cqm-reports 4.0.1 → 4.1.1
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- checksums.yaml +4 -4
- data/Gemfile +1 -4
- data/lib/html-export/qdm-patient/data_element/_data_element_other_fields.mustache +1 -1
- data/lib/html-export/qdm-patient/qdm_patient.rb +22 -5
- data/lib/qrda-export/catI-r5/qrda1_r5.rb +12 -0
- data/lib/qrda-export/catI-r5/qrda_header/_participant.mustache +3 -2
- data/lib/qrda-export/catI-r5/qrda_header/_record_target.mustache +9 -0
- data/lib/qrda-export/catI-r5/qrda_templates/encounter_performed.mustache +49 -56
- data/lib/qrda-export/catI-r5/qrda_templates/medication_discharge.mustache +1 -1
- data/lib/qrda-export/catI-r5/qrda_templates/medication_dispensed.mustache +1 -1
- data/lib/qrda-export/catI-r5/qrda_templates/medication_order.mustache +1 -1
- data/lib/qrda-export/catI-r5/qrda_templates/template_partials/_medication_details.mustache +1 -1
- data/lib/qrda-export/catIII/_header.mustache +2 -4
- data/lib/qrda-export/catIII/_measure_section.mustache +2 -2
- data/lib/qrda-export/catIII/qrda_header/_participant_ehr.mustache +4 -1
- data/lib/qrda-export/helper/aggregate_object_helper.rb +10 -10
- data/lib/qrda-export/helper/cat1_view_helper.rb +23 -5
- data/lib/qrda-export/helper/view_helper.rb +9 -1
- data/lib/qrda-import/base-importers/section_importer.rb +32 -4
- data/lib/qrda-import/data-element-importers/encounter_performed_importer.rb +12 -12
- data/lib/qrda-import/data-element-importers/medication_discharge_importer.rb +1 -1
- data/lib/qrda-import/data-element-importers/medication_dispensed_importer.rb +1 -1
- data/lib/qrda-import/data-element-importers/medication_order_importer.rb +1 -1
- data/lib/qrda-import/data-element-importers/substance_order_importer.rb +1 -1
- data/lib/qrda-import/data-element-importers/substance_recommended_importer.rb +1 -1
- data/lib/qrda-import/patient_importer.rb +22 -6
- data/lib/util/hqmf_template_helper.rb +4 -4
- metadata +5 -11
checksums.yaml
CHANGED
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@@ -1,7 +1,7 @@
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1
1
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---
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2
2
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SHA256:
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3
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-
metadata.gz:
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4
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-
data.tar.gz:
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3
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+
metadata.gz: 253b7e13bd3b5c1755304e4ea37ddb94bbe59a4a94692c59c4bf9332ec56a6ee
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4
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+
data.tar.gz: 22e3f623d94257e68e0902ab7787e2d97305412d85619010b0ee5b52ac66d792
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5
5
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SHA512:
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6
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-
metadata.gz:
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|
7
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-
data.tar.gz:
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6
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+
metadata.gz: fad5c31a8d282ed50d4d628bb0ceb3bef287a00a1acf26232766e12db2a080585825cbb65293bea9b5f8818c0fc9b72fb2205f5af34a37a42f8b05bc658a525e
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7
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+
data.tar.gz: 725ddfa8f662591803a2a578637ebff876597f62c67156b6fad8064fa7b5c7b10a9e82383cbbedfbc96e34b7b77afb7d06705065b5c509a10c071c12f0831fa2
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data/Gemfile
CHANGED
|
@@ -2,13 +2,11 @@ source 'https://rubygems.org'
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2
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3
3
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gemspec :development_group => :test
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-
gem 'mongoid', '~> 6.4.2'
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-
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gem 'protected_attributes_continued'
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group :development, :test do
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gem 'bundler-audit'
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-
gem 'rubocop', '~> 0.
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9
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+
gem 'rubocop', '~> 0.93.0', require: false
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12
10
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end
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group :development do
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@@ -18,7 +16,6 @@ end
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group :test do
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gem 'cqm-models', '~> 4.0'
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-
gem 'factory_girl', '~> 4.1.0'
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gem 'tailor', '~> 1.1.2'
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23
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gem 'cane', '~> 2.3.0'
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21
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gem 'codecov'
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@@ -49,7 +49,7 @@
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49
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{{/daysSupplied}}
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{{#diagnoses}}
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<div class="div-head-row">
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-
<div class="div-table-head--no-border"><span class="criteria-heading">Diagnosis{{{
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52
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+
<div class="div-table-head--no-border"><span class="criteria-heading">Diagnosis:</span> {{{nested_code_string}}} {{{diagnosis_string}}}</div>
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</div>
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{{/diagnoses}}
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{{#dischargeDisposition}}
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|
@@ -10,6 +10,7 @@ class QdmPatient < Mustache
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10
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@patient = patient
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11
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@qdmPatient = patient.qdmPatient
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@patient_addresses = patient['addresses']
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+
@patient_email = patient['email']
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@patient_telecoms = patient['telecoms']
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end
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@@ -35,6 +36,7 @@ class QdmPatient < Mustache
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35
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def patient_telecoms
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36
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@patient_telecoms ||= [CQM::Telecom.new(use: 'HP', value: '555-555-2003')]
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37
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# create formatted telecoms
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+
@patient_telecoms << CQM::Telecom.new(use: 'HP', value: @patient_email) if @patient_email
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@patient_telecoms.map { |telecom| "(#{telecom['use']}) #{telecom['value']}" }.join("<br>")
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end
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@@ -52,8 +54,14 @@ class QdmPatient < Mustache
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end
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def unit_string
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-
return
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-
"#{self['value']} #{self['unit']}"
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+
return trimed_value(self['value']).to_s if !self['unit'] || self['unit'] == '1'
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"#{trimed_value(self['value'])} #{self['unit']}"
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end
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def trimed_value(number)
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i = number.to_i
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f = number.to_f
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i == f ? i : f
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end
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def entity_string
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@@ -120,15 +128,24 @@ class QdmPatient < Mustache
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120
128
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return unit_string if self['value']
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return code_code_system_string if self['code']
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-
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+
# Checks to see if the result is a DateTime value, String, or Numeric
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begin
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DateTime.parse(self['result'])
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rescue ArgumentError, TypeError
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# If the value is not numeric, just print out the result
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self['result'].is_a?(Numeric) ? trimed_value(self['result']) : self['result']
|
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+
end
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124
138
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end
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def nested_code_string
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127
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code_for_element(self['code'])
|
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128
142
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end
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-
def
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-
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+
def diagnosis_string
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dx_string = ''
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dx_string += "</br> rank: #{self['rank']}" if self['rank']
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dx_string += "</br> presentOnAdmissionIndicator: #{self['presentOnAdmissionIndicator']['code']}" if self['presentOnAdmissionIndicator']
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dx_string
|
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132
149
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end
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133
150
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134
151
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def end_time?
