fhir_client 4.0.1 → 4.0.6
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- checksums.yaml +4 -4
- data/.github/workflows/ruby.yml +26 -0
- data/Gemfile +0 -1
- data/README.md +7 -2
- data/Rakefile +1 -1
- data/fhir_client.gemspec +7 -6
- data/lib/fhir_client.rb +5 -0
- data/lib/fhir_client/client.rb +12 -8
- data/lib/fhir_client/sections/search.rb +10 -22
- data/lib/fhir_client/version.rb +1 -1
- metadata +20 -18
- data/.travis.yml +0 -19
checksums.yaml
CHANGED
@@ -1,7 +1,7 @@
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---
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SHA256:
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-
metadata.gz:
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data.tar.gz:
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metadata.gz: 7a320805ef8a57a99df11a56953314c3fd6243d0e05becea117695bd350965b3
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4
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data.tar.gz: 8f313d29a48f593964f28b1029fb7abb02f8de7131237815be1fe248ab326147
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SHA512:
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-
metadata.gz:
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data.tar.gz:
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metadata.gz: 756910586865db0f779cbafde0d65d56ba5fd4549de71dddd15319e87363518cae11601912dd346d65474eec1ef6a0fc8caf7514ff72ef4c987c003014069f4c
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7
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+
data.tar.gz: 96548027100932535419c6d8fd403e75997669cb3b83c644b66b195053f53e4af78d0ca7ef4bd15c06fb37e317e67b0aaa008a08426f38324391e7f5f14f812c
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@@ -0,0 +1,26 @@
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name: Ruby
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on:
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push:
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branches: [ master ]
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pull_request:
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branches: [ master ]
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jobs:
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test:
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runs-on: ubuntu-latest
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strategy:
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matrix:
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ruby-version: ['2.6', '2.7']
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steps:
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- uses: actions/checkout@v2
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- name: Set up Ruby
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uses: ruby/setup-ruby@v1
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with:
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ruby-version: ${{ matrix.ruby-version }}
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bundler-cache: true # runs 'bundle install' and caches installed gems automatically
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- name: Run tests
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run: bundle exec rake
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- name: Rubocop
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run: bundle exec rubocop
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data/Gemfile
CHANGED
data/README.md
CHANGED
@@ -151,9 +151,14 @@ client.destroy(FHIR::Patient, patient_id)
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151
151
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152
152
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### Searching
|
153
153
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```ruby
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154
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+
# via GET
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154
155
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reply = client.search(FHIR::Patient, search: {parameters: {name: 'P'}})
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156
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+
|
157
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+
# via POST
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158
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+
reply = client.search(FHIR::Patient, search: {body: {name: 'P'}})
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159
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+
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155
160
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bundle = reply.resource
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156
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-
patient = bundle
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161
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+
patient = bundle&.entry&.first&.resource
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157
162
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```
|
158
163
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|
159
164
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### Fetching a Bundle
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@@ -215,7 +220,7 @@ end
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215
220
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221
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# License
|
217
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|
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-
Copyright 2014-
|
223
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+
Copyright 2014-2022 The MITRE Corporation
|
219
224
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|
220
225
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Licensed under the Apache License, Version 2.0 (the "License");
|
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you may not use this file except in compliance with the License.
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data/Rakefile
CHANGED
data/fhir_client.gemspec
CHANGED
@@ -6,8 +6,9 @@ require 'fhir_client/version'
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|
6
6
|
Gem::Specification.new do |spec|
|
7
7
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spec.name = 'fhir_client'
|
8
8
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spec.version = FHIR::Client::VERSION
|
9
|
-
spec.authors = ['Andre Quina', 'Jason Walonoski', '
|
9
|
+
spec.authors = ['Andre Quina', 'Jason Walonoski', 'Robert Scanlon', 'Reece Adamson']
|
10
10
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spec.email = ['jwalonoski@mitre.org']
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11
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+
spec.licenses = ['Apache-2.0']
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11
12
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|
12
13
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spec.summary = %q{A Gem for handling FHIR client requests in ruby}
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13
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spec.description = %q{A Gem for handling FHIR client requests in ruby}
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@@ -22,17 +23,17 @@ Gem::Specification.new do |spec|
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spec.add_dependency 'activesupport', '>= 3'
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24
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spec.add_dependency 'addressable', '>= 2.3'
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25
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-
spec.add_dependency 'fhir_models', '>= 4.0.
