Class: Labimotion::ImportUtils

Inherits:
Object
  • Object
show all
Defined in:
lib/labimotion/utils/import_utils.rb

Overview

Import Utils

Class Method Summary collapse

Class Method Details

.create_segment_klass(sk_obj, segment_klass, element_klass, current_user_id) ⇒ Object 



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# File 'lib/labimotion/utils/import_utils.rb', line 93

def self.create_segment_klass(sk_obj, segment_klass, element_klass, current_user_id)
  return if segment_klass.present? || element_klass.nil? || sk_obj.nil?

  segment_klass = Labimotion::SegmentKlass.create!(sk_obj.slice(
      'label',
      'desc',
      'properties_template',
      'is_active',
      'place',
      'properties_release',
      'uuid',
      'identifier',
      'sync_time'
    ).merge(
      element_klass: element_klass,
      created_by: current_user_id,
      released_at: DateTime.now
    )
  )

  segment_klass
end

.proc_molecule(layer, key, data, properties) ⇒ Object 



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# File 'lib/labimotion/utils/import_utils.rb', line 25

def self.proc_molecule(layer, key, data, properties)
  field_molecules = layer['fields'].select { |ss| ss['type'] == 'drag_molecule' }
  field_molecules.each do |field|
    idx = properties['layers'][key]['fields'].index(field)
    id = field["value"] && field["value"]["el_id"] unless idx.nil?
    mol = Molecule.find_or_create_by_molfile(data.fetch('Molecule')[id]['molfile']) unless id.nil?
    unless mol.nil?
      properties['layers'][key]['fields'][idx]['value']['el_id'] = mol.id
      properties['layers'][key]['fields'][idx]['value']['el_tip'] = "#{mol.inchikey}@@#{mol.cano_smiles}"
      properties['layers'][key]['fields'][idx]['value']['el_label'] = mol.iupac_name
    end
  end
  properties
rescue StandardError => e
  Rails.logger.error(e.backtrace)
  raise
end

.proc_sample(layer, key, data, properties) ⇒ Object 



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# File 'lib/labimotion/utils/import_utils.rb', line 6

def self.proc_sample(layer, key, data, properties)
  field_samples = layer['fields'].select { |ss| ss['type'] == 'drag_sample' }
  field_samples.each do |field|
    idx = properties['layers'][key]['fields'].index(field)
    id = field["value"] && field["value"]["el_id"] unless idx.nil?

    # mol = Molecule.find_or_create_by_molfile(data.fetch('Molecule')[id]['molfile']) unless id.nil?
    # unless mol.nil?
    #   properties['layers'][key]['fields'][idx]['value']['el_id'] = mol.id
    #   properties['layers'][key]['fields'][idx]['value']['el_tip'] = "#{mol.inchikey}@@#{mol.cano_smiles}"
    #   properties['layers'][key]['fields'][idx]['value']['el_label'] = mol.iupac_name
    # end
  end
  properties
rescue StandardError => e
  Rails.logger.error(e.backtrace)
  raise
end

.proc_table(layer, key, data, properties) ⇒ Object 



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# File 'lib/labimotion/utils/import_utils.rb', line 43

def self.proc_table(layer, key, data, properties)
  field_tables = layer['fields'].select { |ss| ss['type'] == 'table' }
  field_tables&.each do |field|
    tidx = layer['fields'].index(field)
    next unless field['sub_values'].present? && field['sub_fields'].present?

    field_table_molecules = field['sub_fields'].select { |ss| ss['type'] == 'drag_molecule' }
    if field_table_molecules.present?
      col_ids = field_table_molecules.map { |x| x.values[0] }
      col_ids.each do |col_id|
        field['sub_values'].each_with_index do |sub_value, vdx|
          next unless sub_value[col_id].present? && sub_value[col_id]['value'].present? && sub_value[col_id]['value']['el_id'].present?

          svalue = sub_value[col_id]['value']
          next unless svalue['el_id'].present? && svalue['el_inchikey'].present?

          tmol = Molecule.find_or_create_by_molfile(data.fetch('Molecule')[svalue['el_id']]['molfile']) unless svalue['el_id'].nil?
          unless tmol.nil?
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_id'] = tmol.id
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_tip'] = "#{tmol.inchikey}@@#{tmol.cano_smiles}"
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_label'] = tmol.cano_smiles
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_smiles'] = tmol.cano_smiles
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_iupac'] = tmol.iupac_name
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_inchikey'] = tmol.inchikey
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_svg'] = File.join('/images', 'molecules', tmol.molecule_svg_file)
            properties['layers'][key]['fields'][tidx]['sub_values'][vdx][col_id]['value']['el_molecular_weight'] = tmol.molecular_weight
          end
        end
      end
    end
  end
  properties
rescue StandardError => e
  Rails.logger.error(e.backtrace)
  raise
end

.properties_handler(data, properties) ⇒ Object 



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# File 'lib/labimotion/utils/import_utils.rb', line 80

def self.properties_handler(data, properties)
  properties && properties['layers'] && properties['layers'].keys&.each do |key|
    layer = properties['layers'][key]
    properties = proc_molecule(layer, key, data, properties)
    properties = proc_table(layer, key, data, properties)
    # properties = proc_sample(layer, key, data, properties)
  end
  properties
rescue StandardError => e
  Rails.logger.error(e.backtrace)
  raise
end