ncs_mdes 0.9.0 → 0.10.0
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- data/CHANGELOG.md +6 -0
- data/bin/mdes-console +2 -1
- data/documents/3.1/NCS_Transmission_Schema_3.1.00.00.xsd +84362 -0
- data/documents/3.1/disposition_codes.yml +2361 -0
- data/documents/3.1/extract_disposition_codes.rb +59 -0
- data/documents/3.1/heuristic_overrides.yml +656 -0
- data/lib/ncs_navigator/mdes/source_documents.rb +2 -0
- data/lib/ncs_navigator/mdes/version.rb +1 -1
- data/spec/ncs_navigator/mdes/source_documents_spec.rb +14 -0
- data/spec/ncs_navigator/mdes/specification_spec.rb +22 -0
- metadata +12 -2
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#!/usr/bin/env ruby
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##
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# A script to generate disposition_codes.yml from the MDES 3.1
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# spreadsheet's Dispositions tab.
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#
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# This script requires the 'roo' gem, which is not included in
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# ncs_mdes's gemspec because it has a huge number of dependencies and
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# is not needed at runtime.
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require 'rubygems'
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require 'roo'
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require 'yaml'
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MDES_XLSX = ARGV.first or fail 'Please provide the path to the MDES spreadsheet'
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TARGET = File.expand_path('../disposition_codes.yml', __FILE__)
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SHEET_NAME = 'Dispositions'
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MAPPED_COLUMNS = {
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'A' => 'final_category',
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'B' => 'sub_category',
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'C' => 'disposition'
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}
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def normalize_whitespace(s)
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s.strip.gsub(/\s+/, " ")
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end
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book = Excelx.new(MDES_XLSX)
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# This is the array of hashes that will eventually be serialized to
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# disposition_codes.yml.
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dispositions = []
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current_event = nil
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current_category_code = nil
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1.upto(book.last_row(SHEET_NAME)) do |row_number|
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a, b = %w(A B).collect { |col| book.cell(row_number, col, SHEET_NAME) }
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if a =~ /Category\s+(\d)\s+\((.*?)\)\s+Disposition\s+Codes/
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current_event = normalize_whitespace $2
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current_category_code = $1.to_i
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puts "Collecting for category #{current_event} (#{current_category_code})"
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elsif b =~ /\S/ && a !~ /FINAL/
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disposition_hash = MAPPED_COLUMNS.inject({}) do |h, (col, key)|
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h[key] = normalize_whitespace(book.cell(row_number, col, SHEET_NAME)); h
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end
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disposition_hash['event'] = current_event
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disposition_hash['category_code'] = current_category_code
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disposition_hash['interim_code'], disposition_hash['final_code'] =
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normalize_whitespace(book.cell(row_number, 'D', SHEET_NAME)).split('/')
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puts disposition_hash.inspect if disposition_hash['interim_code'] =~ /^02/
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dispositions << disposition_hash
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end
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end
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File.open(TARGET, 'w') do |f|
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f.write dispositions.sort_by { |h| [h['category_code'], h['final_code']] }.to_yaml
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end
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foreign_keys:
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birth_visit:
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new_address_id: address
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mail_address_id: address
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new_address_b_id: address
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birth_visit_2:
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new_address_id: address
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mail_address_id: address
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new_address_b_id: address
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birth_visit_3:
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cwork_address_id: address
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work_address_id: address
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birth_visit_baby_name:
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bv_id: birth_visit
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birth_visit_baby_name_2:
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bv_id: birth_visit_2
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birth_visit_decorate_room:
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bv_id: birth_visit
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birth_visit_decorate_room_2:
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bv_id: birth_visit_2
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birth_visit_li:
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new_address_id: address
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mail_address_id: address
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new_address_b_id: address
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birth_visit_li_2:
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cwork_address_id: address
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work_address_id: address
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birth_visit_renovate_room:
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bv_id: birth_visit
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birth_visit_renovate_room_2:
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bv_id: birth_visit_2
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bitsea_saq:
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r_p_id: participant
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breast_milk_saq:
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r_p_id: participant
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bsi_saq:
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r_p_id: participant
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child_anthro:
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r_p_id: participant
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child_blood:
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r_p_id: participant
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# According to the corresponding instrument, equip_id is manually entered
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# and not a reference to another table.
