>
<tr>
<td class="h" >
<a name="1392">1392</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1393">1393</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o nationalgeographic.01.clad </td>
</tr>
<tr>
<td class="h" >
<a name="1394">1394</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1395">1395</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This sample input file is discussed just below, at the start of the L</FAQ>. </td>
</tr>
<tr>
<td class="h" >
<a name="1396">1396</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1397">1397</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o nationalgeographic.01.png </td>
</tr>
<tr>
<td class="h" >
<a name="1398">1398</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1399">1399</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This is the output of rendering nationalgeographic.01.clad with L<Imager>. </td>
</tr>
<tr>
<td class="h" >
<a name="1400">1400</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1401">1401</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o nationalgeographic.02.png </td>
</tr>
<tr>
<td class="h" >
<a name="1402">1402</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1403">1403</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This is the output of rendering nationalgeographic.01.clad with L<Image::Magick>. </td>
</tr>
<tr>
<td class="h" >
<a name="1404">1404</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1405">1405</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o test.image.magick.png </td>
</tr>
<tr>
<td class="h" >
<a name="1406">1406</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1407">1407</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The is is output of scripts/test.image.magick.pl. </td>
</tr>
<tr>
<td class="h" >
<a name="1408">1408</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1409">1409</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o wikipedia.01.clad </td>
</tr>
<tr>
<td class="h" >
<a name="1410">1410</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1411">1411</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This sample input file is discussed just below, at the start of the L</FAQ>. </td>
</tr>
<tr>
<td class="h" >
<a name="1412">1412</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1413">1413</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o wikipedia.01.png </td>
</tr>
<tr>
<td class="h" >
<a name="1414">1414</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1415">1415</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This is the output of rendering wikipedia.01.clad with L<Imager>. </td>
</tr>
<tr>
<td class="h" >
<a name="1416">1416</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1417">1417</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o wikipedia.02.png </td>
</tr>
<tr>
<td class="h" >
<a name="1418">1418</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1419">1419</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This is the output of rendering wikipedia.01.clad with L<Image::Magick>. </td>
</tr>
<tr>
<td class="h" >
<a name="1420">1420</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1421">1421</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =back </td>
</tr>
<tr>
<td class="h" >
<a name="1422">1422</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1423">1423</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 FAQ </td>
</tr>
<tr>
<td class="h" >
<a name="1424">1424</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1425">1425</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 What is the format of the input file? </td>
</tr>
<tr>
<td class="h" >
<a name="1426">1426</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1427">1427</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Sample 1 - L<https://en.wikipedia.org/wiki/Cladogram>: </td>
</tr>
<tr>
<td class="h" >
<a name="1428">1428</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1429">1429</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> +---- Beetles </td>
</tr>
<tr>
<td class="h" >
<a name="1430">1430</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1431">1431</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1432">1432</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Root ---+ +---- Wasps, bees, ants </td>
</tr>
<tr>
<td class="h" >
<a name="1433">1433</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1434">1434</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1435">1435</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 1---+ +---- Butterflies, moths </td>
</tr>
<tr>
<td class="h" >
<a name="1436">1436</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1437">1437</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1438">1438</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 2---+ </td>
</tr>
<tr>
<td class="h" >
<a name="1439">1439</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1440">1440</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1441">1441</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> +---- Flies </td>
</tr>
<tr>
<td class="h" >
<a name="1442">1442</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1443">1443</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This is the data file (shipped as data/cladogram.01.clad). The format is defined formally below: </td>
</tr>
<tr>
<td class="h" >
<a name="1444">1444</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1445">1445</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Parent Place Node </td>
</tr>
<tr>
<td class="h" >
<a name="1446">1446</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> root above Beetles </td>
</tr>
<tr>
<td class="h" >
<a name="1447">1447</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> root below 1 </td>
</tr>
<tr>
<td class="h" >
<a name="1448">1448</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 1 above Wasps, bees, ants </td>
</tr>
<tr>
<td class="h" >
<a name="1449">1449</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 1 below 2 </td>
</tr>
<tr>
<td class="h" >
