Class: GeneValidator::JsonToGVResults

Inherits:
Object
  • Object
show all
Extended by:
Forwardable
Defined in:
lib/genevalidator/json_to_gv_results.rb

Overview

produce GV results from a JSON previously produced from GV

Class Method Summary collapse

Class Method Details

.init(opt) ⇒ Object 



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# File 'lib/genevalidator/json_to_gv_results.rb', line 14

def init(opt)
  GeneValidator.opt = opt
  GeneValidator.config = { output_max: 2500, run_no: 0,
                           json_output: load_json_file }
  GeneValidator.dirs = GeneValidator.setup_dirnames(opt[:json_file])
end

.print_console_header(first_row) ⇒ Object 



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# File 'lib/genevalidator/json_to_gv_results.rb', line 31

def print_console_header(first_row)
  return unless opt[:output_formats].include? 'stdout'
  return if config[:console_header_printed]
  config[:console_header_printed] = true
  warn '' # blank line
  c_fmt = "%3s\t%5s\t%20s\t%7s\t"
  print format(c_fmt, 'No', 'Score', 'Identifier', 'No_Hits')
  puts first_row[:validations].keys.join("\t")
end

.print_output_console(row) ⇒ Object 



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# File 'lib/genevalidator/json_to_gv_results.rb', line 41

def print_output_console(row)
return unless opt[:output_formats].include? 'stdout'
c_fmt = "%3s\t%5s\t%20s\t%7s\t"
short_def = row[:definition].split(' ')[0]
print format(c_fmt, row[:idx], row[:overall_score], short_def,
  row[:no_hits])
  puts row[:validations].values.map { |e| e[:print] }.join("\t")
  .gsub(' ', ' ')
end

.run ⇒ Object 



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# File 'lib/genevalidator/json_to_gv_results.rb', line 21

def run
  warn '==> Parsing input JSON results'
  print_console_header(config[:json_output][0])
  config[:json_output].each do |row|
    print_output_console(row)
    create_row_json_plot_files(row)
  end
  GeneValidator.produce_output
end