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-
spec.add_dependency 'fhir_stu3_models', '>= 3.0.
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-
spec.add_dependency 'fhir_dstu2_models', '>= 1.0.
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-
spec.add_dependency 'nokogiri', '>= 1.
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+
spec.add_dependency 'fhir_models', '>= 4.0.2'
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+
spec.add_dependency 'fhir_stu3_models', '>= 3.0.1'
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28
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+
spec.add_dependency 'fhir_dstu2_models', '>= 1.0.10'
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+
spec.add_dependency 'nokogiri', '>= 1.10.4'
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29
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spec.add_dependency 'oauth2', '~> 1.1'
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spec.add_dependency 'rack', '>= 1.5'
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spec.add_dependency 'rest-client', '~> 2.0'
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spec.add_dependency 'tilt', '>= 1.1'
|
33
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|
34
35
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spec.add_development_dependency 'bundler', '~> 2.0'
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35
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-
spec.add_development_dependency 'rake', '
|
36
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+
spec.add_development_dependency 'rake', '>= 12.3.3'
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36
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spec.add_development_dependency 'pry'
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37
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spec.add_development_dependency 'webmock'
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38
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spec.add_development_dependency 'test-unit'
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data/lib/fhir_client.rb
CHANGED
@@ -3,6 +3,11 @@ require 'fhir_dstu2_models'
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3
3
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require 'fhir_stu3_models'
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4
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require 'active_support/all'
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5
5
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6
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# Default to INFO level logging for all FHIR namespaced logging. Since there is
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7
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+
# no single gem that 'owns' the FHIR namespace, we use the client as the spot
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8
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# to set the default. Otherwise the default is set to DEBUG, which is too high.
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9
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+
FHIR.logger.level = Logger::INFO
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10
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+
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6
11
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root = File.expand_path '.', File.dirname(File.absolute_path(__FILE__))
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7
12
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Dir.glob(File.join(root, 'fhir_client', 'sections', '**', '*.rb')).each do |file|
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8
13
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require file
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data/lib/fhir_client/client.rb
CHANGED
@@ -337,7 +337,6 @@ module FHIR
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|
337
337
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end
|
338
338
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end
|
339
339
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res.client = self unless res.nil?
|
340
|
-
FHIR.logger.warn "Expected #{klass} but got #{res.class}" if res.class != klass
|
341
340
|
rescue => e
|
342
341
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FHIR.logger.error "Failed to parse #{format} as resource #{klass}: #{e.message}"
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343
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res = nil
|
@@ -375,6 +374,7 @@ module FHIR
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|
375
374
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end
|
376
375
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|
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# Extract the request payload in the specified format, defaults to XML
|
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+
# Note that the payload is usually a resource, but could be a form post for searches depending on content type
|
378
378
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def request_payload(resource, headers)
|
379
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if headers
|
380
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format_specified = headers['Content-Type']
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@@ -384,6 +384,10 @@ module FHIR
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384
384
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resource.to_xml
|
385
385
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elsif format_specified.downcase.include?('json')
|
386
386
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resource.to_json
|
387
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+
elsif format_specified.downcase == 'application/x-www-form-urlencoded'
|
388
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+
# Special case where this is a search body and not a resource.
|
389
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+
# Leave as hash because underlying libraries automatically URL encode it.
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resource
|
387
391
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else
|
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resource.to_xml
|
389
393
|
end
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@@ -433,7 +437,7 @@ module FHIR
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433
437
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begin
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434
438
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response = @client.get(url, headers: headers)
|
435
439
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rescue => e
|
436
|
-
|
440
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+
if !e.respond_to?(:response) || e.response.nil?
|
437
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# Re-raise the client error if there's no response. Otherwise, logging
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# and other things break below!
