Class: TaxonDetermination
- Inherits:
-
ApplicationRecord
- Object
- ActiveRecord::Base
- ApplicationRecord
- TaxonDetermination
- Includes:
- Housekeeping, Shared::Citations, Shared::Confidences, Shared::DataAttributes, Shared::Depictions, Shared::IsData, Shared::Labels, Shared::Notes, Shared::ProtocolRelationships, SoftValidation
- Defined in:
- app/models/taxon_determination.rb
Overview
A Taxon determination is an assertion that a collection object belongs to a taxonomic concept.
If you wish to capture verbatim determinations then they should be added to CollectionObject#buffered_determinations, i.e. TaxonDeterminations are fully “normalized”.
Constant Summary
Constants included from SoftValidation
SoftValidation::ANCESTORS_WITH_SOFT_VALIDATIONS
Instance Attribute Summary collapse
-
#biological_collection_object_id ⇒ Integer
BiologicalCollectionObject, the object being determined.
-
#day_made ⇒ Integer
the day of the month the determination was made.
-
#month_made ⇒ Integer
The month the determination was made.
-
#otu_id ⇒ Integer
the OTU (concept) of the determination.
-
#position ⇒ Integer
A cached, field managed by acts_as_list the deterimination of a specimen with position '1' is the accepted determination, it NOT necessarily the most recent determination made.
-
#project_id ⇒ Integer
the project ID.
-
#year_made ⇒ Integer
The 4 digit year the determination was made.
Class Method Summary collapse
Instance Method Summary collapse
Methods included from SoftValidation
#clear_soft_validations, #fix_for, #fix_soft_validations, #soft_fixed?, #soft_valid?, #soft_validate, #soft_validated?, #soft_validations, #soft_validators
Methods included from Shared::IsData
#errors_excepting, #full_error_messages_excepting, #identical, #is_community?, #is_destroyable?, #is_editable?, #is_in_use?, #is_in_users_projects?, #metamorphosize, #similar
Methods included from Shared::ProtocolRelationships
#protocolled?, #reject_protocols
Methods included from Shared::Depictions
#has_depictions?, #image_array=, #reject_depictions, #reject_images
Methods included from Shared::Labels
Methods included from Shared::Confidences
Methods included from Shared::Notes
#concatenated_notes_string, #reject_notes
Methods included from Shared::DataAttributes
#import_attributes, #internal_attributes, #keyword_value_hash, #reject_data_attributes
Methods included from Shared::Citations
#cited?, #mark_citations_for_destruction, #nomenclature_date, #origin_citation_source_id, #reject_citations, #requires_citation?, #sources_by_topic_id
Methods included from Housekeeping
#has_polymorphic_relationship?
Methods inherited from ApplicationRecord
Instance Attribute Details
#biological_collection_object_id ⇒ Integer
BiologicalCollectionObject, the object being determined
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
#day_made ⇒ Integer
the day of the month the determination was made
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
#month_made ⇒ Integer
Returns the month the determination was made.
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
#otu_id ⇒ Integer
the OTU (concept) of the determination
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
#position ⇒ Integer
Returns a cached, field managed by acts_as_list the deterimination of a specimen with position '1' is the accepted determination, it NOT necessarily the most recent determination made.
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
#project_id ⇒ Integer
the project ID
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
#year_made ⇒ Integer
Returns the 4 digit year the determination was made.
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# File 'app/models/taxon_determination.rb', line 36 class TaxonDetermination < ApplicationRecord acts_as_list scope: [:biological_collection_object_id, :project_id], add_new_at: :top include Housekeeping include Shared::Citations include Shared::DataAttributes include Shared::Notes include Shared::Confidences include Shared::Labels include Shared::Depictions include Shared::ProtocolRelationships include Shared::IsData include SoftValidation ignore_whitespace_on(:print_label) belongs_to :otu, inverse_of: :taxon_determinations belongs_to :biological_collection_object, class_name: 'CollectionObject', inverse_of: :taxon_determinations, foreign_key: :biological_collection_object_id has_many :determiner_roles, class_name: 'Determiner', as: :role_object has_many :determiners, through: :determiner_roles, source: :person has_many :determiners_organization, through: :determiner_roles, source: :organization validates :biological_collection_object, presence: true validates :otu, presence: true validates :year_made, date_year: { min_year: 1757, max_year: -> {Time.now.year} } validates :month_made, date_month: true validates :day_made, date_day: {year_sym: :year_made, month_sym: :month_made}, unless: -> {year_made.nil? || month_made.nil?} # Careful, position must be reset with :update_column! validates_uniqueness_of :position, scope: [:biological_collection_object_id, :project_id] # TODO: Add uniquiness constraint that also checks roles accepts_nested_attributes_for :determiners accepts_nested_attributes_for :determiner_roles, allow_destroy: true accepts_nested_attributes_for :otu, allow_destroy: false, reject_if: :reject_otu scope :current, -> { where(position: 1)} scope :historical, -> { where.not(position: 1)} # @params params [Hash] # @params collection_objectt_id [Array, Integer] # an Array or single id # @return Hash def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end # @return [String] def date [year_made, month_made, day_made].compact.join('-') end # @return [Time] def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end protected # @param [Hash] attributed # @return [Boolean] def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end end |
Class Method Details
.batch_create(collection_object_id, params) ⇒ Object
Returns Hash.
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# File 'app/models/taxon_determination.rb', line 80 def self.batch_create(collection_object_id, params) collection_object_ids = [collection_object_id].flatten.compact.uniq result = { failed: [], total_created: 0 } collection_object_ids.each do |id| begin TaxonDetermination.create!( params.merge( biological_collection_object_id: id ) ) result[:total_created] += 1 rescue ActiveRecord::RecordInvalid result[:failed].push id next end end result end |
Instance Method Details
#date ⇒ String
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# File 'app/models/taxon_determination.rb', line 106 def date [year_made, month_made, day_made].compact.join('-') end |
#reject_otu(attributed) ⇒ Boolean (protected)
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# File 'app/models/taxon_determination.rb', line 119 def reject_otu(attributed) attributed['name'].blank? && attributed['taxon_name_id'].blank? end |
#sort_date ⇒ Time
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# File 'app/models/taxon_determination.rb', line 111 def sort_date Utilities::Dates.nomenclature_date(day_made, month_made, year_made) end |