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equip_id: false
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child_bp:
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r_p_id: participant
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child_saliva:
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r_p_id: participant
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child_saliva_saq:
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r_p_id: participant
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child_urine:
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r_p_id: participant
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core_quest:
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r_p_id: participant
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core_quest_child_care:
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r_p_id: participant
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c_address_id: address
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core_quest_occupation:
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r_p_id: participant
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work_address_id: address
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drf_therm_verification:
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equip_id: env_equipment
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eighteen_mth_mother:
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c_addr1_id: address
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c_addr2_id: address
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r_p_id: participant
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eighteen_mth_mother_2:
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c_addr1_id: address
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c_addr2_id: address
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r_p_id: participant
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eighteen_mth_mother_3:
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r_p_id: participant
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eighteen_mth_mother_cond:
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eighteen_mth_habits_id: eighteen_mth_mother_habits
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eighteen_mth_mother_lice_2:
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eighteen_mth_mother_id: eighteen_mth_mother_2
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eighteen_mth_mother_saq:
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asq18_address_id: address
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r_p_id: participant
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eighteen_mth_mother_saq_2:
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r_p_id: participant
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asq18_address_id: address
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home_phone_id: telephone
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env_equipment_prob_log:
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equip_id: env_equipment
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staff_id_reviewer: staff
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event:
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participant_id: participant
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fourteen_mth_asq_saq:
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r_p_id: participant
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asq14_address_id: address
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home_phone_id: telephone
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household_enumeration_hidden_du:
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hdu_address_id: address
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incident:
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inc_staff_reporter_id: staff
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inc_staff_supervisor_id: staff
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inc_recip_is_participant: participant
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inc_recip_is_du: dwelling_unit
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inc_recip_is_staff: staff
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inc_recip_is_family: person
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inc_recip_is_acquaintance: person
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inc_contact_person: person
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itsp_saq:
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r_p_id: participant
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m_chat_saq:
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r_p_id: participant
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multi_mode:
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r_p_id: participant
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nine_mth_mother:
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r_p_id: participant
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nine_mth_mother_2:
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r_p_id: participant
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non_interview_respondent:
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r_p_id: participant
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participant_consent:
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person_who_consented_id: person
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person_wthdrw_consent_id: person
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participant_consent_reconsideration:
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r_p_id: participant
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participant_verif:
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r_p_id: participant
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c_address_id: address
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pa_phone_id: telephone
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s_address_id: address
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sa_phone_id: telephone
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participant_vis_consent:
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vis_person_who_consented_id: person
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participant_rvis:
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rvis_person: person