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@@ -16,9 +16,12 @@ class Qrda1R5 < Mustache
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@provider = options[:provider]
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@patient_address_option = options[:patient_addresses]
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@patient_telecom_option = options[:patient_telecoms]
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+
@patient_email_option = options[:patient_email]
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@performance_period_start = options[:start_time]
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@performance_period_end = options[:end_time]
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@submission_program = options[:submission_program]
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@medicare_beneficiary_identifier = options[:medicare_beneficiary_identifier]
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@hicn = options[:hicn]
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end
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def patient_addresses
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@@ -41,6 +44,15 @@ class Qrda1R5 < Mustache
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JSON.parse(@patient_telecom_option.to_json)
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45
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end
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47
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+
def patient_email
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return unless @patient_email_option
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49
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telecom_email = [CQM::Telecom.new(
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use: 'HP',
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value: @patient_email_option
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)]
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JSON.parse(telecom_email.to_json)
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end
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def patient_characteristic_payer
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JSON.parse(@qdmPatient.get_data_elements('patient_characteristic', 'payer').to_json)
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end
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@@ -1,7 +1,8 @@
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<participant typeCode="DEV">
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<associatedEntity classCode="RGPR">
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<!-- CMS EHR Certification Number (formerly known as Office of the
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National Coordinator Certification Number)
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National Coordinator Certification Number). Note, this is a test
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file, and the provided ID is not for a certified product set. -->
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<id extension="0015CPV4ZTB4WBU" root="2.16.840.1.113883.3.2074.1"/>
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</associatedEntity>
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</participant>
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@@ -1,6 +1,12 @@
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<recordTarget>
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<patientRole>
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<id extension="{{mrn}}" root="1.3.6.1.4.1.115" />
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{{#medicare_beneficiary_identifier}}
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<id extension="{{medicare_beneficiary_identifier}}" root="2.16.840.1.113883.4.927" />
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{{/medicare_beneficiary_identifier}}
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{{#hicn}}
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<id extension="{{hicn}}" root="2.16.840.1.113883.4.572" />
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{{/hicn}}
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{{#patient_addresses}}
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<addr use="{{use}}">
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{{#street}}
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@@ -15,6 +21,9 @@
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{{#patient_telecoms}}
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<telecom use="{{use}}" value="tel:{{value}}"/>
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{{/patient_telecoms}}
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+
{{#patient_email}}
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<telecom use="{{use}}" value="mailto:{{value}}"/>
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{{/patient_email}}
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<patient>
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{{#patient}}
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<name>
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@@ -1,58 +1,51 @@
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<entry>
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-
<
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<!--Encounter
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<templateId extension="
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<
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{{#relatedTo}}
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52
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-
<!-- QDM Attribute: relatedTo -->
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{{> qrda_templates/template_partials/_related_to}}
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{{/relatedTo}}
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</encounter>
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-
</entryRelationship>
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-
</act>
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2
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+
<encounter classCode="ENC" moodCode="EVN">
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3
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<!-- Encounter activities template -->
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4
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+
<templateId extension="2015-08-01" root="2.16.840.1.113883.10.20.22.4.49"/>
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5
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+
<!-- Encounter performed template -->
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6
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+
<templateId extension="2021-08-01" root="2.16.840.1.113883.10.20.24.3.23"/>
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7
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+
<id extension="{{object_id}}" root="1.3.6.1.4.1.115"/>
|
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8
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+
<!-- QDM Attribute: Code -->
|
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9
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+
