Avoid too many return statements within this method.

Open

            return false

Avoid too many return statements within this method.

Open

              return true

Method access_type_for has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def access_type_for person
    #FIXME: move the access type out of the favourite group, if possible
    if !person.nil? && contributor_type == 'FavouriteGroup'
      group = person.favourite_group_memberships.find_by_favourite_group_id(contributor.id)
      group.nil? ? self.access_type : group.access_type

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Function addSelectedDataFile has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function addSelectedDataFile() {
    selected_option_index=$("possible_data_files").selectedIndex;
    selected_option=$("possible_data_files").options[selected_option_index];
    title=selected_option.text;
    id=selected_option.value;

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Function hookSearch has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function hookSearch() {
  var input  = $('#search-field').eq(0);
  var result = $('#search-results').eq(0);
  $(result).show();

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Method bio_reference has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def bio_reference
    if pubmed_id
      Bio::MEDLINE.new(Bio::PubMed.efetch(pubmed_id).first).reference
    else
      #TODO: Bio::Reference supports a 'url' option. Should this be the URL on seek, or the URL of the 'View Publication' button, or neither?

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Function updateModels has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function updateModels() {
    model_text='<ul class="related_asset_list">';
    type="Model";
    model_ids=new Array();

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Function updateEvents has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function updateEvents() {
    event_text = '<ul class="related_asset_list">'
    for (var i = 0; i < events_array.length; i++) {
        var event = events_array[i];
        var title = event[0];

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Function updateSops has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function updateSops() {
    sop_text='<ul class="related_asset_list">';

    sop_ids=new Array();

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Function addSelectedAssay has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function addSelectedAssay() {
    selected_option_index=$("possible_assays").selectedIndex;
    selected_option=$("possible_assays").options[selected_option_index];
    title=selected_option.text;
    id=selected_option.value;

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Function setTheDivStyle has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function setTheDivStyle() {
if(!readCookie('name_panel')) {
// if cookie not found display the div and create the cookie
//document.getElementById("name_panel").style.display="block";
//createCookie('name_panel', 1);  // 1 day = 24 hours persistence

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Function addSelectedPublication has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

function addSelectedPublication() {
    selected_option_index=$("possible_publications").selectedIndex;
    selected_option=$("possible_publications").options[selected_option_index];
    title=selected_option.text;
    id=selected_option.value;

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Function update_annotation_field has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  function update_annotation_field(element_id,prefix,annotations) {
      text="";
      for (var key in annotations[prefix]) {
          triplets=annotations[prefix][key];
          for (var i=0;i<triplets.length;i++) {

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Method convert_logs_to_hash has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def convert_logs_to_hash logs
    logs.collect do |log|
      item = log.activity_loggable
      {
          type: text_for_resource(item),

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Method display_single_log_item_hash has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def display_single_log_item_hash item, action
      html=''
       unless item.blank?
         image=item[:avatar_image]
          icon  = link_to(image, item[:url], :class=> "asset", :title => tooltip_title_attrib(item[:type]))

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Method tab_definition has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def tab_definition(options={})
    options[:gap_before] ||= false
    options[:title] ||= options[:controllers].first.capitalize
    options[:path] ||= eval "#{options[:controllers].first}_path"

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Method fancy_multiselect has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

    def fancy_multiselect object, association, options = {}
      options[:object_type_text] = options[:object_class].name.underscore.humanize unless options[:object_type_text]
      with_new_link = options[:with_new_link] || false
      object_type_text = options[:object_type_text]
      object_type_text = (I18n.t 'biosamples.sample_parent_term').capitalize if object_type_text == 'Specimen'

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Method compare_model_version_selection has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def compare_model_version_selection versioned_model, displayed_resource_version
    versions=versioned_model.versions.reverse
    disabled=versions.size==1
    options=""
    versions.each do |v|

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Method strain_row_data has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def strain_row_data strain
    creator = strain.contributor.try(:person)
    creator_link = creator ? link_to(creator.name, person_path(creator.id)) : ""
    parent_strain_link = strain.parent.nil? ? nil : link_to(h(strain.parent.title),strain.parent)
    [(link_to h(strain.organism.title), organism_path(strain.organism.id)),

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Method hidden_item_contributor_links has a Cognitive Complexity of 6 (exceeds 5 allowed). Consider refactoring.

Open

  def hidden_item_contributor_links hidden_items
    contributor_links = []
    hidden_items = hidden_items.select { |hi| !hi.contributing_user.try(:person).nil? }
    hidden_items.sort! { |a, b| a.contributing_user.person.name <=> b.contributing_user.person.name }
    hidden_items.each do |hi|

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