Class: Specimen

Inherits:
CollectionObject::BiologicalCollectionObject show all
Defined in:
app/models/specimen.rb

Overview

A Specimen is a single (by single we mean a curator has enumerated the object as 1), physical, and biological individual that has been collected.

Constant Summary

Constants included from Shared::IsDwcOccurrence

Shared::IsDwcOccurrence::DWC_DELIMITER, Shared::IsDwcOccurrence::VIEW_EXCLUSIONS

Constants inherited from CollectionObject

CollectionObject::BUFFERED_ATTRIBUTES, CollectionObject::CO_OTU_HEADERS, CollectionObject::GRAPH_ENTRY_POINTS

Constants included from SoftValidation

SoftValidation::ANCESTORS_WITH_SOFT_VALIDATIONS

Instance Attribute Summary collapse

Attributes inherited from CollectionObject

#accessioned_at, #buffered_collecting_event, #buffered_determinations, #buffered_other_labels, #collecting_event_id, #current_respository_id, #deaccession_reason, #deaccessioned_at, #preparation_type_id, #project_id, #ranged_lot_category_id, #respository_id, #type

Instance Method Summary collapse

Methods inherited from CollectionObject::BiologicalCollectionObject

#current_taxon_determination=, #reorder_determinations_by, #sv_determined_before_collected, #sv_fix_missing_determination, #sv_missing_biocuration_classification, #sv_missing_collecting_event, #sv_missing_determination, #sv_missing_preparation_type, #sv_missing_repository

Methods included from CollectionObject::DwcExtensions

#api_image_link, #dwc_associated_media, #dwc_associated_taxa, #dwc_caste, #dwc_catalog_number, #dwc_collection_code, #dwc_event_time, #dwc_higher_classification, #dwc_individual_count, #dwc_institution_code, #dwc_institution_id, #dwc_internal_attribute_for, #dwc_life_stage, #dwc_occurrence_remarks, #dwc_occurrence_status, #dwc_other_catalog_numbers, #dwc_preparations, #dwc_record_number, #dwc_sex, #dwc_type_status, #dwc_verbatim_label, #is_fossil?

Methods included from Shared::IsDwcOccurrence

#dwc_occurrence_attribute_values, #dwc_occurrence_attributes, #dwc_occurrence_id, #get_dwc_occurrence, #set_dwc_occurrence

Methods inherited from CollectionObject

#annotations, #assign_type_if_total_or_ranged_lot_category_id_provided, batch_update, batch_update_dwc_occurrence, bc_attributes, bc_headers, breakdown_buffered, breakdown_status, ce_attributes, ce_headers, #check_that_both_of_category_and_total_are_not_present, #check_that_either_total_or_ranged_lot_category_id_is_present, co_attributes, co_headers, #collecting_event_belongs_to_project, #dwc_occurrence_update_query, earliest_date, from_collecting_events, #geographic_name_classification, in_date_range, in_geographic_item, #is_biological?, #is_image_stub?, latest_date, #preferred_catalog_number, #preferred_record_number, #reject_collecting_event, select_optimized, selected_column_names, sequence_join_hack_sql, #sv_missing_accession_fields, #sv_missing_biocuration_classification, #sv_missing_collecting_event, #sv_missing_deaccession_fields, #sv_missing_determination, #sv_missing_preparation_type, #sv_missing_repository, used_recently

Methods included from Shared::BiologicalExtensions

#missing_determination, #name_at_rank_string, #reject_otus, #reject_taxon_determinations, #requires_taxon_determination?

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::QueryBatchUpdate

#query_update

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::HasPapertrail

#attribute_updated, #attribute_updater, #detect_version

Methods included from Shared::ProtocolRelationships

#machine_output?, #protocolled?, #reject_protocols

Methods included from Shared::Confidences

#reject_confidences

Methods included from Shared::OriginRelationship

#new_objects, #old_objects, #reject_origin_relationships, #set_origin

Methods included from Shared::Depictions

#has_depictions?, #image_array=, #reject_depictions, #reject_images

Methods included from Shared::Tags

#reject_tags, #tag_with, #tagged?, #tagged_with?

Methods included from Shared::Notes

#concatenated_notes_string, #reject_notes

Methods included from Shared::Identifiers

#dwc_occurrence_id, #identified?, #next_by_identifier, #previous_by_identifier, #reject_identifiers, #uri, #uuid

Methods included from Shared::Loanable

#all_loan_items, #all_loans, #container_loan_items, #container_loaned?, #container_loans, #container_times_loaned, #current_loan, #current_loan_item, #has_been_loaned?, #is_loanable?, #loan_return_date, #loaned_in_container, #on_loan?, #times_loaned

Methods included from Shared::DataAttributes

#import_attributes, #internal_attributes, #keyword_value_hash, #reject_data_attributes

Methods included from Shared::Conveyances

#has_conveyances?, #reject_conveyances, #reject_sounds, #sound_array=

Methods included from Shared::Containable

#contain, #containable?, #contained?, #contained_by?, #contained_siblings, #enclosing_containers, #put_in_container

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

transaction_with_retry

Instance Attribute Details

#total ⇒ 1

Returns a specimen always has a total of one.

Returns:

  • (1) —

    a specimen always has a total of one.



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# File 'app/models/specimen.rb', line 8

class Specimen < CollectionObject::BiologicalCollectionObject

  is_origin_for 'Specimen', 'Extract', 'AssertedDistribution', 'Sequence', 'Sound'
  originates_from 'Specimen', 'Lot', 'RangedLot'

  with_options if: -> {self.type == 'Specimen'} do |s|
    s.before_validation :check_and_set_total
    s.validates :total, inclusion: { in: 1..1 }, presence: true
  end

  protected

  def check_and_set_total
    if self.total.blank?
      self.total ||= 1
    end
  end

end

Instance Method Details

#check_and_set_total ⇒ Object (protected) 



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# File 'app/models/specimen.rb', line 20

def check_and_set_total
  if self.total.blank?
    self.total ||= 1
  end
end