Module: RubyPlot

Defined in:
lib/plot_lines.rb,
lib/plot_bars.rb,
lib/plot_points.rb

Overview

svg_roc_plot method - svg_roc_plot_method.rb

Copyright 2010 vorgrimmler <dv(a_t)fdm.uni-freiburg.de> This ruby method (svg_roc_plot) exports input data(from true-positive-rate and false-positive-rate arrays) to a *.svg file using gnuplot. Depending on the amount of input data is possible to create 1 to n curves in one plot. Gnuplot is needed. Please install befor using svg_roc_plot. “sudo apt-get install gnuplot” (on debian systems). Usage: See below.

Class Method Summary collapse

Class Method Details

.accuracy_confidence_plot(path, title, x_lable, y_lable, names, x_values, y_values, reverse_y = false) ⇒ Object

y_range=nil,



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# File 'lib/plot_points.rb', line 43

def self.accuracy_confidence_plot(path, title, x_lable, y_lable, names, x_values, y_values, reverse_y=false) #y_range=nil, 
  
  min = Float::MAX
  max = -Float::MAX
  (0..x_values.size-1).each do |i|
    min = [ min, y_values[i].min ].min
    max = [ max, y_values[i].max ].max
  end
  border = (max-min)*0.1
  min_border = min-border
  max_border = max+border
  y_range = min==max ? nil : [min_border, max_border]
  
  plot_points(path, title, x_lable, y_lable, names, x_values, y_values, false, nil, y_range, false, false, true, true, reverse_y)
end

.plot_bars(title = '', measures = [], algorithms = [], output_file = '') ⇒ Object 



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# File 'lib/plot_bars.rb', line 4

def self.plot_bars(title = '', measures = [], algorithms = [], output_file = '')
  
 #puts "'"+title+"',"+measures.inspect+","+algorithms.inspect+","
  
  measures = measures.collect{|m| m.gsub(/_/,'-')}
  
  Gnuplot.open do |gp|
    Gnuplot::Plot.new( gp ) do |plot|
      string = ''
      (1..measures.length).collect.each do |i|
        string += '"' + measures[i-1] + '" ' + i.to_s + ".00000 -1 "
      end

      if output_file=~/(?i)svg/
        plot.terminal 'svg size 800,600 dynamic enhanced fname "Arial" fsize 12 butt'
      elsif output_file=~/(?i)png/
        plot.terminal 'png'
      else
        raise "format not supported "+path.to_s
      end

      plot.output   output_file
      plot.bar    '1.000000'
      plot.boxwidth '0.9 absolute'
      plot.style    'fill  solid 1.00 border -1'
      plot.style    'rectangle back fc lt -3 fillstyle  solid 1.00 border -1'
      #plot.key    'outside right top vertical Right noreverse enhanced autotitles columnhead nobox'
      #plot.key "invert reverse Left outside"
      plot.key "below"
      
      plot.style    'histogram clustered gap 3 title  offset character 0, 0, 0'
#     plot.datafile 'missing "-"'
      plot.style    'data histograms'
      plot.xtics    'border in scale 1,0.5 nomirror  offset character 0, 0, 0'
      #plot.xtics    'norangelimit'
      plot.xtics    'rotate'
      #plot.xtics    string
      plot.title    title
      plot.rrange   '[ * : * ] noreverse nowriteback  # (currently [0.00000:10.0000])'
      plot.trange   '[ * : * ] noreverse nowriteback  # (currently [-5.00000:5.00000])'
      plot.urange   '[ * : * ] noreverse nowriteback  # (currently [-5.00000:5.00000])'
      plot.vrange   '[ * : * ] noreverse nowriteback  # (currently [-5.00000:5.00000])'
#     plot.ylabel   'offset character 0, 0, 0 font "" textcolor lt -1 rotate by 90'
#     plot.y2label  'offset character 0, 0, 0 font "" textcolor lt -1 rotate by 90'
      plot.yrange   '[ 0.00000 : 1.00000 ] noreverse nowriteback'                 #
      plot.cblabel  'offset character 0, 0, 0 font "" textcolor lt -1 rotate by 90'
      plot.locale   '"C"'
     