{{> _codes}}
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10
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<text>{{description}}</text>
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11
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<statusCode code="completed"/>
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12
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+
{{#relevantPeriod}}
|
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13
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+
<!-- QDM Attribute: Relevant Period -->
|
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14
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{{{relevant_period}}}
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15
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{{/relevantPeriod}}
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{{#dischargeDisposition}}
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+
<!-- QDM Attribute: Discharge Disposition -->
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18
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<sdtc:dischargeDispositionCode {{> _code}}/>
|
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19
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{{/dischargeDisposition}}
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20
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+
{{#authorDatetime}}
|
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21
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+
<!-- QDM Attribute: Author dateTime -->
|
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22
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+
{{> qrda_templates/template_partials/_author}}
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23
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+
{{/authorDatetime}}
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24
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+
{{#facilityLocations}}
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+
<!-- QDM Attribute: Facility Locations -->
|
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{{> qrda_templates/template_partials/_facility_location}}
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{{/facilityLocations}}
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{{#admissionSource}}
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<!-- QDM Attribute: Admission Source -->
|
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{{> qrda_templates/template_partials/_admission_source}}
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{{/admissionSource}}
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{{#participant}}
|
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33
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+
<!-- QDM Attribute: Participant -->
|
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34
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<participant typeCode="PRF">
|
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35
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{{> qrda_templates/template_partials/_entity}}
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</participant>
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{{/participant}}
|
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38
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+
{{#clazz}}
|
|
39
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+
<!-- QDM Attribute: Class -->
|
|
40
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+
{{> qrda_templates/template_partials/_encounter_class}}
|
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41
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{{/clazz}}
|
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42
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+
{{#diagnoses}}
|
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43
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+
<!-- QDM Attribute: Diagnoses -->
|
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44
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{{> qrda_templates/template_partials/_encounter_diagnosis_qdm}}
|
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{{/diagnoses}}
|
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{{#relatedTo}}
|
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47
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+
<!-- QDM Attribute: relatedTo -->
|
|
48
|
+
{{> qrda_templates/template_partials/_related_to}}
|
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49
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{{/relatedTo}}
|
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50
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+
</encounter>
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58
51
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</entry>
|
|
@@ -3,10 +3,8 @@
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3
3
|
<typeId root="2.16.840.1.113883.1.3" extension="POCD_HD000040"/>
|
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4
4
|
<!-- US Realm Header Template Id -->
|
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5
5
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<templateId root="2.16.840.1.113883.10.20.27.1.1" extension="2020-12-01"/>
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<templateId root="2.16.840.1.113883.10.20.27.1.2" extension="2021-07-01"/>
|
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9
|
-
{{/ry2022_submission?}}
|
|
6
|
+
<!-- QRDA Category III Report - CMS (V7) -->
|
|
7
|
+
<templateId root="2.16.840.1.113883.10.20.27.1.2" extension="2022-12-01"/>
|
|
10
8
|
<!-- This is the globally unique identifier for this QRDA document -->
|
|
11
9
|
<id root="{{random_id}}"/>
|
|
12
10
|
<!-- QRDA III document type code -->
|
|
@@ -11,7 +11,7 @@
|
|
|
11
11
|
<!-- QRDA Category III Measure Section template -->
|
|
12
12
|
<templateId extension="2020-12-01" root="2.16.840.1.113883.10.20.27.2.1"/>
|
|
13
13
|
<!-- QRDA Category III Measure Section - CMS (V4) -->
|
|
14
|
-
<templateId extension="
|
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14
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+
<templateId extension="2022-05-01" root="2.16.840.1.113883.10.20.27.2.3"/>
|
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15
15
|
<code code="55186-1" codeSystem="2.16.840.1.113883.6.1"/>
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16
16
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<title>Measure Section</title>
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<text>
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@@ -41,7 +41,7 @@
|
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41
41
|
<templateId root="2.16.840.1.113883.10.20.24.3.98"/>
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42
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<!-- SHALL 1..* (one for each referenced measure) Measure Reference and Results template -->
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<templateId extension="2020-12-01" root="2.16.840.1.113883.10.20.27.3.1"/>
|
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44
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-
<templateId extension="
|
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44
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+
