[DATALAD RUNCMD] run codespell throughout fixing few left typos automagically

=== Do not change lines below ===
{
 "chain": [],
 "cmd": "codespell -w",
 "exit": 0,
 "extra_inputs": [],
 "inputs": [],
 "outputs": [],
 "pwd": "."
}
^^^ Do not change lines above ^^^

Author: yarikoptic

.rubocop.yml

@@ -131,7 +131,7 @@ Metrics/MethodLength:
   Max: 20
 
 # mnicholson Oct. 6th 2021
-# Default lenght for block is 25 lines, which it would be very restrictive for
+# Default length for block is 25 lines, which it would be very restrictive for
 # the Rspec views methods. So I'll just exclude some files.
 Metrics/BlockLength:
   Exclude:

CHANGELOG.md

@@ -233,7 +233,7 @@ As Webpacker is no longer maintained by the Rails community, we have replaced it
 - Removed `font-awesome-sass` gem and used `@fortawesome/fontawesome-free` npm package
 - Issue with `@import 'font-awesome-sprockets';` line in `app/assets/stylesheets/application.scss`. Removed that line after referring to the latest font-awesome install/setup guide which no longer includes it.
 
-With the removal of Webpacker, the Javascript/SASS code is no longer automaticaly compiled when using the `rails server` command. It has been replaced by the `bin/dev` command that launch the rails server and the processes that watch for changes in the SASS and Javascript code.
+With the removal of Webpacker, the Javascript/SASS code is no longer automatically compiled when using the `rails server` command. It has been replaced by the `bin/dev` command that launch the rails server and the processes that watch for changes in the SASS and Javascript code.
 
 #### SASS update : removal of the `@import` keyword
 
@@ -287,7 +287,7 @@ For more detailed explanation, please refer to this video : https://www.youtube.
 - Froze mail gem version [#3254](https://github.com/DMPRoadmap/roadmap/issues/3254)
 - Updated the CSV export so that it now includes research outputs
 - Updated sans-serif font used in PDF downloads to Roboto since Google API no longer offers Helvetica
-- Fixed discrepencies with default/max per_page values for API and UI pagination
+- Fixed discrepancies with default/max per_page values for API and UI pagination
 - Updated JS that used to call the TinyMCE `setMode()` function so that it now calls `mode.set()` because the former is now deprecated.
 - Patched an issue that was causing a template's visibility to change to 'organizationally_visible' when saving on the template details page.
 - Fixed an issue with the Rails 6 keyword arguments change that was causing the `paginable_sort_link` to fail

app/assets/stylesheets/blocks/README.md

@@ -1,6 +1,6 @@
 # CSS Blocks
 
-Blocks refer to reusable units within the CSS files. Where practicable, we should always try to define a general block or UX concept, rather than styling indivudual elements.
+Blocks refer to reusable units within the CSS files. Where practicable, we should always try to define a general block or UX concept, rather than styling individual elements.
 
 Example:
 

app/assets/stylesheets/blocks/_cards.scss

@@ -33,7 +33,7 @@
   color: $color-secondary-text;
 }
 
-// Classes from Boostrap 3 panels (renamed card) - interim solution
+// Classes from Bootstrap 3 panels (renamed card) - interim solution
 .card-default {
   border-color: #ddd;
   border-radius: 0rem;

app/assets/stylesheets/blocks/_labels.scss

@@ -1,7 +1,7 @@
 @import "../../../../node_modules/bootstrap/scss/functions";
 @import "../../../../node_modules/bootstrap/scss/variables";
 