      

      algorithms.each do |algorithm|
        plot.data << Gnuplot::DataSet.new([ ["A"].concat(measures), algorithm ]) do |ds|
          ds.using = "2:xtic(1) ti col"
        end
      end
    end
  end
  LOGGER.info "plotted "+output_file.to_s
end

.plot_lines(path, title, x_lable, y_lable, names, x_values, y_values, faint = nil, labels = nil) ⇒ Object 



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# File 'lib/plot_lines.rb', line 11

def self.plot_lines(path, title, x_lable, y_lable, names, x_values, y_values, faint=nil, labels=nil)
  
  LOGGER.debug "plot lines -- "+names.inspect
  LOGGER.debug "plot lines -- "+x_values.inspect
  LOGGER.debug "plot lines -- "+y_values.inspect
  LOGGER.debug "plot lines -- "+labels.inspect
  
  data = []
  (0..x_values.size-1).each do |i|
    data << y_values[i]
    data << x_values[i]
  end
  
  #Main
  STDOUT.sync = true
  # -----------------------------------------------------
  # checking input
  # -----------------------------------------------------
  # check parameters
  status=false
  LOGGER.debug "#{names.length} algs entered"
  
  #LOGGER.debug names.inspect
  #LOGGER.debug data.inspect
  
  if names.length != data.length/2
      status=true
  end
  
  if status
    raise "Usage: svg_roc_plot (path(?), title(string), x-lable(string), y-lable(sting), algorithms(array), true_pos_data1(array), false_pos_data1(array), ...,  true_pos_data_n(array), false_pos_data_n(array))\n"+
          "       Only pairs of data are allowed but at least one.\n"+
          "       Each data array has to provide one float/int number from 0 to 100 per entry."
  end
  
  # gnuplot check
  gnuplot=`which gnuplot | grep -o gnuplot`
  if gnuplot == "gnuplot\n"
    LOGGER.debug "Gnuplot is already installed."
  else
    raise "Please install gnuplot.\n"+
          "sudo apt-get install gnuplot"
  end
  
  dat_number=0
  
  output_dat_arr = Array.new
  
  
  # -----------------------------------------------------
  # create *.dat files of imported data for gnuplot
  # -----------------------------------------------------
  # write true/false arrays to one array
  for i in 0..names.length-1#/2-1
    true_pos_arr = data[i*2]
    false_pos_arr = data[i*2+1]
    #check length of input files
    if true_pos_arr.length == false_pos_arr.length
      #LOGGER.debug "Same length!"
      for j in 0..true_pos_arr.length-1
        #check if array entries are float format and between 0.0 and 100.0
        if numeric?(true_pos_arr[j].to_s.tr(',', '.')) && true_pos_arr[j].to_s.tr(',', '.').to_f <= 100 && true_pos_arr[j].to_s.tr(',', '.').to_f >= 0
          if  numeric?(false_pos_arr[j].to_s.tr(',', '.')) && false_pos_arr[j].to_s.tr(',', '.').to_f <= 100 && false_pos_arr[j].to_s.tr(',', '.').to_f >= 0
            output_dat_arr[j] = "#{true_pos_arr[j]} #{false_pos_arr[j]}"
          else
            raise "The data of #{names[i]}  has not the right formatin at position #{j}\n"+
                  "The right format is one float/int from 0 to 100 each line (e.g. '0'; '23,34'; '65.87' or '99')"
          end
        else
          raise "The data of #{names[i]}  has not the right formatin at position #{j}+\n"
                 "The right format is one float/int from 0 to 100 each line (e.g. '0'; '23,34'; '65.87' or '99')"
        end
      end
      #-----------------------------------------------------
      #write *.dat files
      #-----------------------------------------------------
      #write output_dat_arr content in new *.dat file
      File.open( "data#{i}.dat", "w" ) do |the_file|
          the_file.puts output_dat_arr
      end
      LOGGER.debug "data#{i}.dat created."
      output_dat_arr.clear
          
    else
      raise "Data pair of #{names[i]} have no the same number of elements."
    end
  end
  
