Method create has 63 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  def create
    params[:mappings] ||= []
    params[:max_level] ||= 0
    params[:ontologies] ||= []
    params[:semantic_types] ||= []

Function jumpTo_formatItem has 61 lines of code (exceeds 25 allowed). Consider refactoring.

Open

function jumpTo_formatItem(row) {
    var specials = new RegExp("[.*+?|()\\[\\]{}\\\\]", "g"), // .*+?|()[]{}\
        keywords = jQuery(jumpTo_searchBoxSelector).val().trim().replace(specials, "\\$&").split(' ').join('|'),
        regex = new RegExp('(' + keywords + ')', 'gi');
    var resultTypeSpan = jQuery("<span>");

Method show has 61 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  def show
    # Hack to make ontologyid and conceptid work in addition to id and ontology params
    params[:id] = params[:id].nil? ? params[:ontologyid] : params[:id]
    params[:ontology] = params[:ontology].nil? ? params[:id] : params[:ontology]

Method concept_properties2hash has a Cognitive Complexity of 18 (exceeds 5 allowed). Consider refactoring.

Open

  def concept_properties2hash(properties)
    # NOTE: example properties
    #
    # properties
    #=> #<struct

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Function $Browser has 60 lines of code (exceeds 25 allowed). Consider refactoring.

Open

angular.mock.$Browser = function() {
  var self = this;

  this.isMock = true;
  self.$$url = "http://server/";

Method get_class has 60 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  def get_class(params)

    if @ontology.flat?

      ignore_concept_param = params[:conceptid].nil? ||

Function get_annotations has 59 lines of code (exceeds 25 allowed). Consider refactoring.

Open

function get_annotations() {
  jQuery("#results_error").html("");
  jQuery("#annotator_error").html("");

  // Validation

File quick_jump.js has 264 lines of code (exceeds 250 allowed). Consider refactoring.

Open

// jQuery check, if it's not present then include it
// jQuery check, if it's not present then include it
function bpMinVersion(min, actual) {
  function parseVersionString (str) {
    if (typeof(str) != 'string') { return false; }

Class AdminController has 22 methods (exceeds 20 allowed). Consider refactoring.

Open

class AdminController < ApplicationController
  layout :determine_layout
  before_action :cache_setup

  DEBUG_BLACKLIST = [:"$,", :$ADDITIONAL_ONTOLOGY_DETAILS, :$rdebug_state, :$PROGRAM_NAME, :$LOADED_FEATURES, :$KCODE, :$-i, :$rails_rake_task, :$$, :$gems_build_rake_task, :$daemons_stop_proc, :$VERBOSE, :$DAEMONS_ARGV, :$daemons_sigterm, :$DEBUG_BEFORE, :$stdout, :$-0, :$-l, :$-I, :$DEBUG, :$', :$gems_rake_task, :$_, :$CODERAY_DEBUG, :$-F, :$", :$0, :$=, :$FILENAME, :$?, :$!, :$rdebug_in_irb, :$-K, :$TESTING, :$fileutils_rb_have_lchmod, :$EMAIL_EXCEPTIONS, :$binding, :$-v, :$>, :$SAFE, :$/, :$fileutils_rb_have_lchown, :$-p, :$-W, :$:, :$__dbg_interface, :$stderr, :$\, :$&, :$<, :$debug, :$;, :$~, :$-a, :$DEBUG_RDOC, :$CGI_ENV, :$LOAD_PATH, :$-d, :$*, :$., :$-w, :$+, :$@, :$`, :$stdin, :$1, :$2, :$3, :$4, :$5, :$6, :$7, :$8, :$9]

Function update_annotations_table has 58 lines of code (exceeds 25 allowed). Consider refactoring.

Open

function update_annotations_table(rowsArray) {
  "use strict";
  var ontologies = {},
    classes = {},
    match_types = {},

Function update_annotations_table has 58 lines of code (exceeds 25 allowed). Consider refactoring.