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pb_recruitment:
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address_pb_id: address
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pb_recruitment_2:
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address_pb_id: address
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pb_recruitment_info_source:
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pb_recruitment_id: pb_recruitment
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pb_recruitment_info_source_2:
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pb_recruitment_id: pb_recruitment_2
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pb_recruitment_prov_source:
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pb_recruitment_id: pb_recruitment
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pb_recruitment_prov_source_2:
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pb_recruitment_id: pb_recruitment_2
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pb_recruitment_prov_svc:
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pb_recruitment_id: pb_recruitment
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pb_recruitment_prov_svc_2:
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pb_recruitment_id: pb_recruitment_2
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pb_samp_frame:
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practice_address_id: address
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contact_address_id: address
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contact_email_id: email
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contact_phone_num_id: telephone
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contact_address_larger_id: address
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contact_email_larger_id: email
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contact_phone_num_larger_id: telephone
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pbs_elig_screener:
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r_phone_1_id: telephone
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r_phone_2_id: telephone
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r_email_id: email
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pbs_elig_screener_pr_office:
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pr_address_id: address
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person:
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new_address_id: address
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prec_therm_cert:
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equip_id: env_equipment
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pre_preg:
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c_addr1_id: address
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c_addr2_id: address
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preg_screen_eh:
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mail_address_id: address
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new_address_id: address
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preg_screen_eh_2:
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mail_address_id: address
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new_address_id: address
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preg_screen_eh_know_ncs:
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ps_eh_id: preg_screen_eh
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preg_screen_eh_know_ncs_2:
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ps_eh_id: preg_screen_eh_2
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preg_screen_eh_race:
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ps_eh_id: preg_screen_eh
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preg_screen_eh_race_2:
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ps_eh_id: preg_screen_eh_2
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preg_screen_hi:
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mail_address_id: address
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new_address_id: address
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+
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preg_screen_hi_2:
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mail_address_id: address
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new_address_id: address
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preg_screen_hi_know_ncs:
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ps_hi_id: preg_screen_hi
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preg_screen_hi_know_ncs_2:
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ps_hi_id: preg_screen_hi_2
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preg_screen_hi_race:
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ps_hi_id: preg_screen_hi
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preg_screen_hi_race_2:
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ps_hi_id: preg_screen_hi_2
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+
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preg_screen_pb:
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mail_address_id: address
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new_address_id: address
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+
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preg_screen_pb_2:
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mail_address_id: address
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new_address_id: address
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preg_screen_pb_know_ncs:
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ps_pb_id: preg_screen_pb
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preg_screen_pb_know_ncs_2:
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ps_pb_id: preg_screen_pb_2
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preg_screen_pb_race:
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ps_pb_id: preg_screen_pb
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+
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preg_screen_pb_race_2:
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ps_pb_id: preg_screen_pb_2
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+
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preg_visit_1:
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b_address_id: address
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c_addr1_id: address