<templateId extension="2022-05-01" root="2.16.840.1.113883.10.20.27.3.17"/>
|
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45
45
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<id extension="{{random_id}}" root="1.3.6.1.4.1.115"/>
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46
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<statusCode code="completed"/>
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47
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<!-- Containing isBranch external references -->
|
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@@ -1,6 +1,9 @@
|
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1
1
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<participant typeCode="DEV">
|
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2
2
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<associatedEntity classCode="RGPR">
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3
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-
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3
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+
<!-- CMS EHR Certification Number (formerly known as Office of the
|
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4
|
+
National Coordinator Certification Number). Note, this is a test
|
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5
|
+
file, and the provided ID is not for a certified product set. -->
|
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6
|
+
<id root="2.16.840.1.113883.3.2074.1" extension="0015CPV4ZTB4WBU"/>
|
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4
7
|
<code code="129465004" displayName="medical record, device" codeSystem="2.16.840.1.113883.6.96" codeSystemName="SNOMED-CT"/>
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5
8
|
</associatedEntity>
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6
9
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</participant>
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@@ -3,23 +3,23 @@ module Qrda
|
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3
3
|
module Helper
|
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4
4
|
module PopulationSelectors
|
|
5
5
|
def numerator
|
|
6
|
-
populations.find {|pop| pop.type == 'NUMER'}
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6
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+
populations.find { |pop| pop.type == 'NUMER' }
|
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7
7
|
end
|
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8
8
|
|
|
9
9
|
def denominator
|
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10
|
-
populations.find {|pop| pop.type == 'DENOM'}
|
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10
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+
populations.find { |pop| pop.type == 'DENOM' }
|
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11
11
|
end
|
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12
12
|
|
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13
13
|
def denominator_exceptions
|
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14
|
-
populations.find {|pop| pop.type == 'DENEXCEP'}
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+
populations.find { |pop| pop.type == 'DENEXCEP' }
|
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15
15
|
end
|
|
16
16
|
|
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17
17
|
def denominator_exclusions
|
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18
|
-
populations.find {|pop| pop.type == 'DENEX'}
|
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+
populations.find { |pop| pop.type == 'DENEX' }
|
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19
19
|
end
|
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20
20
|
|
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21
21
|
def population_count(population_type, population_id)
|
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22
|
-
population = populations.find {|pop| pop.type == population_type && pop.id == population_id}
|
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22
|
+
population = populations.find { |pop| pop.type == population_type && pop.id == population_id }
|
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23
23
|
if population
|
|
24
24
|
population.value
|
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|
else
|
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@@ -28,7 +28,7 @@ module Qrda
|
|
|
28
28
|
end
|
|
29
29
|
|
|
30
30
|
def population_id(population_type)
|
|
31
|
-
populations.find {|pop| pop.type == population_type}.id
|
|
31
|
+
populations.find { |pop| pop.type == population_type }.id
|
|
32
32
|
end
|
|
33
33
|
|
|
34
34
|
def method_missing(method, *args, &block)
|
|
@@ -64,7 +64,7 @@ module Qrda
|
|
|
64
64
|
end
|
|
65
65
|
|
|
66
66
|
def add_stratification(id,value,observation)
|
|
67
|
-
stratifications << Stratification.new(id,value,observation) unless stratifications.find {|st| st.id == id}
|
|
67
|
+
stratifications << Stratification.new(id,value,observation) unless stratifications.find { |st| st.id == id }
|
|
68
68
|
end
|
|
69
69
|
|
|
70
70
|
end
|
|
@@ -91,7 +91,7 @@ module Qrda
|
|
|
91
91
|
end
|
|
92
92
|
|
|
93
93
|
def is_cv?
|
|
94
|
-
populations.any? {|pop| pop.type == 'MSRPOPL'}
|
|
94
|
+
populations.any? { |pop| pop.type == 'MSRPOPL' }
|
|
95
95
|
end
|
|
96
96
|
|
|
97
97
|
end
|
|
@@ -123,7 +123,7 @@ module Qrda
|
|
|
123
123
|
end
|
|
124
124
|
entry_populations << population if population
|
|
125
125
|
end
|
|
126
|
-
return if population_groups.find {|pg| pg.populations.collect(&:id).compact.sort == entry_populations.collect(&:id).compact.sort }
|
|
126
|
+
return if population_groups.find { |pg| pg.populations.collect(&:id).compact.sort == entry_populations.collect(&:id).compact.sort }
|
|
127
127
|
|
|
128
128
|
pg = PopulationGroup.new
|
|
129
129
|
pg.populations = entry_populations
|
|
@@ -142,7 +142,7 @@ module Qrda
|
|
|
142
142
|
end
|
|
143
143
|
|
|
144
144
|
def is_cv?
|
|
145
|
-
populations.any? {|pop| pop.type == 'MSRPOPL'}
|
|
145
|
+
populations.any? { |pop| pop.type == 'MSRPOPL' }
|
|
146
146
|
end
|
|
147
147
|
end
|
|
148
148
|
end
|
|
@@ -55,22 +55,30 @@ module Qrda
|
|
|
55
55
|
self['value'].to_f
|
|
56
56
|
end
|
|
57
57
|
|
|
58
|
+
def refills_as_repeat_number
|
|
59
|
+
self['refills'] + 1
|
|
60
|
+
end
|
|
61
|
+
|
|
58
62
|
def dose_quantity_value
|
|
59
|
-
return "<doseQuantity value=\"#{value_as_float}\" unit=\"#{self['unit']}\"/>" if self['unit']
|
|
63
|
+
return "<doseQuantity value=\"#{value_as_float}\" unit=\"#{self['unit']}\"/>" if self['unit'] && self['unit'] != ''
|
|
60
64
|
"<doseQuantity value=\"#{value_as_float}\" />"
|
|
61
65
|
end
|
|
62
66
|
|
|
63
67
|
def result_value
|
|
64
68
|
return "<value xsi:type=\"CD\" nullFlavor=\"UNK\"/>" unless self['result']
|
|
65
|
-
|
|
66
69
|
result_string = if self['result'].is_a? Array
|
|
67
70
|
result_value_as_string(self['result'][0])
|
|
68
71
|
elsif self['result'].is_a? Hash
|
|
69
72
|
result_value_as_string(self['result'])
|
|
70
73
|
elsif self['result'].is_a? String
|
|
71
|
-
|
|
74
|
+
begin
|
|
75
|
+
DateTime.parse self['result']
|
|
76
|
+
"<value xsi:type=\"TS\" #{value_or_null_flavor(self['result'])}/>"
|
|
77
|
+
rescue StandardError
|
|
78
|
+
"<value xsi:type=\"ST\">#{self['result']}</value>"
|
|
79
|
+
end
|
|
72
80
|
elsif !self['result'].nil?