-/* label stlying */
+/* label styling */
 label {
   font-weight: 700;
 }

app/controllers/api/v1/base_api_controller.rb

@@ -109,7 +109,7 @@ def paginate_response(results:)
       end
 
       # =========================
-      # PERMIITTED PARAMS HEPERS
+      # PERMIITTED PARAMS HELPERS
       # =========================
       def plan_permitted_params
         %i[created title description language ethical_issues_exist

app/controllers/concerns/conditional_user_mailer.rb

@@ -8,7 +8,7 @@ module ConditionalUserMailer
   #
   # recipients - User or Enumerable object or any object that includes Enumerable class
   # key        - A key (dot notation) whose value is true/false and belongs to
-  #              prefences.email (see dmproadmap.rb initializer)
+  #              preferences.email (see dmproadmap.rb initializer)
   #
   # Returns Boolean
   def deliver_if(key:, recipients: [], &block)

app/controllers/concerns/paginable.rb

@@ -137,7 +137,7 @@ def refine_query(scope)
 
       # Can raise ActiveRecord::StatementInvalid (e.g. column does not
       # exist, ambiguity on column, etc)
-      # how we contruct scope depends on whether sort field is in the
+      # how we construct scope depends on whether sort field is in the
       # main table or in a related table
       scope_table = scope.klass.name.underscore
       parts = @args[:sort_field].partition('.')

app/controllers/concerns/versionable.rb

@@ -4,7 +4,7 @@
 module Versionable
   private
 
-  # Takes in a Template, phase, Section, Question, or Annotaion
+  # Takes in a Template, phase, Section, Question, or Annotation
   # IF the template is published, generates a new template
   # finds the passed object in the new template
   #

app/controllers/org_admin/template_customization_transfers_controller.rb

@@ -1,7 +1,7 @@
 # frozen_string_literal: true
 
 module OrgAdmin
-  # Controller that handles transfering parent template changes to a customized template
+  # Controller that handles transferring parent template changes to a customized template
   class TemplateCustomizationTransfersController < ApplicationController
     include Versionable
 

app/controllers/plans_controller.rb

@@ -398,7 +398,7 @@ def duplicate
   end
   # rubocop:enable Metrics/AbcSize
 
-  # TODO: This should probablly just be merged with the update route
+  # TODO: This should probably just be merged with the update route
   # POST /plans/:id/visibility
   # rubocop:disable Metrics/AbcSize, Metrics/MethodLength
   def visibility
@@ -433,7 +433,7 @@ def visibility
   end
   # rubocop:enable Metrics/AbcSize, Metrics/MethodLength
 
-  # TODO: This should probablly just be merged with the update route
+  # TODO: This should probably just be merged with the update route
   # POST /plans/:id/set_test
   def set_test
     plan = Plan.find(params[:id])

app/controllers/public_pages_controller.rb

@@ -29,7 +29,7 @@ def template_export
     # only export live templates, id passed is family_id
     @template = Template.live(params[:id])
     # covers authorization for this action.
-    # Pundit dosent support passing objects into scoped policies
+    # Pundit doesn't support passing objects into scoped policies
     unless PublicPagePolicy.new(current_user, @template).template_export?
       msg = 'You are not authorized to export that template'
       redirect_to public_templates_path, notice: msg and return

app/controllers/registrations_controller.rb

@@ -269,7 +269,7 @@ def do_update_password(current_user, args)
     elsif args[:password_confirmation].blank?
       message = _('Please enter a password confirmation')
     elsif args[:password] != args[:password_confirmation]
-      message = _('Password and comfirmation must match')
+      message = _('Password and confirmation must match')
     else
       successfully_updated = current_user.update_with_password(args)
     end

app/javascript/src/answers/edit.js

@@ -34,7 +34,7 @@ $(() => {
     * form with class form-answer. The key represents a question id and the value holds
     * the debounced function for a given input, textarea or select. Note, this map is
     * populated on demand, i.e. the first time a change is made at a given input, textarea
-    * or select within the form, a new key-value should be created. Succesive times, the
+    * or select within the form, a new key-value should be created. Successive times, the
     * debounced function should be retrieved instead.
     */
     const debounceMap = {};