<a name="1450">1450</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 2 above Butterflies, moths </td>
</tr>
<tr>
<td class="h" >
<a name="1451">1451</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 2 below Flies </td>
</tr>
<tr>
<td class="h" >
<a name="1452">1452</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1453">1453</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Output: L<Using Imager|http://savage.net.au/misc/wikipedia.01.png> and </td>
</tr>
<tr>
<td class="h" >
<a name="1454">1454</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<using Image::Magick|http://savage.net.au/misc/wikipedia.02.png>. </td>
</tr>
<tr>
<td class="h" >
<a name="1455">1455</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1456">1456</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Sample 2 - L<http://phenomena.nationalgeographic.com/2015/12/11/paleo-profile-the-smoke-hill-bird/>: </td>
</tr>
<tr>
<td class="h" >
<a name="1457">1457</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1458">1458</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> +--- Archaeopterix lithographica </td>
</tr>
<tr>
<td class="h" >
<a name="1459">1459</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1460">1460</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1461">1461</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1462">1462</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Root ---+ +--- Apsaravis ukhaana </td>
</tr>
<tr>
<td class="h" >
<a name="1463">1463</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1464">1464</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1465">1465</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1466">1466</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 1---+ +--- Gansus yumemensis </td>
</tr>
<tr>
<td class="h" >
<a name="1467">1467</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1468">1468</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1469">1469</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1470">1470</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 2---+ +--- Ichthyornis dispar </td>
</tr>
<tr>
<td class="h" >
<a name="1471">1471</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1472">1472</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | +--- Gallus gallus </td>
</tr>
<tr>
<td class="h" >
<a name="1473">1473</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | | </td>
</tr>
<tr>
<td class="h" >
<a name="1474">1474</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 3---+ 5---+ </td>
</tr>
<tr>
<td class="h" >
<a name="1475">1475</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | | </td>
</tr>
<tr>
<td class="h" >
<a name="1476">1476</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | +--- Anas clypeata </td>
</tr>
<tr>
<td class="h" >
<a name="1477">1477</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1478">1478</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 4---+ </td>
</tr>
<tr>
<td class="h" >
<a name="1479">1479</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | +--- Pasquiaornis </td>
</tr>
<tr>
<td class="h" >
<a name="1480">1480</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1481">1481</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1482">1482</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 6---+ +--- Enaliornis </td>
</tr>
<tr>
<td class="h" >
<a name="1483">1483</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1484">1484</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1485">1485</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1486">1486</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 7---+ +--- Baptornis advenus </td>
</tr>
<tr>
<td class="h" >
<a name="1487">1487</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1488">1488</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | +--- Brodavis varnei </td>
</tr>
<tr>
<td class="h" >
<a name="1489">1489</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | | </td>
</tr>
<tr>
<td class="h" >
<a name="1490">1490</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 8---+ 10--+ </td>
</tr>
<tr>
<td class="h" >
<a name="1491">1491</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | | </td>
</tr>
<tr>
<td class="h" >
<a name="1492">1492</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | +--- Brodavis baileyi </td>
</tr>
<tr>
<td class="h" >
<a name="1493">1493</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1494">1494</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 9---+ </td>
</tr>
<tr>
<td class="h" >
<a name="1495">1495</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | +--- Fumicollis hoffmani </td>
</tr>
<tr>
<td class="h" >
<a name="1496">1496</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1497">1497</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1498">1498</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 11--+ +--- Parahesperornis alexi </td>
</tr>
<tr>
<td class="h" >
<a name="1499">1499</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1500">1500</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | | </td>
</tr>
<tr>
<td class="h" >
<a name="1501">1501</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 12--+ </td>
</tr>
<tr>
<td class="h" >
<a name="1502">1502</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1503">1503</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> | </td>
</tr>
<tr>
<td class="h" >
<a name="1504">1504</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> +--- Hesperornis regalis </td>
</tr>
<tr>
<td class="h" >
<a name="1505">1505</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1506">1506</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This is the data file (shipped as data/nationalgeographic.01.clad). The format is defined formally </td>
</tr>
<tr>
<td class="h" >
<a name="1507">1507</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> below: </td>
</tr>
<tr>
<td class="h" >
<a name="1508">1508</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1509">1509</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Parent Place Node </td>
</tr>
<tr>
