Module: ParseUtil

Defined in:
lib/oddb2xml/parse_compositions.rb

Overview

This file is shared since oddb2xml 2.0.0 (lib/oddb2xml/parse_compositions.rb) with oddb.org src/plugin/parse_compositions.rb

It allows an easy parsing of the column P Zusammensetzung of the swissmedic packages.xlsx file

Defined Under Namespace

Classes: ParseComposition, ParseSubstance

Constant Summary collapse

SCALE_P = 
%r{pro\s+(?<scale>(?<qty>[\d.,]+)\s*(?<unit>[kcmuµn]?[glh]))}u

Class Method Summary collapse

Class Method Details

.capitalize(string) ⇒ Object 



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# File 'lib/oddb2xml/parse_compositions.rb', line 13

def ParseUtil.capitalize(string)
  string.split(/\s+/u).collect { |word| word.capitalize }.join(' ')
end

.dose_to_qty_unit(string, filler = nil) ⇒ Object 



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# File 'lib/oddb2xml/parse_compositions.rb', line 17

def ParseUtil.dose_to_qty_unit(string, filler=nil)
  return nil unless string
  dose = string.split(/\b\s*(?![.,\d\-]|Mio\.?)/u, 2)
  if dose && (scale = SCALE_P.match(filler)) && dose[1] && !dose[1].include?('/')
    unit = dose[1] << '/'
    num = scale[:qty].to_f
    if num <= 1
      unit << scale[:unit]
    else
      unit << scale[:scale]
    end
    dose[1] = unit
  elsif dose and dose.size == 2
    unit = dose[1]
  end
  dose
end

.parse_compositions(composition, active_agents_string = '') ⇒ Object 



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# File 'lib/oddb2xml/parse_compositions.rb', line 35

def ParseUtil.parse_compositions(composition, active_agents_string = '')
  rep_1 = '----';   to_1 = '('
  rep_2 = '-----';  to_2 = ')'
  rep_3 = '------'; to_3 = ','
  active_agents = active_agents_string ? active_agents_string.downcase.split(/,\s+/) : []
  comps = []
  label_pattern = /^(?<label>A|I|B|II|C|III|D|IV|E|V|F|VI)(\):|\))\s*(?<description>[^:]+)/
  composition_text = composition.gsub(/\r\n?/u, "\n")
  puts "composition_text for #{name}: #{composition_text}" if composition_text.split(/\n/u).size > 1 and $VERBOSE
  lines = composition_text.split(/\n/u)
  idx = 0
  compositions = lines.select do |line|
    if match = label_pattern.match(line)
      label = match[:label]
      label_description = match[:description]
    else
      label = nil
      label_description = nil
    end
    idx += 1
    next if idx > 1 and /^(?<label>A|I|B|II|C|III|D|IV|E|V|F|VI)[)]\s*(et)/.match(line) # avoid lines like 'I) et II)'
    next if idx > 1 and /^Corresp\./i.match(line) # avoid lines like 'Corresp. mineralia: '
    substances = []
    filler = line.split(',')[-1].sub(/\.$/, '')
    filler_match = /^(?<name>[^,\d]+)\s*(?<dose>[\d\-.]+(\s*(?:(Mio\.?\s*)?(U\.\s*Ph\.\s*Eur\.|[^\s,]+))))/.match(filler)
    components = line.gsub(/(\d),(\d+)/, "\\1.\\2").split(/([^\(]+\([^)]+\)[^,]+|),/).each {
      |component|
      next unless component.size > 0
      next if /^ratio:/i.match(component.strip)
      to_consider = component.strip.split(':')[-1].gsub(to_1, rep_1).gsub(to_2, rep_2).gsub(to_3, rep_3) # remove label
      # very ugly hack to ignore ,()
      ptrn1 = /^(?<name>.+)(\s+|$)(?<dose>[\d\-.]+(\s*(?:(Mio\.?\s*)?(U\.\s*Ph\.\s*Eur\.|[^\s,]+))))/
      m =  /^(?<name>.+)(\s+|$)/.match(to_consider)
      m_with_dose = ptrn1.match(to_consider)
      m = m_with_dose if m_with_dose
      if m2 = /^(|[^:]+:\s)(E\s+\d+)$/.match(component.strip)
        to_add = ParseSubstance.new(m2[2], '', nil, nil, nil, nil, active_agents.index(m2[2].downcase) ? true : false)
        substances << to_add
      elsif m
        ptrn = /(?<name>.+)\s+(?<dose>[\d\-.]+(\s*(?:(Mio\.?\s*)?(U\.\s*Ph\.\s*Eur\.|[^\s,]+))))(\s*(?:ut|corresp\.?)\s+(?<chemical>[^\d,]+)\s*(?<cdose>[\d\-.]+(\s*(?:(Mio\.?\s*)?(U\.\s*Ph\.\s*Eur\.|[^\s,]+))(\s*[mv]\/[mv])?))?)/
        m_with_chemical = ptrn.match(to_consider)
        m = m_with_chemical if m_with_chemical
        name      = m[:name].strip
        chemical  = m_with_chemical ? m[:chemical] : nil
        cdose     = m_with_chemical ? m[:cdose] : nil
        dose      = m_with_dose     ? m[:dose]  : nil
        if m_with_chemical and active_agents.index(m_with_chemical[:chemical].strip)
          is_active_agent = true
          name            = m[:chemical].strip
          dose            = m[:cdose]
          chemical        = m[:name].strip
          cdose           = m[:dose]
        else
          is_active_agent =  active_agents.index(m[:name].strip) != nil
        end
        unit = nil
        name = name.gsub(rep_3, to_3).gsub(rep_2, to_2).gsub(rep_1, to_1)
        emulsion_pattern = /\s+pro($|\s+)|emulsion|solution/i
        next if emulsion_pattern.match(name)
        name = name.split(/\s/).collect{ |x| x.capitalize }.join(' ').strip
        chemical = chemical.split(/\s/).collect{ |x| x.capitalize }.join(' ').strip if chemical
        qty,  unit  = ParseUtil.dose_to_qty_unit(dose, filler)
        cqty, cunit = ParseUtil.dose_to_qty_unit(cdose, filler)
        dose = "#{qty} #{unit}" if unit and unit.match(/\//)
        substances << ParseSubstance.new(name, qty, unit, chemical, cqty, cunit, is_active_agent, dose, cdose)
      end
    }
    comps << ParseComposition.new(line, label, label_description, substances) if substances.size > 0
  end
  comps
end