app/javascript/src/answers/rdaMetadata.js

@@ -139,7 +139,7 @@ $(() => {
 
   function waitAndUpdate() {
     if (noWaiting > 0) {
-      // if we are waiting on api responces, call this function in 1 seccond
+      // if we are waiting on api responses, call this function in 1 second
       setTimeout(waitAndUpdate, 1000);
     } else {
       // update all the dropdowns/ standards explore box (calling on subject
@@ -183,7 +183,7 @@ $(() => {
       // update the standards display selector
       $('.rda_metadata .sub-subject select').change();
     } else {
-      // show the sub-subject incase it was previously hidden
+      // show the sub-subject in case it was previously hidden
       subSubject.closest('div').show();
       // update the sub-subject display selector
       subSubject.find('option').remove();

app/javascript/src/orgAdmin/conditions/updateConditions.js

@@ -22,7 +22,7 @@ export default function updateConditions(id) {
 
     if (webhook === false) {
       if ($(selectObject).val() === 'add_webhook') { // condition type is webhook
-        // Retreive 'data-bs-target' for modal and create Jquery element
+        // Retrieve 'data-bs-target' for modal and create Jquery element
         const associatedModal = $(condition.find('.pseudo-webhook-btn').attr('data-bs-target'));
         associatedModal.modal('show');
         condition.find('.display-if-action-remove').hide();
@@ -60,7 +60,7 @@ export default function updateConditions(id) {
       condition.find('.webhook-replacement').show();
       $(condition.find('.webhook-replacement')).on('click', (event) => {
         event.preventDefault();
-        // Retreive 'data-bs-target' for modal and create Jquery element
+        // Retrieve 'data-bs-target' for modal and create Jquery element
         const associatedModal1 = $(condition.find('.pseudo-webhook-btn').attr('data-bs-target'));
         associatedModal1.modal('show');
       });

app/javascript/src/usage/index.js

@@ -19,7 +19,7 @@ $(() => {
   };
 
   // attach listener to separator select menu
-  // on change look for "stat" elements and chnage their query param
+  // on change look for "stat" elements and change their query param
   const fieldSep = document.getElementById('csv-field-sep');
   if (fieldSep !== null) {
     fieldSep.addEventListener('click', (e) => {

app/javascript/src/utils/accordion.js

@@ -9,7 +9,7 @@
  *      <a href="#" data-toggle-direction="hide"><%= _('collapse all') %></a>
  *    </div>
  *
- * Your accordion should follow the Boostrap 5.x layout:
+ * Your accordion should follow the Bootstrap 5.x layout:
  * ------------------------------------------------------------
 n*
  *  <div class="accordion" id="accordionDefault">

app/javascript/src/utils/sectionUpdate.js

@@ -23,5 +23,5 @@ export const updateSectionProgress = (id, numSecAnswers, numSecQuestions) => {
 };
 
 // given a question id find the containing div
-// used inconditional questions
+// used unconditional questions
 export const getQuestionDiv = (id) => $(`#answer-form-${id}`).closest('.question-body');

app/javascript/src/utils/tinymce.js

@@ -157,7 +157,7 @@ export const Tinymce = {
   },
   /*
     Destroy an editor instance whose target element/textarea has HTML id passed. This method
-    executes tinymce.Editor.destroy (e.g. https://www.tinymce.com/docs/api/tinymce/tinymce.editor/#destroy) for a successfull id found.
+    executes tinymce.Editor.destroy (e.g. https://www.tinymce.com/docs/api/tinymce/tinymce.editor/#destroy) for a successful id found.
     @return undefined
   */
   destroyEditorById(id) {

app/mailers/user_mailer.rb

@@ -70,12 +70,12 @@ def permissions_change_notification(role, user)
     @role       = role
     @plan_title = @role.plan.title
     @user       = user
-    @recepient = @role.user
+    @recipient = @role.user
     @messaging = role_text(@role)
     @helpdesk_email = helpdesk_email(org: @user.org)
 