<td class="h" >
<a name="1510">1510</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> root above Archaeopterix lithographica </td>
</tr>
<tr>
<td class="h" >
<a name="1511">1511</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> root below 1 </td>
</tr>
<tr>
<td class="h" >
<a name="1512">1512</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 1 above Apsaravis ukhaana </td>
</tr>
<tr>
<td class="h" >
<a name="1513">1513</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 1 below 2 </td>
</tr>
<tr>
<td class="h" >
<a name="1514">1514</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 2 above Gansus yumemensis </td>
</tr>
<tr>
<td class="h" >
<a name="1515">1515</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 2 below 3 </td>
</tr>
<tr>
<td class="h" >
<a name="1516">1516</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 3 above Ichthyornis dispar </td>
</tr>
<tr>
<td class="h" >
<a name="1517">1517</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 3 below 4 </td>
</tr>
<tr>
<td class="h" >
<a name="1518">1518</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 4 above 5 </td>
</tr>
<tr>
<td class="h" >
<a name="1519">1519</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 4 below 6 </td>
</tr>
<tr>
<td class="h" >
<a name="1520">1520</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 5 above Gallus gallus </td>
</tr>
<tr>
<td class="h" >
<a name="1521">1521</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 5 below Anas clypeata </td>
</tr>
<tr>
<td class="h" >
<a name="1522">1522</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 6 above Pasquiaornis </td>
</tr>
<tr>
<td class="h" >
<a name="1523">1523</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 6 below 7 </td>
</tr>
<tr>
<td class="h" >
<a name="1524">1524</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 7 above Enaliornis </td>
</tr>
<tr>
<td class="h" >
<a name="1525">1525</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 7 below 8 </td>
</tr>
<tr>
<td class="h" >
<a name="1526">1526</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 8 above Baptornis advenus </td>
</tr>
<tr>
<td class="h" >
<a name="1527">1527</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 8 below 9 </td>
</tr>
<tr>
<td class="h" >
<a name="1528">1528</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 9 above 10 </td>
</tr>
<tr>
<td class="h" >
<a name="1529">1529</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 9 below 11 </td>
</tr>
<tr>
<td class="h" >
<a name="1530">1530</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 10 above Brodavis varnei </td>
</tr>
<tr>
<td class="h" >
<a name="1531">1531</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 10 below Brodavis baileyi </td>
</tr>
<tr>
<td class="h" >
<a name="1532">1532</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 11 above Fumicollis hoffmani </td>
</tr>
<tr>
<td class="h" >
<a name="1533">1533</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 11 below 12 </td>
</tr>
<tr>
<td class="h" >
<a name="1534">1534</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 12 above Parahesperornis alexi </td>
</tr>
<tr>
<td class="h" >
<a name="1535">1535</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> 12 below Hesperornis regalis </td>
</tr>
<tr>
<td class="h" >
<a name="1536">1536</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1537">1537</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Output: L<Using Imager|http://savage.net.au/misc/nationalgeographic.01.png> and </td>
</tr>
<tr>
<td class="h" >
<a name="1538">1538</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<using Image::Magick|http://savage.net.au/misc/nationalgeographic.02.png>. </td>
</tr>
<tr>
<td class="h" >
<a name="1539">1539</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1540">1540</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> File format: </td>
</tr>
<tr>
<td class="h" >
<a name="1541">1541</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1542">1542</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =over 4 </td>
</tr>
<tr>
<td class="h" >
<a name="1543">1543</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1544">1544</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Words and numbers on each line are tab separated </td>
</tr>
<tr>
<td class="h" >
<a name="1545">1545</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1546">1546</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Oh, all right. You can use any number of spaces too, but why bother? </td>
</tr>
<tr>
<td class="h" >
<a name="1547">1547</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1548">1548</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o There are 3 columns </td>
</tr>
<tr>
<td class="h" >
<a name="1549">1549</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1550">1550</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =over 4 </td>
</tr>
<tr>
<td class="h" >
<a name="1551">1551</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1552">1552</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o The first line must match /Parent\tPlace\tNode/i </td>
</tr>
<tr>
<td class="h" >
<a name="1553">1553</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1554">1554</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> For non-programmers, the /.../ is a regular expression, just saying the program tests for that </td>
</tr>
<tr>
<td class="h" >
<a name="1555">1555</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> exact string. The '\t's represent tabs and the suffix 'i' means use a case-insensitive test. </td>
</tr>
<tr>
<td class="h" >
<a name="1556">1556</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1557">1557</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Thereafter, column 1 is the name of the node </td>
</tr>
<tr>
<td class="h" >
<a name="1558">1558</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1559">1559</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o The word 'root' is (also) case-insensitive </td>
</tr>
<tr>
<td class="h" >
