Class: Ulla::JoyTem

Inherits:
Object
  • Object
show all
Defined in:
lib/ulla/joy_tem.rb

Instance Attribute Summary collapse

Instance Method Summary collapse

Constructor Details

#initialize(file) ⇒ JoyTem

Returns a new instance of JoyTem.



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# File 'lib/ulla/joy_tem.rb', line 6

def initialize(file)
  @file     = file
  io        = File.exist?(file) ? File.open(file, 'r') : StringIO.new(file)
  @entries  = {}
  ent_code  = nil
  ent_desc  = nil
  ent_data  = nil
  parse_tag = nil

  io.each_with_index do |line, li|
    line.chomp!
    if    line =~ /^#/ || line =~ /^\s*$/
      next
    elsif line =~ /^>\S+;(\S+)/
      parse_tag = :desc
      ent_code  = $1
      @entries[ent_code] = {} unless @entries.has_key?(ent_code)
    elsif line =~ /^(\S+.*)/ && parse_tag == :desc
      parse_tag = :data
      ent_desc  = $1.strip
      @entries[ent_code][ent_desc]  = ''
    elsif line =~ /^\s*(\S+.*)/ && parse_tag == :data
      ent_data = $1.strip.gsub('*', '')
      @entries[ent_code][ent_desc] += ent_data
    else
      $logger.error "Cannot parse line #{li+1}: #{line}"
      exit 1
    end
  end
end

Instance Attribute Details

#entries ⇒ Object (readonly)

Returns the value of attribute entries.



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# File 'lib/ulla/joy_tem.rb', line 4

def entries
  @entries
end

#file ⇒ Object (readonly)

Returns the value of attribute file.



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# File 'lib/ulla/joy_tem.rb', line 4

def file
  @file
end

Instance Method Details

#alignment_length ⇒ Object 



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# File 'lib/ulla/joy_tem.rb', line 45

def alignment_length
  @entries[entry_codes[0]][entry_descriptions[0]].length
end

#entry_codes ⇒ Object 



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# File 'lib/ulla/joy_tem.rb', line 37

def entry_codes
  @entries.keys
end

#entry_descriptions ⇒ Object 



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# File 'lib/ulla/joy_tem.rb', line 41

def entry_descriptions
  @entries[entry_codes[0]].keys
end

#sequences ⇒ Object 



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# File 'lib/ulla/joy_tem.rb', line 49

def sequences
  seqs = []
  @entries.keys.each do |code|
    if @entries[code].has_key?('sequence')
      seqs << Sequence.new(@entries[code]['sequence'], code)
    else
      $logger.error "Cannot find 'sequence' data for #{code} in JOY template: #{@file}"
      exit 1
    end
  end
  seqs
end