  # -----------------------------------------------------
  # create *.plt file for gnuplot
  # -----------------------------------------------------
  # 
  output_plt_arr = Array.new
  output_plt_arr.push "# Specifies encoding and output format"
  output_plt_arr.push "set encoding default"
  #output_plt_arr.push "set terminal svg"
  if path=~/(?i)svg/
    output_plt_arr.push 'set terminal svg size 800,600 dynamic enhanced fname "Arial" fsize 12 butt'
  elsif path=~/(?i)png/
    output_plt_arr.push 'set terminal png'
  else
    raise "format not supported "+path.to_s
  end
  output_plt_arr.push "set output '#{path}'"
  output_plt_arr.push ""
  output_plt_arr.push "# Specifies the range of the axes and appearance"
  
  # x and y have equal scale
  output_plt_arr.push 'set size ratio -1'
  
  output_plt_arr.push "set xrange [0:100]"
  output_plt_arr.push "set yrange [0:100]"
  output_plt_arr.push "set grid lw 0.5"
  output_plt_arr.push "set title \"#{title}\""
  output_plt_arr.push "set key below"
  #output_plt_arr.push "set key invert reverse Left outside"
  output_plt_arr.push "set xlabel \"#{x_lable}\""
  output_plt_arr.push "set ylabel \"#{y_lable}\""
  output_plt_arr.push "set arrow from 0,0 to 100,100 nohead lt 0"
  output_plt_arr.push ""
  output_plt_arr.push ""
  output_plt_arr.push ""
  output_plt_arr.push ""
  output_plt_arr.push "# Draws the plot and specifies its appearance ..."
  
  if labels!=nil
    type = 1
    labels.each do |label|
      if label!=nil
        l = label[0]
        x = label[1]
        y = label[2]
        puts l.to_s+" "+x.to_s+" "+y.to_s
        #output_plt_arr.push "set label \"("+x.to_s+","+y.to_s+") "+l.to_s+"\" at first 25, first 40"
        output_plt_arr.push "set label \""+l.to_s+"\" at first "+x.to_s+", first "+y.to_s+" front offset 1,-1 tc lt "+type.to_s
        output_plt_arr.push "set arrow from "+(x+3).to_s+","+(y-3).to_s+" to "+(x+1).to_s+","+(y-1).to_s+" lt "+type.to_s
      end
      type += 1
    end
  end
  
  output_plt_arr.push "plot \\"#'random_0.dat' using 1:2 title 'random' with lines lw 1, \\"
  i = 0
  for i in 0..names.length-1
    
    #style = grey[i] ? "lw 1.5 lt 0" : "lw 3" 
    style = faint!=nil && faint[i] ? "lw 2" : "lw 4"
    
    if i == names.length-1
      output_plt_arr.push " 'data#{i}.dat'  using 2:1 title '#{names[i]}' with lines #{style}"
    else
      output_plt_arr.push " 'data#{i}.dat'  using 2:1 title '#{names[i]}' with lines #{style}, \\"
    end
  end
  output_plt_arr.push ""
  output_plt_arr.push ""
  
  # -----------------------------------------------------
  # write *.plt files
  # -----------------------------------------------------
  # write output_dat_arr content in new *.dat file
  File.open( "config.plt", "w" ) do |the_file|
    the_file.puts output_plt_arr
  end
  LOGGER.debug "config.plt created, running gnuplot"
  
  # start gnuplot with created *.plt file
  cmd = "gnuplot config.plt 2>&1"
  response = ""
  IO.popen(cmd) do |f| 
    while line = f.gets
      response += line
    end
  end
  raise "gnuplot failes (cmd: "+cmd.to_s+", out: "+response.to_s+")" unless $?==0
  