<a name="1560">1560</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1561">1561</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Every node has 2 mandatory lines </td>
</tr>
<tr>
<td class="h" >
<a name="1562">1562</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1563">1563</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> One for the daughter 'above' the current node, and one for the daughter 'below'. </td>
</tr>
<tr>
<td class="h" >
<a name="1564">1564</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1565">1565</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Column 2 specifies where the daughter appears in relation to the node </td>
</tr>
<tr>
<td class="h" >
<a name="1566">1566</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1567">1567</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o All words after the 2nd column are the name of that daughter </td>
</tr>
<tr>
<td class="h" >
<a name="1568">1568</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1569">1569</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =back </td>
</tr>
<tr>
<td class="h" >
<a name="1570">1570</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1571">1571</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Fabricate skeleton nodes to hold together the nodes you are interested in </td>
</tr>
<tr>
<td class="h" >
<a name="1572">1572</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1573">1573</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o Use digits for the skeleton nodes' names </td>
</tr>
<tr>
<td class="h" >
<a name="1574">1574</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1575">1575</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The code hides the name of nodes which match /^(\d+|root)$/. </td>
</tr>
<tr>
<td class="h" >
<a name="1576">1576</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1577">1577</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =back </td>
</tr>
<tr>
<td class="h" >
<a name="1578">1578</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1579">1579</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 Which versions of the renderers did you use? </td>
</tr>
<tr>
<td class="h" >
<a name="1580">1580</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1581">1581</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Imager> V 1.004. </td>
</tr>
<tr>
<td class="h" >
<a name="1582">1582</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1583">1583</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Image::Magick> V 6.9.3-0 Q16. </td>
</tr>
<tr>
<td class="h" >
<a name="1584">1584</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1585">1585</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> For help installing Image::Magick under Debian, see </td>
</tr>
<tr>
<td class="h" >
<a name="1586">1586</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<http://savage.net.au/ImageMagick/html/Installation.html>. </td>
</tr>
<tr>
<td class="h" >
<a name="1587">1587</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1588">1588</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 What image formats are supported? </td>
</tr>
<tr>
<td class="h" >
<a name="1589">1589</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1590">1590</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> My default install of L<Imager> lists: </td>
</tr>
<tr>
<td class="h" >
<a name="1591">1591</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1592">1592</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> bmp </td>
</tr>
<tr>
<td class="h" >
<a name="1593">1593</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> ft2 </td>
</tr>
<tr>
<td class="h" >
<a name="1594">1594</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> ifs </td>
</tr>
<tr>
<td class="h" >
<a name="1595">1595</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> png </td>
</tr>
<tr>
<td class="h" >
<a name="1596">1596</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> pnm </td>
</tr>
<tr>
<td class="h" >
<a name="1597">1597</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> raw </td>
</tr>
<tr>
<td class="h" >
<a name="1598">1598</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1599">1599</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Image::Magick> supports a huge range of formats (221 actually). To list them, run </td>
</tr>
<tr>
<td class="h" >
<a name="1600">1600</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> scripts/test.image.magick.pl. Note: This program writes to data/test.image.magick.png. </td>
</tr>
<tr>
<td class="h" >
<a name="1601">1601</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1602">1602</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 What colors are supported? </td>
</tr>
<tr>
<td class="h" >
<a name="1603">1603</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1604">1604</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See L<Imager::Color> for Imager's docs on color. But you're probably better off using </td>
</tr>
<tr>
<td class="h" >
<a name="1605">1605</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Image::Magick>'s table mentioned next, since my module only accepts colors. It does not allow </td>
</tr>
<tr>
<td class="h" >
<a name="1606">1606</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> you to provide an Imager::Color object as a parameter. </td>
</tr>
<tr>
<td class="h" >
<a name="1607">1607</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1608">1608</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See L<Image::Magick colors|http://www.imagemagick.org/script/color.php> for a huge table of both </td>
</tr>
<tr>
<td class="h" >
<a name="1609">1609</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> names and hex values. </td>
</tr>
<tr>
<td class="h" >
<a name="1610">1610</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1611">1611</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 What fonts are supported? </td>
</tr>
<tr>
<td class="h" >
<a name="1612">1612</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1613">1613</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Check these directories: </td>