|
|
73
|
-
|
|
81
|
+
integer_or_pq(self['result'])
|
|
74
82
|
end
|
|
75
83
|
result_string
|
|
76
84
|
end
|
|
@@ -79,7 +87,17 @@ module Qrda
|
|
|
79
87
|
return "<value xsi:type=\"CD\" nullFlavor=\"UNK\"/>" unless result
|
|
80
88
|
oid = result['system'] || result['codeSystem']
|
|
81
89
|
return "<value xsi:type=\"CD\" code=\"#{result['code']}\" codeSystem=\"#{oid}\" codeSystemName=\"#{HQMF::Util::CodeSystemHelper.code_system_for(oid)}\"/>" if result['code']
|
|
82
|
-
return
|
|
90
|
+
return integer_or_pq(result['value'], result['unit']) if result['unit'] && result['unit'] != ''
|
|
91
|
+
end
|
|
92
|
+
|
|
93
|
+
def integer_or_pq(number, unit = nil)
|
|
94
|
+
i = number.to_i
|
|
95
|
+
f = number.to_f
|
|
96
|
+
if i == f
|
|
97
|
+
unit ? "<value xsi:type=\"PQ\" value=\"#{i}\" unit=\"#{unit}\"/>" : "<value xsi:type=\"INT\" value=\"#{i}\"/>"
|
|
98
|
+
else
|
|
99
|
+
unit ? "<value xsi:type=\"PQ\" value=\"#{f}\" unit=\"#{unit}\"/>" : "<value xsi:type=\"REAL\" value=\"#{f}\"/>"
|
|
100
|
+
end
|
|
83
101
|
end
|
|
84
102
|
|
|
85
103
|
def authordatetime_or_dispenserid?
|
|
@@ -4,7 +4,7 @@ module Qrda
|
|
|
4
4
|
module Helper
|
|
5
5
|
module ViewHelper
|
|
6
6
|
def measures
|
|
7
|
-
@measures.
|
|
7
|
+
@measures.as_json
|
|
8
8
|
end
|
|
9
9
|
|
|
10
10
|
def random_id
|
|
@@ -22,6 +22,14 @@ module Qrda
|
|
|
22
22
|
def submission_program
|
|
23
23
|
@submission_program
|
|
24
24
|
end
|
|
25
|
+
|
|
26
|
+
def medicare_beneficiary_identifier
|
|
27
|
+
@medicare_beneficiary_identifier
|
|
28
|
+
end
|
|
29
|
+
|
|
30
|
+
def hicn
|
|
31
|
+
@hicn
|
|
32
|
+
end
|
|
25
33
|
end
|
|
26
34
|
end
|
|
27
35
|
end
|
|
@@ -47,8 +47,8 @@ module QRDA
|
|
|
47
47
|
entry_qrda_id = extract_id(entry_element, @id_xpath)
|
|
48
48
|
# Create a hash to map all of entry.ids to the same QRDA ids. This will be used to merge QRDA entries
|
|
49
49
|
# that represent the same event.
|
|
50
|
-
@entry_id_map["#{entry_qrda_id.value}
|
|
51
|
-
@entry_id_map["#{entry_qrda_id.value}
|
|
50
|
+
@entry_id_map["#{entry_qrda_id.value}***#{entry_qrda_id.namingSystem}"] ||= []
|
|
51
|
+
@entry_id_map["#{entry_qrda_id.value}***#{entry_qrda_id.namingSystem}"] << entry.id
|
|
52
52
|
entry.dataElementCodes = extract_codes(entry_element, @code_xpath)
|
|
53
53
|
extract_dates(entry_element, entry)
|
|
54
54
|
if @result_xpath
|
|
@@ -77,7 +77,13 @@ module QRDA
|
|
|
77
77
|
code_list << code_if_present(code_element)
|
|
78
78
|
translations = code_element.xpath('cda:translation')
|
|
79
79
|
translations.each do |translation|
|
|
80
|
-
|
|
80
|
+
translation_code = code_if_present(translation)
|
|
81
|
+
next unless translation_code
|
|
82
|
+
|
|
83
|
+
code_list << translation_code
|
|
84
|
+
root_code_string = "#{code_list[0].system}:#{code_list[0].code}"
|
|
85
|
+
@warnings << ValidationError.new(message: "Translation code #{translation_code.system}:#{translation_code.code} may not be used for eCQM calculation by a receiving system. Ensure that the root code #{root_code_string} is from an eCQM valueset.",
|
|
86
|
+
location: coded_element.path)
|
|
81
87
|
end
|
|
82
88
|
end
|
|
83
89
|
code_list.compact
|
|
@@ -193,7 +199,14 @@ module QRDA
|
|
|
193
199
|
return unless value_element && !value_element['nullFlavor']
|
|
194
200
|
value = value_element['value']
|
|
195
201
|
if value.present?
|
|
196
|
-
|
|
202
|
+
if ['TS'].include? value_element.at_xpath("@xsi:type")&.value
|
|
203
|
+
begin
|
|
204
|
+
return DateTime.parse(value_element['value'])
|
|
205
|
+
rescue StandardError
|
|
206
|
+
return nil
|
|
207
|
+
end
|
|
208
|
+
end
|
|
209
|
+
return value.strip.to_f if unitless?(value_element)
|
|
197
210
|
|
|
198
211
|
return QDM::Quantity.new(value.strip.to_f, value_element['unit'])
|
|
199
212
|
elsif value_element['code'].present?
|
|
@@ -208,6 +221,12 @@ module QRDA
|
|
|
208
221
|
end
|
|
209
222
|
end
|
|
210
223
|
|
|
224
|
+
def unitless?(value_element)
|
|
225
|
+
return true if value_element['unit'].nil?
|
|
226
|
+
return true if value_element['unit'] == '1'
|
|
227
|
+
return true if value_element['unit'][0] == '{' && value_element['unit'][-1] == '}'
|
|
228
|
+
end
|
|
229
|
+
|
|
211
230
|
def extract_reason(parent_element)
|
|
212
231
|
return unless @reason_xpath
|
|
213
232
|
reason_element = parent_element.xpath(@reason_xpath)
|
|
@@ -254,6 +273,15 @@ module QRDA
|
|
|
254
273
|
QDM::Quantity.new(scalar_element['value'].to_f, scalar_element['unit'])
|
|
255
274
|
end
|
|
256
275
|
|
|
276
|
+
def extract_refills(parent_element, repeat_number_xpath)
|
|
277
|
+
repeat_number_element = parent_element.at_xpath(repeat_number_xpath)
|
|
278
|
+
return unless repeat_number_element && repeat_number_element['value'].present?