  LOGGER.debug "#{path} created. "
  
  # -----------------------------------------------------
  # remove *.plt and *.dat files
  # -----------------------------------------------------
  `rm config.plt`
  LOGGER.debug "config.plt removed."
  for i in 0..names.length-1
    `rm data#{i}.dat`
    LOGGER.debug "data#{i}.dat removed."
  end
end

.plot_points(path, title, x_lable, y_lable, names, x_values, y_values, log = true, x_range = nil, y_range = nil, quadratic_scale = true, draw_diagonale = true, line_points = false, reverse_x = false, reverse_y = false) ⇒ Object 



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# File 'lib/plot_points.rb', line 59

def self.plot_points(path, title, x_lable, y_lable, names, x_values, y_values, 
  log=true, x_range=nil, y_range=nil, quadratic_scale=true, draw_diagonale=true, line_points=false, reverse_x=false, reverse_y=false)
  
  LOGGER.debug "ruby-plot: names   "+names.inspect
  LOGGER.debug "ruby-plot: x       "+x_values.inspect
  LOGGER.debug "ruby-plot: y       "+y_values.inspect
  LOGGER.debug "ruby-plot: y_range "+y_range.inspect
  
  data = []
  (0..x_values.size-1).each do |i|
    data << y_values[i]
    data << x_values[i]
  end
  
  #Main
  STDOUT.sync = true
  # -----------------------------------------------------
  # checking input
  # -----------------------------------------------------
  # check parameters
  status=false
  LOGGER.debug "#{names.length} algs entered"
  
  #LOGGER.debug names.inspect
  #LOGGER.debug data.inspect
  
  if names.length != data.length/2
      status=true
  end
  
  if status
    raise "Usage: svg_roc_plot (path(?), title(string), x-lable(string), y-lable(sting), algorithms(array), true_pos_data1(array), false_pos_data1(array), ...,  true_pos_data_n(array), false_pos_data_n(array))\n"+
          "       Only pairs of data are allowed but at least one.\n"+
          "       Each data array has to provide one float/int number from 0 to 100 per entry."
  end
  
  # gnuplot check
  gnuplot=`which gnuplot | grep -o gnuplot`
  if gnuplot == "gnuplot\n"
    LOGGER.debug "Gnuplot is already installed."
  else
    raise "Please install gnuplot.\n"+
          "sudo apt-get install gnuplot"
  end
  
  dat_number=0
  
  output_dat_arr = Array.new
  
  
  # -----------------------------------------------------
  # create *.dat files of imported data for gnuplot
  # -----------------------------------------------------
  # write true/false arrays to one array
  for i in 0..names.length-1#/2-1
    true_pos_arr = data[i*2]
    false_pos_arr = data[i*2+1]
    #check length of input files
    if true_pos_arr.length == false_pos_arr.length
      #LOGGER.debug "Same length!"
      for j in 0..true_pos_arr.length-1
        #check if array entries are float format and between 0.0 and 100.0
        #if numeric?(true_pos_arr[j].to_s.tr(',', '.')) && true_pos_arr[j].to_s.tr(',', '.').to_f <= 100 && true_pos_arr[j].to_s.tr(',', '.').to_f >= 0
        #  if  numeric?(false_pos_arr[j].to_s.tr(',', '.')) && false_pos_arr[j].to_s.tr(',', '.').to_f <= 100 && false_pos_arr[j].to_s.tr(',', '.').to_f >= 0
            output_dat_arr[j] = "#{true_pos_arr[j]} #{false_pos_arr[j]}"
        #  else
        #    raise "The data of #{names[i]}  has not the right formatin at position #{j}\n"+
        #          "The right format is one float/int from 0 to 100 each line (e.g. '0'; '23,34'; '65.87' or '99')"
        #  end
        #else
        #  raise "The data of #{names[i]}  has not the right formatin at position #{j}+\n"
        #         "The right format is one float/int from 0 to 100 each line (e.g. '0'; '23,34'; '65.87' or '99')"
        #end
      end
      #-----------------------------------------------------
      #write *.dat files
      #-----------------------------------------------------
      #write output_dat_arr content in new *.dat file
      File.open( "data#{i}.dat", "w" ) do |the_file|
          the_file.puts output_dat_arr
      end
      LOGGER.debug "data#{i}.dat created."
      output_dat_arr.clear
          
    else
      raise "Data pair of #{names[i]} have no the same number of elements."
    end
  end
  