</tr>
<tr>
<td class="h" >
<a name="1614">1614</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1615">1615</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =over </td>
</tr>
<tr>
<td class="h" >
<a name="1616">1616</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1617">1617</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o /usr/local/share/fonts </td>
</tr>
<tr>
<td class="h" >
<a name="1618">1618</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1619">1619</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o /usr/share/fonts </td>
</tr>
<tr>
<td class="h" >
<a name="1620">1620</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1621">1621</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =back </td>
</tr>
<tr>
<td class="h" >
<a name="1622">1622</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1623">1623</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> If you're using L<Debian|http://debian.org>, run C<fc-list> for a list of installed fonts. </td>
</tr>
<tr>
<td class="h" >
<a name="1624">1624</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1625">1625</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> More information on Debian's support for fonts can be found on Debian's </td>
</tr>
<tr>
<td class="h" >
<a name="1626">1626</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<wiki|https://wiki.debian.org/Fonts>. </td>
</tr>
<tr>
<td class="h" >
<a name="1627">1627</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1628">1628</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See L<http://savage.net.au/misc/Debian.font.list.png> for the fonts on my laptop. </td>
</tr>
<tr>
<td class="h" >
<a name="1629">1629</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Note: This file is 3.3 Mb, so you may have to zoom it to 500% to make it readable. </td>
</tr>
<tr>
<td class="h" >
<a name="1630">1630</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1631">1631</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> See scripts/imager.sh and scripts/image.magick.sh for lists of fonts I have played with while </td>
</tr>
<tr>
<td class="h" >
<a name="1632">1632</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> developing this module. </td>
</tr>
<tr>
<td class="h" >
<a name="1633">1633</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1634">1634</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Further, note this text copied from the docs for L<Imager::Font>: </td>
</tr>
<tr>
<td class="h" >
<a name="1635">1635</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1636">1636</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This module handles creating Font objects used by Imager. The module also handles querying </td>
</tr>
<tr>
<td class="h" >
<a name="1637">1637</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> fonts for sizes and such. If both T1lib and FreeType were available at the time of compilation </td>
</tr>
<tr>
<td class="h" >
<a name="1638">1638</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> then Imager should be able to work with both TrueType fonts and t1 Postscript fonts. To check </td>
</tr>
<tr>
<td class="h" >
<a name="1639">1639</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> if Imager is t1 or TrueType capable you can use something like this: </td>
</tr>
<tr>
<td class="h" >
<a name="1640">1640</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1641">1641</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> use Imager; </td>
</tr>
<tr>
<td class="h" >
<a name="1642">1642</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1643">1643</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> print "Has truetype\n" if $Imager::formats{tt}; </td>
</tr>
<tr>
<td class="h" >
<a name="1644">1644</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> print "Has t1 postscript\n" if $Imager::formats{t1}; </td>
</tr>
<tr>
<td class="h" >
<a name="1645">1645</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> print "Has Win32 fonts\n" if $Imager::formats{w32}; </td>
</tr>
<tr>
<td class="h" >
<a name="1646">1646</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> print "Has Freetype2\n" if $Imager::formats{ft2}; </td>
</tr>
<tr>
<td class="h" >
<a name="1647">1647</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1648">1648</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> My default install of L<Imager> reports: </td>
</tr>
<tr>
<td class="h" >
<a name="1649">1649</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1650">1650</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Has Freetype2 </td>
</tr>
<tr>
<td class="h" >
<a name="1651">1651</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1652">1652</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 How does leaf_font_size interact with y_step? </td>
</tr>
<tr>
<td class="h" >
<a name="1653">1653</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1654">1654</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> This might depend on the font, but here are some tests I ran with the one leaf font: </td>
</tr>
<tr>
<td class="h" >
<a name="1655">1655</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1656">1656</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =over 4 </td>
</tr>
<tr>
<td class="h" >
<a name="1657">1657</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1658">1658</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 12 works with y_step values of 28 .. 40 </td>
</tr>
<tr>
<td class="h" >
<a name="1659">1659</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1660">1660</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 16 works with y_step values of 36 .. 44 </td>
</tr>
<tr>
<td class="h" >
<a name="1661">1661</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1662">1662</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 20 works with y_step values of 40 .. 48 </td>
</tr>
<tr>
<td class="h" >