|
|
279
|
+
|
|
280
|
+
# Refills is the Repeat Number - 1
|
|
281
|
+
repeat_number = repeat_number_element['value'].to_i
|
|
282
|
+
repeat_number.positive? ? repeat_number - 1 : 0
|
|
283
|
+
end
|
|
284
|
+
|
|
257
285
|
def extract_components(parent_element)
|
|
258
286
|
component_elements = parent_element.xpath(@components_xpath)
|
|
259
287
|
components = []
|
|
@@ -1,18 +1,18 @@
|
|
|
1
1
|
module QRDA
|
|
2
2
|
module Cat1
|
|
3
3
|
class EncounterPerformedImporter < SectionImporter
|
|
4
|
-
def initialize(entry_finder = QRDA::Cat1::EntryFinder.new("./cda:entry/cda:
|
|
4
|
+
def initialize(entry_finder = QRDA::Cat1::EntryFinder.new("./cda:entry/cda:encounter[cda:templateId/@root = '2.16.840.1.113883.10.20.24.3.23']"))
|
|
5
5
|
super(entry_finder)
|
|
6
|
-
@id_xpath = './cda:
|
|
7
|
-
@code_xpath = "./cda:
|
|
8
|
-
@relevant_period_xpath = "./cda:
|
|
9
|
-
@author_datetime_xpath = "./cda:
|
|
10
|
-
@admission_source_xpath = "./cda:
|
|
11
|
-
@discharge_disposition_xpath = "./
|
|
12
|
-
@facility_locations_xpath = "./cda:
|
|
13
|
-
@clazz_xpath = "./cda:entryRelationship/cda:
|
|
14
|
-
@diagnosis_xpath = "./cda:entryRelationship/cda:
|
|
15
|
-
@related_to_xpath = "./
|
|
6
|
+
@id_xpath = './cda:id'
|
|
7
|
+
@code_xpath = "./cda:code"
|
|
8
|
+
@relevant_period_xpath = "./cda:effectiveTime"
|
|
9
|
+
@author_datetime_xpath = "./cda:author[cda:templateId/@root='2.16.840.1.113883.10.20.24.3.155']/cda:time"
|
|
10
|
+
@admission_source_xpath = "./cda:participant/cda:participantRole[cda:templateId/@root='2.16.840.1.113883.10.20.24.3.151']/cda:code"
|
|
11
|
+
@discharge_disposition_xpath = "./sdtc:dischargeDispositionCode"
|
|
12
|
+
@facility_locations_xpath = "./cda:participant[cda:templateId/@root = '2.16.840.1.113883.10.20.24.3.100']"
|
|
13
|
+
@clazz_xpath = "./cda:entryRelationship/cda:act[cda:templateId/@root='2.16.840.1.113883.10.20.24.3.171']/cda:code"
|
|
14
|
+
@diagnosis_xpath = "./cda:entryRelationship/cda:observation[cda:templateId/@root='2.16.840.1.113883.10.20.24.3.168']"
|
|
15
|
+
@related_to_xpath = "./sdtc:inFulfillmentOf1/sdtc:actReference"
|
|
16
16
|
@entry_class = QDM::EncounterPerformed
|
|
17
17
|
end
|
|
18
18
|
|
|
@@ -27,7 +27,7 @@ module QRDA
|
|
|
27
27
|
los = encounter_performed.relevantPeriod.high.to_date - encounter_performed.relevantPeriod.low.to_date
|
|
28
28
|
encounter_performed.lengthOfStay = QDM::Quantity.new(los.to_i, 'd')
|
|
29
29
|
end
|
|
30
|
-
entity = extract_entity(entry_element, "./cda:
|
|
30
|
+
entity = extract_entity(entry_element, "./cda:participant[@typeCode='PRF']")
|
|
31
31
|
encounter_performed.participant.concat(entity) if entity
|
|
32
32
|
extract_modifier_code(encounter_performed, entry_element)
|
|
33
33
|
encounter_performed.relatedTo = extract_related_to(entry_element)
|
|
@@ -18,7 +18,7 @@ module QRDA
|
|
|
18
18
|
|
|
19
19
|
def create_entry(entry_element, nrh = NarrativeReferenceHandler.new)
|
|
20
20
|
medication_discharge = super
|
|
21
|
-
medication_discharge.refills =
|
|
21
|
+
medication_discharge.refills = extract_refills(entry_element, @refills_xpath)
|
|
22
22
|
medication_discharge.dosage = extract_scalar(entry_element, @dosage_xpath)
|
|
23
23
|
medication_discharge.supply = extract_scalar(entry_element, @supply_xpath)
|
|
24
24
|
medication_discharge.frequency = frequency_as_coded_value(entry_element, @frequency_xpath)
|
|
@@ -19,7 +19,7 @@ module QRDA
|
|
|
19
19
|
|
|
20
20
|
def create_entry(entry_element, nrh = NarrativeReferenceHandler.new)
|
|
21
21
|
medication_dispensed = super
|
|
22
|
-
medication_dispensed.refills =
|
|
22
|
+
medication_dispensed.refills = extract_refills(entry_element, @refills_xpath)
|
|
23
23
|
medication_dispensed.dosage = extract_scalar(entry_element, @dosage_xpath)
|
|
24
24
|
medication_dispensed.supply = extract_scalar(entry_element, @supply_xpath)
|
|
25
25
|
medication_dispensed.frequency = frequency_as_coded_value(entry_element, @frequency_xpath)
|
|
@@ -25,7 +25,7 @@ module QRDA
|
|
|
25
25
|
medication_order.dosage = extract_scalar(entry_element, @dosage_xpath)
|
|
26
26
|
medication_order.supply = extract_scalar(entry_element, @supply_xpath)
|
|
27
27
|
medication_order.frequency = frequency_as_coded_value(entry_element, @frequency_xpath)
|
|
28
|
-
medication_order.refills =
|
|
28
|
+
medication_order.refills = extract_refills(entry_element, @refills_xpath)