     I18n.with_locale I18n.default_locale do
-      mail(to: @recepient.email,
+      mail(to: @recipient.email,
            subject: format(_('Changed permissions on a Data Management Plan in %{tool_name}'),
                            tool_name: tool_name))
     end

app/models/plan.rb

@@ -291,7 +291,7 @@ def settings(key)
   # none exists.
   #
   # qid               - The id for the question to find the answer for
-  # create_if_missing - If true, will genereate a default answer
+  # create_if_missing - If true, will generate a default answer
   #                     to the question (defaults: true).
   #
   # Returns Answer

app/models/role.rb

@@ -71,7 +71,7 @@ class Role < ApplicationRecord
   # Return ActiveRecord::Relation
   scope :with_access_flags, lambda { |*flags|
     bad_flag = flags.detect { |flag| !flag.in?(flag_mapping['access'].keys) }
-    raise ArgumentError, "Unkown access flag '#{bad_flag}'" if bad_flag
+    raise ArgumentError, "Unknown access flag '#{bad_flag}'" if bad_flag
 
     access_values = flags.map { |flag| sql_in_for_flag(flag.to_sym, 'access') }
                          .flatten
@@ -124,7 +124,7 @@ def deactivate!
 # 03 - creator + administrator
 # 04 - editor
 # 05 - creator + editor
-# 06 - administraor + editor
+# 06 - administrator + editor
 # 07 - creator + editor + administrator
 # 08 - commenter
 # 09 - creator + commenter
@@ -140,7 +140,7 @@ def deactivate!
 # 19 - creator + administrator + reviewer
 # 20 - editor + reviewer
 # 21 - creator + editor + reviewer
-# 22 - administraor + editor + reviewer
+# 22 - administrator + editor + reviewer
 # 23 - creator + editor + administrator + reviewer
 # 24 - commenter + reviewer
 # 25 - creator + commenter + reviewer

app/models/section.rb

@@ -128,7 +128,7 @@ def deep_copy(**options)
     copy
   end
 
-  # Can't be modified as it was duplicatd over from another Phase.
+  # Can't be modified as it was duplicated over from another Phase.
   def unmodifiable?
     !modifiable?
   end

app/models/template.rb

@@ -450,17 +450,17 @@ def publishability
     unless latest?
       error += _('You can not publish a historical version of this template.  ')
       publishable = false
-      # all templates have atleast one phase
+      # all templates have at least one phase
     end
     if phases.count <= 0
       error += _('You can not publish a template without phases.  ')
       publishable = false
-      # all phases must have atleast 1 section
+      # all phases must have at least 1 section
     end
     unless phases.map { |p| p.sections.count.positive? }.reduce(true) { |fin, val| fin && val }
       error += _('You can not publish a template without sections in a phase.  ')
       publishable = false
-      # all sections must have atleast one question
+      # all sections must have at least one question
     end
     unless sections.map { |s| s.questions.count.positive? }.reduce(true) { |fin, val| fin && val }
       error += _('You can not publish a template without questions in a section.  ')

app/models/user.rb

@@ -233,15 +233,15 @@ def identifier_for(scheme)
     identifiers.by_scheme_name(scheme, 'User')&.first
   end
 
-  # Checks if the user is a super admin. If the user has any privelege which requires
+  # Checks if the user is a super admin. If the user has any privilege which requires
   # them to see the super admin page then they are a super admin.
   #
   # Returns Boolean
   def can_super_admin?
     can_add_orgs? || can_grant_api_to_orgs? || can_change_org?
   end
 
-  # Checks if the user is an organisation admin if the user has any privlege which
+  # Checks if the user is an organisation admin if the user has any privilege which
   # requires them to see the org-admin pages then they are an org admin.
   #
   # Returns Boolean

app/policies/api/v1/plans_policy.rb

@@ -7,7 +7,7 @@ class PlansPolicy < ApplicationPolicy
       # NOTE: @user is either a User or an ApiClient
 