<a name="1663">1663</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1664">1664</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 24 works with a y_step value of 48 </td>
</tr>
<tr>
<td class="h" >
<a name="1665">1665</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1666">1666</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 28 works with a y_step value of 54 </td>
</tr>
<tr>
<td class="h" >
<a name="1667">1667</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1668">1668</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 32 works with a y_step value of 54 </td>
</tr>
<tr>
<td class="h" >
<a name="1669">1669</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1670">1670</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 36 works with a y_step value of 72 </td>
</tr>
<tr>
<td class="h" >
<a name="1671">1671</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1672">1672</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =item o leaf_font_size 40 works with a y_step value of 72 </td>
</tr>
<tr>
<td class="h" >
<a name="1673">1673</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1674">1674</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =back </td>
</tr>
<tr>
<td class="h" >
<a name="1675">1675</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1676">1676</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 Why did you use Tree::DAG_Node and not something like Tree::Simple? </td>
</tr>
<tr>
<td class="h" >
<a name="1677">1677</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1678">1678</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> I started with L<Tree::Simple> precisely because it's simple, but found it awkward to use. </td>
</tr>
<tr>
<td class="h" >
<a name="1679">1679</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1680">1680</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> I did use Tree::Simple in L<HTML::Parser::Simple>. That module was deliberately kept simple, </td>
</tr>
<tr>
<td class="h" >
<a name="1681">1681</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> but before that, and since, I've always gone back to L<Tree::DAG_Node>. </td>
</tr>
<tr>
<td class="h" >
<a name="1682">1682</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1683">1683</a>
</td>
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</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head2 How is overlap between leaves detected? </td>
</tr>
<tr>
<td class="h" >
<a name="1684">1684</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1685">1685</a>
</td>
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</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The process starts by calling the undocumented method C<_check_for_overlap()>. </td>
</tr>
<tr>
<td class="h" >
<a name="1686">1686</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1687">1687</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 See Also </td>
</tr>
<tr>
<td class="h" >
<a name="1688">1688</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1689">1689</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Bio::Tree::Draw::Cladogram> </td>
</tr>
<tr>
<td class="h" >
<a name="1690">1690</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
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</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1691">1691</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Imager> </td>
</tr>
<tr>
<td class="h" >
<a name="1692">1692</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1693">1693</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Image::Magick> </td>
</tr>
<tr>
<td class="h" >
<a name="1694">1694</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1695">1695</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Help installing Image::Magick|http://savage.net.au/ImageMagick/html/Installation.html> </td>
</tr>
<tr>
<td class="h" >
<a name="1696">1696</a>
</td>
<td >
</td>
<td >
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<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1697">1697</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<Tree::DAG_Node> </td>
</tr>
<tr>
<td class="h" >
<a name="1698">1698</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1699">1699</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 Machine-Readable Change Log </td>
</tr>
<tr>
<td class="h" >
<a name="1700">1700</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1701">1701</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> The file Changes was converted into Changelog.ini by L<Module::Metadata::Changes>. </td>
</tr>
<tr>
<td class="h" >
<a name="1702">1702</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
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</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1703">1703</a>
</td>
<td >
</td>
<td >
</td>
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</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 Version Numbers </td>
</tr>
<tr>
<td class="h" >
<a name="1704">1704</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
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</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1705">1705</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> Version numbers < 1.00 represent development versions. From 1.00 up, they are production versions. </td>
</tr>
<tr>
<td class="h" >
<a name="1706">1706</a>
</td>
<td >
</td>
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</td>
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</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1707">1707</a>
</td>
<td >
</td>
<td >
</td>
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</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 Repository </td>
</tr>
<tr>
<td class="h" >
<a name="1708">1708</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
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</td>
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</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1709">1709</a>
</td>
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</td>
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</td>