  # -----------------------------------------------------
  # create *.plt file for gnuplot
  # -----------------------------------------------------
  # 
  output_plt_arr = Array.new
  output_plt_arr.push "# Specifies encoding and output format"
  output_plt_arr.push "set encoding default"
  
  if path=~/(?i)svg/
    output_plt_arr.push 'set terminal svg size 800,600 dynamic enhanced fname "Arial" fsize 12 butt'
  elsif path=~/(?i)png/
    output_plt_arr.push 'set terminal png'
  else
    raise "format not supported "+path.to_s
  end
  
  if log
    output_plt_arr.push 'set logscale x'
    output_plt_arr.push 'set logscale y'
  end
  
  output_plt_arr.push "set output '#{path}'"
  output_plt_arr.push ""
  output_plt_arr.push "# Specifies the range of the axes and appearance"
  
  x_range_s = x_range ? "["+x_range[0].to_s+":"+x_range[1].to_s+"]" : "[]"
  y_range_s = y_range ? "["+y_range[0].to_s+":"+y_range[1].to_s+"]" : "[]"
  reverse_x_s = reverse_x ? "reverse" : ""
  reverse_y_s = reverse_y ? "reverse" : ""
  output_plt_arr.push "set xrange "+x_range_s+" "+reverse_x_s
  output_plt_arr.push "set yrange "+y_range_s+" "+reverse_y_s
  
  output_plt_arr.push 'set size ratio -1' if quadratic_scale
  output_plt_arr.push "set arrow from "+x_range[0].to_s+","+y_range[0].to_s+" to "+x_range[1].to_s+","+y_range[1].to_s+" nohead lt 0" if draw_diagonale
  
  output_plt_arr.push "set grid lw 0.5"
  output_plt_arr.push "set title \"#{title}\""
  output_plt_arr.push "set key below"
  output_plt_arr.push "set xlabel \"#{x_lable}\""
  output_plt_arr.push "set ylabel \"#{y_lable}\""
  
  
  output_plt_arr.push ""
  output_plt_arr.push ""
  output_plt_arr.push ""
  output_plt_arr.push ""
  output_plt_arr.push "# Draws the plot and specifies its appearance ..."
  
  output_plt_arr.push "plot \\"#'random_0.dat' using 1:2 title 'random' with lines lw 1, \\"
  
  style = "points"
  if line_points
    style = "lp"
  end
  
  i = 0
  for i in 0..names.length-1
    if i == names.length-1
      output_plt_arr.push " 'data#{i}.dat'  using 2:1 title '#{names[i]}' with "+style.to_s
    else
      output_plt_arr.push " 'data#{i}.dat'  using 2:1 title '#{names[i]}' with "+style.to_s+", \\"
    end
  end
  output_plt_arr.push ""
  output_plt_arr.push ""
  
  
  #output_plt_arr << "plot f(x)"
  
  # -----------------------------------------------------
  # write *.plt files
  # -----------------------------------------------------
  # write output_dat_arr content in new *.dat file
  File.open( "config.plt", "w" ) do |the_file|
    the_file.puts output_plt_arr
  end
  LOGGER.debug "config.plt created, running gnuplot"
  
  # start gnuplot with created *.plt file
  cmd = "gnuplot config.plt 2>&1"
  response = ""
  IO.popen(cmd) do |f| 
    while line = f.gets
      response += line
    end
  end
  raise "gnuplot failes (cmd: "+cmd.to_s+", out: "+response.to_s+")" unless $?==0
  
  LOGGER.debug "#{path} created. "
  