       # A helper method that takes the current client and returns the plans they
-      # have acess to
+      # have access to
       class Scope
         ## return the visible plans (via the API) to a given client
         # ALL can view: public

app/policies/template_policy.rb

@@ -76,7 +76,7 @@ def unpublish?
   #  - The template which they are modifying belongs to their org
   ##
 
-  # Anyone with an account should be able to get templates for the sepecified research_org + funder
+  # Anyone with an account should be able to get templates for the specified research_org + funder
   # This policy is applicable to the Create Plan page
   def template_options?
     @user.present?

app/presenters/contributor_presenter.rb

@@ -53,7 +53,7 @@ def role_symbol_to_string(symbol:)
     def role_tooltip(symbol:)
       case symbol
       when :data_curation
-        _('Management activities to annotate (produce metadata), scrub data and maintain research data (including software code, where it is necessary for interpreting the data itself) for initial use and later re-use.')
+        _('Management activities to annotate (produce metadata), scrub data and maintain research data (including software code, where it is necessary for interpreting the data itself) for initial use and later reuse.')
       when :investigation
         _('Conducting a research and investigation process, specifically performing the experiments, or data/evidence collection.')
       when :project_administration

app/services/api/v1/conversion_service.rb

@@ -23,7 +23,7 @@ def yes_no_unknown_to_boolean(value)
           false
         end
 
-        # Converts the context and value into an Identifier with a psuedo
+        # Converts the context and value into an Identifier with a pseudo
         # IdentifierScheme for display in JSON partials. Which will result in:
         #   { type: 'context', identifier: 'value' }
         def to_identifier(context:, value:)

app/services/api/v1/deserialization/plan.rb

@@ -64,7 +64,7 @@ def deserialize(json: {})
 
             # TODO: Handle ethical issues when the Question is in place
 
-            # Process Project, Contributors and Data Contact and Datsets
+            # Process Project, Contributors and Data Contact and Datasets
             plan = deserialize_project(plan: plan, json: json)
             plan = deserialize_contact(plan: plan, json: json)
             plan = deserialize_contributors(plan: plan, json: json)

app/services/api/v1/deserialization_service.rb

@@ -50,7 +50,7 @@ def translate_role(role:)
           url = ::Contributor::ONTOLOGY_BASE_URL
           role = role.gsub("#{url}/", '').downcase if role.include?(url)
 
-          # Return the role if its a valid one otherwise defualt
+          # Return the role if its a valid one otherwise default
           return role if ::Contributor.new.all_roles.include?(role.downcase.to_sym)
 
           default

app/services/external_apis/base_service.rb

@@ -40,7 +40,7 @@ def active?
       end
 
       # The standard headers to be used when communicating with an external API.
-      # These headers can be overriden or added to when calling an external API
+      # These headers can be overridden or added to when calling an external API
       # by sending your changes in the `additional_headers` attribute of
       # `http_get`
       def headers

app/services/external_apis/ror_service.rb

@@ -77,7 +77,7 @@ def search(term:, filters: [])
 
       private
 
-      # Queries the ROR API for the sepcified name and page
+      # Queries the ROR API for the specified name and page
       def query_ror(term:, page: 1, filters: [])
         return [] unless term.present?
 

app/services/org/create_created_plan_service.rb

@@ -1,6 +1,6 @@
 # frozen_string_literal: true
 
-# statements fix Circular dependancy errors due to threading
+# statements fix Circular dependency errors due to threading
 # see: https://github.com/grosser/parallel#nameerror-uninitialized-constant
 OrgDateRangeable.class
 StatCreatedPlan.class

app/services/org/create_exported_plan_service.rb

@@ -1,6 +1,6 @@
 # frozen_string_literal: true
 
-# statements fix Circular dependancy errors due to threading
+# statements fix Circular dependency errors due to threading
 # see: https://github.com/grosser/parallel#nameerror-uninitialized-constant
 OrgDateRangeable.class
 StatExportedPlan.class