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</td>
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</td>
<td class="s"> L<https://github.com/ronsavage/Tree-Cladogram> </td>
</tr>
<tr>
<td class="h" >
<a name="1710">1710</a>
</td>
<td >
</td>
<td >
</td>
<td >
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</td>
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</td>
<td >
</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1711">1711</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> =head1 Support </td>
</tr>
<tr>
<td class="h" >
<a name="1712">1712</a>
</td>
<td >
</td>
<td >
</td>
<td >
</td>
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</td>
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</td>
<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1713">1713</a>
</td>
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</td>
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</td>
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</td>
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</td>
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</td>
<td class="s"> Email the author, or log a bug on RT: </td>
</tr>
<tr>
<td class="h" >
<a name="1714">1714</a>
</td>
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<td class="s"> </td>
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<tr>
<td class="h" >
<a name="1715">1715</a>
</td>
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</td>
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</td>
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</td>
<td >
</td>
<td >
</td>
<td >
</td>
<td class="s"> L<https://rt.cpan.org/Public/Dist/Display.html?Name=Tree::Cladogram>. </td>
</tr>
<tr>
<td class="h" >
<a name="1716">1716</a>
</td>
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</td>
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<td class="s"> </td>
</tr>
<tr>
<td class="h" >
<a name="1717">1717</a>
</td>
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</td>
<td >
</td>
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</td>
<td class="s"> =head1 Author </td>
</tr>
<tr>
<td class="h" >
<a name="1718">1718</a>
</td>
<td >
</td>
<td >
</td>
<td >
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<td class="s"> </td>
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<tr>
<td class="h" >
<a name="1719">1719</a>
</td>
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</td>
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</td>
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</td>
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</td>
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</td>
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</td>
<td class="s"> L<Tree::Cladogram> was written by Ron Savage I<E<lt>ron@savage.net.auE<gt>> in 2015. </td>
</tr>
<tr>
<td class="h" >
<a name="1720">1720</a>
</td>
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</td>
<td class="s"> </td>
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<td class="h" >
<a name="1721">1721</a>
</td>
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</td>
<td >
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</td>
<td >
</td>
<td class="s"> My homepage: L<http://savage.net.au/> </td>
</tr>
<tr>
<td class="h" >
<a name="1722">1722</a>
</td>
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<td class="s"> </td>
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<td class="h" >
<a name="1723">1723</a>
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</td>
<td class="s"> =head1 Copyright </td>
</tr>
<tr>
<td class="h" >
<a name="1724">1724</a>
</td>
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</td>
<td >
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<td class="s"> </td>
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<tr>
<td class="h" >
<a name="1725">1725</a>
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</td>
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</td>
<td class="s"> Australian copyright (c) 2015, Ron Savage. </td>
</tr>
<tr>
<td class="h" >
<a name="1726">1726</a>
</td>
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<td class="s"> </td>
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<tr>
<td class="h" >
<a name="1727">1727</a>
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</td>
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</td>
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</td>
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</td>
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</td>
<td class="s"> All Programs of mine are 'OSI Certified Open Source Software'; </td>
</tr>
<tr>
<td class="h" >
<a name="1728">1728</a>
</td>
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</td>
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</td>
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</td>
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</td>
<td >
</td>
<td >
</td>
<td class="s"> you can redistribute them and/or modify them under the terms of </td>
</tr>
<tr>
<td class="h" >
<a name="1729">1729</a>
</td>
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</td>
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</td>
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</td>
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</td>
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</td>
<td class="s"> The Perl License, a copy of which is available at: </td>
</tr>
<tr>
<td class="h" >
<a name="1730">1730</a>
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</td>
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</td>
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</td>
<td class="s"> http://dev.perl.org/licenses/ </td>
</tr>
<tr>
<td class="h" >
<a name="1731">1731</a>
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<td class="h" >
<a name="1732">1732</a>
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<td class="s"> =cut </td>
</tr>
</table>
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