Open

function update_annotations_table(rowsArray) {
  "use strict";
  var ontologies = {},
    classes = {},
    match_types = {},

File admin_controller.rb has 263 lines of code (exceeds 250 allowed). Consider refactoring.

Open

class AdminController < ApplicationController
  layout :determine_layout
  before_action :cache_setup

  DEBUG_BLACKLIST = [:"$,", :$ADDITIONAL_ONTOLOGY_DETAILS, :$rdebug_state, :$PROGRAM_NAME, :$LOADED_FEATURES, :$KCODE, :$-i, :$rails_rake_task, :$$, :$gems_build_rake_task, :$daemons_stop_proc, :$VERBOSE, :$DAEMONS_ARGV, :$daemons_sigterm, :$DEBUG_BEFORE, :$stdout, :$-0, :$-l, :$-I, :$DEBUG, :$', :$gems_rake_task, :$_, :$CODERAY_DEBUG, :$-F, :$", :$0, :$=, :$FILENAME, :$?, :$!, :$rdebug_in_irb, :$-K, :$TESTING, :$fileutils_rb_have_lchmod, :$EMAIL_EXCEPTIONS, :$binding, :$-v, :$>, :$SAFE, :$/, :$fileutils_rb_have_lchown, :$-p, :$-W, :$:, :$__dbg_interface, :$stderr, :$\, :$&, :$<, :$debug, :$;, :$~, :$-a, :$DEBUG_RDOC, :$CGI_ENV, :$LOAD_PATH, :$-d, :$*, :$., :$-w, :$+, :$@, :$`, :$stdin, :$1, :$2, :$3, :$4, :$5, :$6, :$7, :$8, :$9]

Function $httpBackend has 57 lines of code (exceeds 25 allowed). Consider refactoring.

Open

  function $httpBackend(method, url, data, callback, headers, timeout, withCredentials) {
    var xhr = new MockXhr(),
        expectation = expectations[0],
        wasExpected = false;

Function onSuccessAction has 57 lines of code (exceeds 25 allowed). Consider refactoring.

Open

AjaxAction.prototype.onSuccessAction = function(data, ontology, deferredObj) {
  var self = this;
  if (!self.isLongOperation) {
    return;
  }

Function formComplete_formatItem has a Cognitive Complexity of 17 (exceeds 5 allowed). Consider refactoring.

Open

function formComplete_formatItem(row) {

    var input = this.extraParams.input;
    var BP_include_definitions = jQuery(input).attr("data-bp_include_definitions");
    if (typeof BP_include_definitions === "undefined") {

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Method feedback has a Cognitive Complexity of 17 (exceeds 5 allowed). Consider refactoring.

Open

  def feedback
    # Show the header/footer or not
    feedback_layout = params[:pop].eql?('true') ? 'popup' : 'ontology'

    # We're using a hidden form field to trigger for error checking

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Function get_annotations has a Cognitive Complexity of 17 (exceeds 5 allowed). Consider refactoring.

Open

function get_annotations() {
  jQuery("#results_error").html("");
  jQuery("#annotator_error").html("");

  // Validation

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Function setClass has 56 lines of code (exceeds 25 allowed). Consider refactoring.

Open

        setClass: function(element, add, remove, options) {
          options = parseAnimateOptions(options);

          var STORAGE_KEY = '$$animateClasses';
          element = angular.element(element);

Function setTreeNodes has 55 lines of code (exceeds 25 allowed). Consider refactoring.

Open

    var setTreeNodes = function(obj, useParent) {
      obj = useParent ? obj.parent() : obj;
      $('li>a', obj).addClass('text').bind('selectstart', function() {
        return false;
      }).click(function() {

Function runSuggest has 55 lines of code (exceeds 25 allowed). Consider refactoring.

Open

      function runSuggest(e) {
        var search = function(searchData) {
          if (this.value.length < settings.minCharacters) {
            clearAndHideResults();
            return false;