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48 lines
1.1 KiB
Ruby
48 lines
1.1 KiB
Ruby
#! /usr/bin/ruby
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#/usr/bin/env ruby
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tree = gets.strip.gsub( /_.*?:/, ":" ).gsub(/:0,/, ":0.00,").gsub(/:0\)/, ":0.00\)").gsub(/[0-9]\.[0-9]*e-[0-9]*/, "0.0").gsub(/[0-9]*e-[0-9]*/, "0.0")
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# Buggy line:
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#tree = gets.strip.gsub( /_.*?:/, ":" ).gsub(/:0,/, ":0.00,").gsub(/:0\)/, ":0.00\)").gsub(/[0-9]\.[0-9]*e-[0-9][0-9]/, "0.0")
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#puts "tree = " + tree
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memi = [-1,-1]
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leni = [-1,-1]
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c = 0
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while tree.index( /\(/ )
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tree.sub!( /\(([0-9]*?):(\-?[0-9]*?\.[0-9]*?),([0-9]*?):(\-?[0-9]*?\.[0-9]*?)\)/, "XXX" )
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memi[0] = $1.to_i
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leni[0] = $2.to_f
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memi[1] = $3.to_i
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leni[1] = $4.to_f
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if leni[0] > 3 || leni[1] > 3 then
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STDERR.puts "Please check the scale of branch length!"
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STDERR.puts "1PAM must be 0.01, not 1"
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# exit 1
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end
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# puts "subtree = " + $&
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if memi[1] < memi[0] then
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memi.reverse!
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leni.reverse!
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end
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tree.sub!( /XXX/, memi[0].to_s )
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# puts "tree = " + tree
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c = c+1
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printf( "%5d %5d %10.5f %10.5f\n", memi[0], memi[1], leni[0], leni[1] )
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if c > 1000000 then
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print( "Endless loop bug!!! printed > 1000000 lines\n" )
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exit 1
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end
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end
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