  # -----------------------------------------------------
  # remove *.plt and *.dat files
  # -----------------------------------------------------
  `rm config.plt`
  LOGGER.debug "config.plt removed."
  for i in 0..names.length-1
    `rm data#{i}.dat`
    LOGGER.debug "data#{i}.dat removed."
  end
end

.regression_point_plot(path, title, x_lable, y_lable, names, x_values, y_values, log = true) ⇒ Object

, quadratic_scale=true, line_points=false, reverse_x=false)



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# File 'lib/plot_points.rb', line 11

def self.regression_point_plot(path, title, x_lable, y_lable, names, x_values, y_values, log=true) #, quadratic_scale=true, line_points=false, reverse_x=false)
  
  min = Float::MAX
  max = -Float::MAX
  (0..x_values.size-1).each do |i|
    min = [ min, x_values[i].min, y_values[i].min ].min
    max = [ max, x_values[i].max, y_values[i].max ].max
  end
  
  if log && min<=0
    LOGGER.warn "cannot use logscale for <=0 data"
    log = false
  end
  
  border = (max-min)*0.1
  if log
    min_border = min-border/10.0
    while min_border<=0
      border /= 2
      min_border = min-border/10.0
    end
    max_border = max+border
  else
    min_border = min-border
    max_border = max+border
  end
  x_range = min==max ? nil : [min_border, max_border]
  y_range = min==max ? nil : [min_border, max_border]
  
  plot_points(path, title, x_lable, y_lable, names, x_values, y_values, log, x_range, y_range, true, true, false, false, false)      
end

.test_plot_bars ⇒ Object 



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# File 'lib/plot_bars.rb', line 64

def self.test_plot_bars
  x = ['ACC_with_very_long_name_consider_that', 'AUC', 'SPEC', 'SENS']
  data = [['Alg1', 1.00, 1.00, 1.00, 1.00], ['Alg2', 0.75, 0.75, 0.75, 0.75], ['Alg3', 0.50, 0.50, 0.50, 0.50]]
  plot_bars('Vergleich der Algorithmen', x, data, '/tmp/hist.svg')
  
  x = ['ACC_with_very_long_name_consider_that', 'AUC', 'SPEC', 'SENS']
  data = [['Alg1', 1.00, 1.00, 1.00, 1.00], ['Alg2', 0.75, 0.75, 0.75, 0.75], ['Alg3', 0.50, 0.50, 0.50, 0.50]]
  plot_bars('Vergleich der Algorithmen', x, data, '/tmp/hist.png')
end

.test_plot_lines ⇒ Object 



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# File 'lib/plot_lines.rb', line 200

def self.test_plot_lines
  #plot_lines("/tmp/result.svg" , "name of title", "x-values", "y-values", ["name", "test", "bla"], [[20,60,80], [10,25,70,95], [12,78,99]], [[15,50,90],[20,40,50,70],[34,89,89]],[true,false,true])
  
  plot_lines("/tmp/result.png" , "name of title", "x-values", "y-values", ["name", "test", "bla"], [[20,60,80], [10,25,70,95], [12,78,99]], [[15,50,90],[20,40,50,70],[34,89,89]],[true,false,true],[nil,["confidence",25,40]])
end

.test_plot_points ⇒ Object 



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# File 'lib/plot_points.rb', line 249

def self.test_plot_points
  regression_point_plot("/tmp/regression.png" , "name of title", "x-values", "y-values", ["this-one-has-a-very-very-very-long-name", "test" ], 
    [[0.20,0.60,0.80,0.20,1.0,0.001], [0.10,0.25,0.70,0.95,0.2,0.3434]], 
    [[0.15,0.50,0.90,0.2,9,0.5],[0.20,0.40,0.50,0.70,0.3,0.234589]])
    
  accuracy_confidence_plot("/tmp/accuracy-conf.png" , "name of title", "x-values", "y-values", ["test" ], 
    [[0.9,0.5,0.3,0.1]],
    [[100,90,70,30]])
end