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c_addr2_id: address
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+
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preg_visit_1_2:
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b_address_id: address
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c_addr1_id: address
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c_addr2_id: address
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+
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preg_visit_1_3:
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b_address_id: address
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work_address_id: address
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+
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preg_visit_1_commute:
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pv1_id: preg_visit_1
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+
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preg_visit_1_commute_2:
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pv1_id: preg_visit_1_2
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+
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preg_visit_1_cool:
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pv1_id: preg_visit_1
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+
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preg_visit_1_cool_2:
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pv1_id: preg_visit_1_2
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+
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preg_visit_1_diagnose_2:
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pv1_id: preg_visit_1
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preg_visit_1_diagnose_2_2:
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pv1_id: preg_visit_1_2
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preg_visit_1_heat2:
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pv1_id: preg_visit_1
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preg_visit_1_heat2_2:
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pv1_id: preg_visit_1_2
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+
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preg_visit_1_local_trav:
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+
pv1_id: preg_visit_1
|
329
|
+
|
330
|
+
preg_visit_1_local_trav_2:
|
331
|
+
pv1_id: preg_visit_1_2
|
332
|
+
|
333
|
+
preg_visit_1_nonenglish2_2:
|
334
|
+
pv1_id: preg_visit_1_2
|
335
|
+
|
336
|
+
preg_visit_1_pdecorate_room:
|
337
|
+
pv1_id: preg_visit_1
|
338
|
+
|
339
|
+
preg_visit_1_pdecorate_room_2:
|
340
|
+
pv1_id: preg_visit_1_2
|
341
|
+
|
342
|
+
preg_visit_1_pet_type:
|
343
|
+
pv1_id: preg_visit_1
|
344
|
+
|
345
|
+
preg_visit_1_pet_type_2:
|
346
|
+
pv1_id: preg_visit_1_2
|
347
|
+
|
348
|
+
preg_visit_1_prenovate2_room:
|
349
|
+
pv1_id: preg_visit_1
|
350
|
+
|
351
|
+
preg_visit_1_prenovate_room:
|
352
|
+
pv1_id: preg_visit_1
|
353
|
+
|
354
|
+
preg_visit_1_prenovate_room_2:
|
355
|
+
pv1_id: preg_visit_1_2
|
356
|
+
|
357
|
+
preg_visit_1_room_mold:
|
358
|
+
pv1_id: preg_visit_1
|
359
|
+
|
360
|
+
preg_visit_1_room_mold_2:
|
361
|
+
pv1_id: preg_visit_1_2
|
362
|
+
|
363
|
+
preg_visit_1_saq_2:
|
364
|
+
f_addr_id: address
|
365
|
+
|
366
|
+
preg_visit_1_saq_3:
|
367
|
+
f_addr_id: address
|
368
|
+
|
369
|
+
preg_visit_1_saq_4:
|
370
|
+
f_addr_id: address
|
371
|
+
f_phone_id: telephone
|
372
|
+
|
373
|
+
preg_visit_1_sp_race:
|
374
|
+
pv1_id: preg_visit_1
|
375
|
+
|
376
|
+
preg_visit_1_sp_race_2:
|
377
|
+
pv1_id: preg_visit_1_2
|
378
|
+
|
379
|
+
preg_visit_2:
|
380
|
+
b_address_id: address
|
381
|
+
c_addr1_id: address
|
382
|
+
c_addr2_id: address
|
383
|
+
|
384
|
+
preg_visit_2_2:
|
385
|
+
b_address_id: address
|
386
|
+
c_addr1_id: address
|
387
|
+
c_addr2_id: address
|
388
|
+
|
389
|
+
preg_visit_2_3:
|
390
|
+
b_address_id: address
|
391
|
+
work_address_id: address
|
392
|
+
cwork_address_id: address
|
393
|
+
|
394
|
+
preg_visit_2_cool:
|
395
|
+
pv2_id: preg_visit_2
|
396
|
+
|
397
|
+
preg_visit_2_cool_2:
|
398
|
+
pv2_id: preg_visit_2_2
|
399
|
+
|
400
|
+
preg_visit_2_diagnose_2:
|
401
|
+
pv2_id: preg_visit_2
|
402
|
+
|
403
|
+
preg_visit_2_diagnose_2_2:
|
404
|
+
pv2_id: preg_visit_2_2
|
405
|
+
|
406
|
+
preg_visit_2_heat2:
|
407
|
+
pv2_id: preg_visit_2
|
408
|
+
|
409
|
+
preg_visit_2_heat2_2:
|
410
|
+
pv2_id: preg_visit_2_2
|
411
|
+
|
412
|
+
preg_visit_2_pdecorate2_room:
|
413
|
+
pv2_id: preg_visit_2
|
414
|
+
|
415
|
+
preg_visit_2_pdecorate2_room_2:
|
416
|
+
pv2_id: preg_visit_2_2
|
417
|
+
|
418
|
+
preg_visit_2_prenovate_room:
|
419
|
+
pv2_id: preg_visit_2
|
420
|
+
|
421
|
+
preg_visit_2_prenovate_room_2:
|
422
|
+
pv2_id: preg_visit_2_2
|
423
|
+
|
424
|
+
preg_visit_2_room_mold:
|
425
|
+
pv2_id: preg_visit_2
|
426
|
+
|
427
|
+
preg_visit_2_room_mold_2:
|
428
|
+
pv2_id: preg_visit_2_2
|
429
|
+
|
430
|
+
preg_visit_li:
|
431
|
+
b_address_id: address
|
432
|
+
|
433
|
+
preg_visit_li_2:
|
434
|
+
b_address_id: address
|
435
|
+
|
436
|
+
preg_visit_li_cool:
|
437
|
+
pv_li_id: preg_visit_li
|
438
|
+
|
439
|
+
preg_visit_li_cool_2:
|
440
|
+
pv_li_id: preg_visit_li_2
|
441
|
+
|
442
|
+
reconsideration_ins:
|
443
|
+
r_p_id: participant
|
444
|
+
|
445
|
+
ref_freezer_verification:
|
446
|
+
equip_id: env_equipment
|
447
|
+
|
448
|
+
sample_receipt_store:
|
449
|
+
equip_id: env_equipment
|
450
|
+
|
451
|
+
sample_shipping:
|
452
|
+
staff_id_track: staff
|
453
|
+
|
454
|
+
six_mth_mother:
|
455
|
+
c_addr1_id: address
|
456
|
+
c_addr2_id: address
|
457
|
+
r_p_id: participant
|
458
|
+
|
459
|
+
six_mth_mother_2:
|
460
|
+
r_p_id: participant
|
461
|
+
|
462
|
+
six_mth_saq_formula_type:
|
463
|
+
six_mth_saq_id: six_mth_saq
|
464
|
+
|
465
|
+
six_mth_saq_2:
|
466
|
+
r_p_id: participant
|
467
|
+
|
468
|
+
six_mth_saq_3:
|
469
|
+
r_p_id: participant
|
470
|
+
|
471
|
+
six_mth_saq_4:
|
472
|
+
r_p_id: participant
|
473
|
+
|
474
|
+
six_mth_saq_formula_type_2:
|
475
|
+
six_mth_saq_id: six_mth_saq_2
|
476
|
+
|
477
|
+
six_mth_saq_supp:
|
478
|
+
six_mth_saq_id: six_mth_saq
|
479
|
+
|
480
|
+
six_mth_saq_supp_2:
|
481
|
+
six_mth_saq_id: six_mth_saq_2
|
482
|
+
|
483
|
+
six_mth_saq_water:
|
484
|
+
six_mth_saq_id: six_mth_saq
|
485
|
+
|
486
|
+
six_mth_saq_water_2:
|
487
|
+
six_mth_saq_id: six_mth_saq_2
|
488
|
+
|
489
|
+
sixteen_mth_asq_saq:
|
490
|
+
r_p_id: participant
|
491
|
+
asq16_address_id: address
|
492
|
+
home_phone_id: telephone
|
493
|
+
|
494
|
+
spec_blood:
|
495
|
+
# According to the corresponding instrument, equip_id is manually entered
|
496
|
+
# and not a reference to another table.
|
497
|
+
equip_id: false
|
498
|
+
|
499
|
+
spec_blood_2:
|
500
|
+
# According to the corresponding instrument, equip_id is manually entered
|
501
|
+
# and not a reference to another table.
|
502
|
+
equip_id: false
|
503
|
+
|
504
|
+
spec_cord_blood_specimen:
|
505
|
+
spec_cord_blood_id: spec_cord_blood
|
506
|
+
|
507
|
+
spec_cord_blood_specimen_2:
|
508
|
+
spec_cord_blood_id: spec_cord_blood_2
|
509
|
+
|
510
|
+
spec_receipt:
|
511
|
+
# Insufficient info to determine what this is supposed to link to
|
512
|
+
storage_container_id: false
|
513
|
+
equip_id: spec_equipment
|
514
|
+
|
515
|
+
spec_shipping:
|
516
|
+
# Insufficient info to determine what this is supposed to link to
|
517
|
+
shipper_id: false
|
518
|
+
|
519
|
+
spec_storage:
|
520
|
+
equip_id: spec_equipment
|
521
|
+
|
522
|
+
staff_exp_mngmnt_tasks:
|
523
|
+
staff_weekly_expense_id: staff_weekly_expense
|
524
|
+
|
525
|
+
staff_exp_data_cllctn_tasks:
|
526
|
+
staff_weekly_expense_id: staff_weekly_expense
|
527
|
+
|
528
|
+
thirty_month_interview:
|
529
|
+
r_p_id: participant
|
530
|
+
|
531
|
+
thirty_mth_asq_saq:
|
532
|
+
r_p_id: participant
|
533
|
+
asq30_address_id: address
|
534
|
+
home_phone_id: telephone
|
535
|
+
|
536
|
+
three_mth_mother:
|
537
|
+
r_p_id: participant
|
538
|
+
|
539
|
+
three_mth_mother_2:
|
540
|
+
r_p_id: participant
|
541
|
+
|
542
|
+
three_mth_mother_3:
|
543
|
+
r_p_id: participant
|
544
|
+
|
545
|
+
tracing_int:
|
546
|
+
r_p_id: participant
|
547
|
+
new_address_id: address
|
548
|
+
home_phone_id: telephone
|
549
|
+
cell_phone_id: telephone
|
550
|
+
c_addr1_id: address
|
551
|
+
contact_phone_id: telephone
|
552
|
+
contact_phone_2_1_id: telephone
|
553
|
+
c_addr2_id: address
|
554
|
+
contact_phone_2_id: telephone
|
555
|
+
contact_phone_2_2_id: telephone
|
556
|
+
c_addr3_id: address
|
557
|
+
contact_phone_3_id: telephone
|
558
|
+
contact_phone_2_3_id: telephone
|
559
|
+
|
560
|
+
trh_meter_calibration:
|
561
|
+
equip_id: spec_equipment
|
562
|
+
|
563
|
+
twelve_mth_mother:
|
564
|
+
c_addr1_id: address
|
565
|
+
c_addr2_id: address
|
566
|
+
r_p_id: participant
|
567
|
+
|
568
|
+
twelve_mth_mother_2:
|
569
|
+
r_p_id: participant
|
570
|
+
c_addr1_id: address
|
571
|
+
c_addr2_id: address
|
572
|
+
|
573
|
+
twelve_mth_mother_3:
|
574
|
+
r_p_id: participant
|
575
|
+
|
576
|
+
twelve_mth_saq_2:
|
577
|
+
r_p_id: participant
|
578
|
+
|
579
|
+
twelve_mth_saq_3:
|
580
|
+
r_p_id: participant
|
581
|
+
|
582
|
+
twelve_mth_saq_formula_brand:
|
583