|
|
29
29
|
medication_order.route = code_if_present(entry_element.at_xpath(@route_xpath))
|
|
30
30
|
medication_order.setting = code_if_present(entry_element.at_xpath(@setting_xpath))
|
|
31
31
|
medication_order.daysSupplied = extract_scalar(entry_element, @days_supplied_xpath)&.value
|
|
@@ -21,7 +21,7 @@ module QRDA
|
|
|
21
21
|
substance_order.dosage = extract_scalar(entry_element, @dosage_xpath)
|
|
22
22
|
substance_order.supply = extract_scalar(entry_element, @supply_xpath)
|
|
23
23
|
substance_order.frequency = frequency_as_coded_value(entry_element, @frequency_xpath)
|
|
24
|
-
substance_order.refills =
|
|
24
|
+
substance_order.refills = extract_refills(entry_element, @refills_xpath)
|
|
25
25
|
substance_order.route = code_if_present(entry_element.at_xpath(@route_xpath))
|
|
26
26
|
substance_order.reason = extract_reason(entry_element)
|
|
27
27
|
substance_order
|
|
@@ -18,7 +18,7 @@ module QRDA
|
|
|
18
18
|
substance_recommended = super
|
|
19
19
|
substance_recommended.dosage = extract_scalar(entry_element, @dosage_xpath)
|
|
20
20
|
substance_recommended.frequency = frequency_as_coded_value(entry_element, @frequency_xpath)
|
|
21
|
-
substance_recommended.refills =
|
|
21
|
+
substance_recommended.refills = extract_refills(entry_element, @refills_xpath)
|
|
22
22
|
substance_recommended.route = code_if_present(entry_element.at_xpath(@route_xpath))
|
|
23
23
|
substance_recommended.reason = extract_reason(entry_element)
|
|
24
24
|
entity = extract_entity(entry_element, "./cda:participant[@typeCode='PRF']")
|
|
@@ -67,7 +67,7 @@ module QRDA
|
|
|
67
67
|
codes_modifiers = {}
|
|
68
68
|
entry_id_map = {}
|
|
69
69
|
import_data_elements(patient, doc, entry_id_map, codes, codes_modifiers, warnings)
|
|
70
|
-
normalize_references(patient, entry_id_map)
|
|
70
|
+
normalize_references(patient, entry_id_map, warnings)
|
|
71
71
|
get_demographics(patient, doc, codes)
|
|
72
72
|
[patient, warnings, codes, codes_modifiers]
|
|
73
73
|
end
|
|
@@ -80,9 +80,19 @@ module QRDA
|
|
|
80
80
|
data_elements, id_map = importer.create_entries(context, nrh)
|
|
81
81
|
new_data_elements = []
|
|
82
82
|
|
|
83
|
-
id_map.
|
|
84
|
-
|
|
83
|
+
id_map.each_pair do |key, elem_ids|
|
|
84
|
+
split_id = key.split('***')
|
|
85
|
+
id_string = "#{split_id[1]}(root), #{split_id[0]}(extension)"
|
|
86
|
+
warnings << ValidationError.new(message: "Two or more entries share the Id: #{id_string}.") if elem_ids.length > 1
|
|
87
|
+
elem_id = elem_ids.last
|
|
85
88
|
data_element = data_elements.find { |de| de.id == elem_id }
|
|
89
|
+
|
|
90
|
+
# If a data_element isn't returned, there was an issue parsing the template, provide a warning
|
|
91
|
+
if data_element.nil?
|
|
92
|
+
warnings << ValidationError.new(message: "Error parsing template with Id: #{id_string}.")
|
|
93
|
+
next
|
|
94
|
+
end
|
|
95
|
+
|
|
86
96
|
# Keep the first element with a shared ID
|
|
87
97
|
new_data_elements << data_element
|
|
88
98
|
|
|
@@ -94,7 +104,7 @@ module QRDA
|
|
|
94
104
|
unique_element_keys << key_elements_for_determining_encounter_uniqueness(data_element)
|
|
95
105
|
|
|
96
106
|
# Loop through all other data elements with the same id
|
|
97
|
-
elem_ids[
|
|
107
|
+
elem_ids[0,elem_ids.length - 1].each do |dup_id|
|
|
98
108
|
dup_element = data_elements.find { |de| de.id == dup_id }
|
|
99
109
|
dup_element_keys = key_elements_for_determining_encounter_uniqueness(dup_element)
|
|
100
110
|
# See if a previously selected data element shared all of the keys files
|
|
@@ -134,13 +144,19 @@ module QRDA
|
|
|
134
144
|
record.deathdate = DateTime.parse(entry_elements.at_xpath("./cda:effectiveTime/cda:low")['value']).to_i
|
|
135
145
|
end
|
|
136
146
|
|
|
137
|
-
def normalize_references(patient, entry_id_map)
|
|
147
|
+
def normalize_references(patient, entry_id_map, warnings)
|
|
138
148
|
patient.qdmPatient.dataElements.each do |data_element|
|
|
139
149
|
next unless data_element.respond_to?(:relatedTo) && data_element.relatedTo
|
|
140
150
|
|
|
141
151
|
relations_to_add = []
|
|
142
152
|
data_element.relatedTo.each do |related_to|
|
|
143
|
-
|
|
153
|
+
relation_to_add = entry_id_map["#{related_to['value']}***#{related_to['namingSystem']}"]
|
|
154
|
+
# Add the relation if it can be found, otherwise return a warning
|
|
155
|
+
relations_to_add += relation_to_add unless relation_to_add.nil?
