File interactive_key.rb has 439 lines of code (exceeds 250 allowed). Consider refactoring.

Open

class Tools::InteractiveKey

  ##### FILTER PARAMETERS #####

  # @!observation_matrix_id

Method has too many lines. [65/25]

Open

  def self.add_original_combination(t, csv, origin_citation, name_remarks_vocab_id, project_members)
    e = t.original_combination_elements

    infraspecific_element = t.original_combination_infraspecific_element(e, remove_sic: true)

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

Method bibtex_from_citproc has a Cognitive Complexity of 41 (exceeds 5 allowed). Consider refactoring.

Open

    def self.bibtex_from_citproc(c, b)
      return nil unless c.present? && b.present?
      c = JSON.parse(c)

      b[:address] = ::Utilities::Strings.encode_with_utf8(c['address']) unless c['address'].blank?

• Read up
  Read up

Method has too many lines. [64/25]

Open

    def build_sequences
      @total_data_lines = 0;

      sequences = {}
      sequence_values = {}

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

Method has too many lines. [64/25]

Open

  def self.generate(otus, project_members, root_otu_id = nil, reference_csv = nil, prefer_unlabelled_otus: true)

    # Until we have RC5 articulations we are simplifying handling the fact
    # that one taxon name can be used for many OTUs. Track to see that
    # an OTU with a given taxon name does not already exist

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

Method get_diffs has a Cognitive Complexity of 40 (exceeds 5 allowed). Consider refactoring.

Open

  def get_diffs version_new, version_old
    added_strings = []
    added_strings_indices = []
    deleted_strings = []
    deleted_strings_indices = []

• Read up
  Read up

Method build_da_for_otus has a Cognitive Complexity of 40 (exceeds 5 allowed). Consider refactoring.

Open

    def build_da_for_otus
      @total_data_lines = 0
      i = 0
      import_klass = type_select.start_with?('im')
      att_klass = (type_select.capitalize + 'Attribute').safe_constantize

• Read up
  Read up

Function useGraph has a Cognitive Complexity of 39 (exceeds 5 allowed). Consider refactoring.

Open

export function useGraph() {
  const state = reactive(initState())

  const nodes = computed(() =>
    Object.fromEntries(

• Read up
  Read up

Class OtusController has 42 methods (exceeds 20 allowed). Consider refactoring.

Open

class OtusController < ApplicationController
  include DataControllerConfiguration::ProjectDataControllerConfiguration

  before_action :set_otu, only: [
    :show, :edit, :update, :destroy, :collection_objects, :navigation,

Method has too many lines. [59/25]

Open

  def using_isbn_class
    unless identifier.nil?
      isbn = identifier.upcase
      # 'ISBN-13: 978-0-596-52068-7'
      isbn.gsub!('ISBN-10', '')

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

Method has too many lines. [59/25]

Open

  def all_sub_headers(filtered = false)
    unless filtered
      ce_headers # generate the header structure (see CollectionObject.selected_column_names)
      co_headers
      bc_headers

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

File collection_objects_controller.rb has 401 lines of code (exceeds 250 allowed). Consider refactoring.

Open

class CollectionObjectsController < ApplicationController
  include DataControllerConfiguration::ProjectDataControllerConfiguration

  before_action :set_collection_object, only: [
    :show, :edit, :update, :destroy, :navigation, :containerize,

Method get_otu_contents has 138 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  def get_otu_contents(options = {})
    opt = {otus: []}.merge!(options)
    m = opt[:observation_matrix]

    otus = Otu.select('otus.*, observation_matrix_rows.id AS row_id').

File filter.rb has 396 lines of code (exceeds 250 allowed). Consider refactoring.

Open

module Queries

  # Overview
  #
  # This class manages params and nesting of filter queries.

File useFieldSync.js has 393 lines of code (exceeds 250 allowed). Consider refactoring.

Open

import { onBeforeMount, ref, computed, watch } from 'vue'
import { Metadata, DataAttribute } from '@/routes/endpoints'
import { DATA_ATTRIBUTE_INTERNAL_ATTRIBUTE } from '@/constants'
import { QUERY_PARAMETER, PATTERN_TYPES } from '../constants'
import {

Method has too many lines. [57/25]

Open

  def data_models
    allowed= %w{
      AlternateValue
      BiologicalAssociationsGraph
      BiologicalRelationship

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

Function init has 133 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  init: function() {
  var
      animationTime = 250;

  function showAll() {

File useGraph.js has 388 lines of code (exceeds 250 allowed). Consider refactoring.

Open

import { reactive, computed, toRefs } from 'vue'
import {
  BiologicalAssociation,
  BiologicalAssociationGraph,
  Citation

Method has too many lines. [56/25]

Open

  def self.gpx_to_csv(gpx_file, csv_options = {col_sep: "\t", headers: true, encoding: 'UTF-8', write_headers: true})
    gpx_headers = %w(name geojson start_date end_date minimum_elevation maximum_elevation)

    csv_string = CSV.generate(**csv_options) do |csv|
      csv << gpx_headers

• Read up
  Read up
• Exclude checks
  • Disable engine
  • Disable check

Class Autocomplete has 39 methods (exceeds 20 allowed). Consider refactoring.

Open

  class Query::Autocomplete < Queries::Query

    include Arel::Nodes

    include Queries::Concerns::Identifiers