|
+
twelve_mth_saq_id: twelve_mth_saq
|
584
|
+
|
585
|
+
twelve_mth_saq_formula_brand_2:
|
586
|
+
twelve_mth_saq_id: twelve_mth_saq_2
|
587
|
+
|
588
|
+
twelve_mth_saq_formula_type:
|
589
|
+
twelve_mth_saq_id: twelve_mth_saq
|
590
|
+
|
591
|
+
twelve_mth_saq_formula_type_2:
|
592
|
+
twelve_mth_saq_id: twelve_mth_saq_2
|
593
|
+
|
594
|
+
twelve_mth_saq_supplement:
|
595
|
+
twelve_mth_saq_id: twelve_mth_saq
|
596
|
+
|
597
|
+
twelve_mth_saq_supplement_2:
|
598
|
+
twelve_mth_saq_id: twelve_mth_saq_2
|
599
|
+
|
600
|
+
twelve_mth_saq_water:
|
601
|
+
twelve_mth_saq_id: twelve_mth_saq
|
602
|
+
|
603
|
+
twelve_mth_saq_water_2:
|
604
|
+
twelve_mth_saq_id: twelve_mth_saq_2
|
605
|
+
|
606
|
+
twenty_four_mth_mother:
|
607
|
+
c_addr1_id: address
|
608
|
+
c_addr2_id: address
|
609
|
+
r_p_id: participant
|
610
|
+
|
611
|
+
twenty_four_mth_mother_2:
|
612
|
+
c_addr1_id: address
|
613
|
+
c_addr2_id: address
|
614
|
+
r_p_id: participant
|
615
|
+
|
616
|
+
twenty_four_mth_mother_3:
|
617
|
+
r_p_id: participant
|
618
|
+
work_address_id: address
|
619
|
+
work_address_a_id: address
|
620
|
+
|
621
|
+
twenty_four_mth_mother_otc:
|
622
|
+
twenty_four_mth_mother_id: twenty_four_mth_mother
|
623
|
+
|
624
|
+
twenty_four_mth_mother_prescr:
|
625
|
+
twenty_four_mth_mother_id: twenty_four_mth_mother
|
626
|
+
|
627
|
+
twenty_four_mth_mother_suppl:
|
628
|
+
twenty_four_mth_mother_id: twenty_four_mth_mother
|
629
|
+
|
630
|
+
twenty_four_mth_saq:
|
631
|
+
asq24_address_id: address
|
632
|
+
r_p_id: participant
|
633
|
+
|
634
|
+
twenty_four_mth_saq_2:
|
635
|
+
r_p_id: participant
|
636
|
+
asq24_address_id: address
|
637
|
+
home_phone_id: telephone
|
638
|
+
|
639
|
+
twenty_mth_asq_saq:
|
640
|
+
r_p_id: participant
|
641
|
+
asq20_address_id: address
|
642
|
+
home_phone_id: telephone
|
643
|
+
|
644
|
+
twenty_seven_mth_asq_saq:
|
645
|
+
r_p_id: participant
|
646
|
+
asq27_address_id: address
|
647
|
+
home_phone_id: telephone
|
648
|
+
|
649
|
+
twenty_two_mth_asq_saq:
|
650
|
+
r_p_id: participant
|
651
|
+
asq22_address_id: address
|
652
|
+
home_phone_id: telephone
|
653
|
+
|
654
|
+
validation_ins_2:
|
655
|
+
r_p_id: participant
|
656
|
+
phone_nbr_id: telephone
|
@@ -57,6 +57,8 @@ module NcsNavigator::Mdes
|
|
57
57
|
create('2.2', '2.2/NCS_Transmission_Schema_2.2.01.01.xsd', '2.2.01.01')
|
58
58
|
when '3.0'
|
59
59
|
create('3.0', '3.0/NCS_Transmission_Schema_3.0.00.09.xsd', '3.0.00.09')
|
60
|
+
when '3.1'
|
61
|
+
create('3.1', '3.1/NCS_Transmission_Schema_3.1.00.00.xsd', '3.1.00.00')
|
60
62
|
else
|
61
63
|
raise "MDES #{version} is not supported by this version of ncs_mdes"
|
62
64
|
end
|