|
|
156
|
+
if relation_to_add.nil?
|
|
157
|
+
id_warning_str = "Related To Id: #{related_to['namingSystem']}(root), #{related_to['value']}(extension) cannot be found in QRDA file."
|
|
158
|
+
warnings << ValidationError.new(message: id_warning_str)
|
|
159
|
+
end
|
|
144
160
|
end
|
|
145
161
|
data_element.relatedTo = relations_to_add.map(&:to_s)
|
|
146
162
|
end
|
|
@@ -3,7 +3,7 @@ module HQMF
|
|
|
3
3
|
# General helpers for working with codes and code systems
|
|
4
4
|
class HQMFTemplateHelper
|
|
5
5
|
|
|
6
|
-
def self.definition_for_template_id(template_id, version="r1")
|
|
6
|
+
def self.definition_for_template_id(template_id, version = "r1")
|
|
7
7
|
template_id_map(version)[template_id]
|
|
8
8
|
end
|
|
9
9
|
|
|
@@ -18,14 +18,14 @@ module HQMF
|
|
|
18
18
|
@id_map[version]
|
|
19
19
|
end
|
|
20
20
|
|
|
21
|
-
def self.template_id_by_definition_and_status(definition, status, negation
|
|
21
|
+
def self.template_id_by_definition_and_status(definition, status, negation, version)
|
|
22
22
|
case version
|
|
23
23
|
when "r1"
|
|
24
|
-
kv_pair = template_id_map(version).find {|k, v| v['definition'] == definition &&
|
|
24
|
+
kv_pair = template_id_map(version).find { |k, v| v['definition'] == definition &&
|
|
25
25
|
v['status'] == status &&
|
|
26
26
|
v['negation'] == negation}
|
|
27
27
|
when "r2", "r2cql"
|
|
28
|
-
kv_pair = template_id_map(version).find {|k, v| v['definition'] == definition &&
|
|
28
|
+
kv_pair = template_id_map(version).find { |k, v| v['definition'] == definition &&
|
|
29
29
|
v['status'] == status}
|
|
30
30
|
end
|
|
31
31
|
if kv_pair
|
metadata
CHANGED
|
@@ -1,14 +1,14 @@
|
|
|
1
1
|
--- !ruby/object:Gem::Specification
|
|
2
2
|
name: cqm-reports
|
|
3
3
|
version: !ruby/object:Gem::Version
|
|
4
|
-
version: 4.
|
|
4
|
+
version: 4.1.1
|
|
5
5
|
platform: ruby
|
|
6
6
|
authors:
|
|
7
7
|
- The MITRE Corporation
|
|
8
8
|
autorequire:
|
|
9
9
|
bindir: bin
|
|
10
10
|
cert_chain: []
|
|
11
|
-
date:
|
|
11
|
+
date: 2024-05-03 00:00:00.000000000 Z
|
|
12
12
|
dependencies:
|
|
13
13
|
- !ruby/object:Gem::Dependency
|
|
14
14
|
name: cqm-models
|
|
@@ -86,20 +86,14 @@ dependencies:
|
|
|
86
86
|
requirements:
|
|
87
87
|
- - ">="
|
|
88
88
|
- !ruby/object:Gem::Version
|
|
89
|
-
version: 1.
|
|
90
|
-
- - "<"
|
|
91
|
-
- !ruby/object:Gem::Version
|
|
92
|
-
version: 1.14.0
|
|
89
|
+
version: 1.16.2
|
|
93
90
|
type: :runtime
|
|
94
91
|
prerelease: false
|
|
95
92
|
version_requirements: !ruby/object:Gem::Requirement
|
|
96
93
|
requirements:
|
|
97
94
|
- - ">="
|
|
98
95
|
- !ruby/object:Gem::Version
|
|
99
|
-
version: 1.
|
|
100
|
-
- - "<"
|
|
101
|
-
- !ruby/object:Gem::Version
|
|
102
|
-
version: 1.14.0
|
|
96
|
+
version: 1.16.2
|
|
103
97
|
- !ruby/object:Gem::Dependency
|
|
104
98
|
name: uuid
|
|
105
99
|
requirement: !ruby/object:Gem::Requirement
|
|
@@ -365,7 +359,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
|
|
|
365
359
|
- !ruby/object:Gem::Version
|
|
366
360
|
version: '0'
|
|
367
361
|
requirements: []
|
|
368
|
-
rubygems_version: 3.1.
|
|
362
|
+
rubygems_version: 3.1.4
|
|
369
363
|
signing_key:
|
|
370
364
|
specification_version: 4
|
|
371
365
|
summary: A library for import and export of reports for use with electronic Clinical
|