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439
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FHIR.logger.error "GET - Request: #{url} failed! No response from server: #{e}"
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@@ -480,7 +484,7 @@ module FHIR
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|
480
484
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@reply = FHIR::ClientReply.new(req, res, self)
|
481
485
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return @reply
|
482
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|
rescue => e
|
483
|
-
|
487
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+
if !e.respond_to?(:response) || e.response.nil?
|
484
488
|
# Re-raise the client error if there's no response. Otherwise, logging
|
485
489
|
# and other things break below!
|
486
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FHIR.logger.error "GET - Request: #{url} failed! No response from server: #{e}"
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@@ -515,7 +519,7 @@ module FHIR
|
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515
519
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begin
|
516
520
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response = @client.post(url, headers: headers, body: payload)
|
517
521
|
rescue => e
|
518
|
-
|
522
|
+
if !e.respond_to?(:response) || e.response.nil?
|
519
523
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# Re-raise the client error if there's no response. Otherwise, logging
|
520
524
|
# and other things break below!
|
521
525
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FHIR.logger.error "POST - Request: #{url} failed! No response from server: #{e}"
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@@ -562,7 +566,7 @@ module FHIR
|
|
562
566
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begin
|
563
567
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response = @client.put(url, headers: headers, body: payload)
|
564
568
|
rescue => e
|
565
|
-
|
569
|
+
if !e.respond_to?(:response) || e.response.nil?
|
566
570
|
# Re-raise the client error if there's no response. Otherwise, logging
|
567
571
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# and other things break below!
|
568
572
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FHIR.logger.error "PUT - Request: #{url} failed! No response from server: #{e}"
|
@@ -609,7 +613,7 @@ module FHIR
|
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609
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begin
|
610
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response = @client.patch(url, headers: headers, body: payload)
|
611
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|
rescue => e
|
612
|
-
|
616
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+
if !e.respond_to?(:response) || e.response.nil?
|
613
617
|
# Re-raise the client error if there's no response. Otherwise, logging
|
614
618
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# and other things break below!
|
615
619
|
FHIR.logger.error "PATCH - Request: #{url} failed! No response from server: #{e}"
|
@@ -645,7 +649,7 @@ module FHIR
|
|
645
649
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@reply = FHIR::ClientReply.new(request.args, res, self)
|
646
650
|
end
|
647
651
|
rescue => e
|
648
|
-
|
652
|
+
if !e.respond_to?(:response) || e.response.nil?
|
649
653
|
# Re-raise the client error if there's no response. Otherwise, logging
|
650
654
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# and other things break below!
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651
655
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FHIR.logger.error "PATCH - Request: #{url} failed! No response from server: #{e}"
|
@@ -677,7 +681,7 @@ module FHIR
|
|
677
681
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begin
|
678
682
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response = @client.delete(url, headers: headers)
|
679
683
|
rescue => e
|
680
|
-
|
684
|
+
if !e.respond_to?(:response) || e.response.nil?
|
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|
# Re-raise the client error if there's no response. Otherwise, logging
|
682
686
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# and other things break below!
|
683
687
|
FHIR.logger.error "DELETE - Request: #{url} failed! No response from server: #{e}"
|
@@ -12,40 +12,28 @@ module FHIR
|
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12
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options[:resource] = klass
|
13
13
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options[:format] = format
|
14
14
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|
15
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-
reply = if options
|
16
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-
post resource_url(options), nil, fhir_headers({content_type: 'application/x-www-form-urlencoded'})
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17
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-
else
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15
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+
reply = if options.dig(:search, :flag) != true && options.dig(:search, :body).nil?
|
18
16
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get resource_url(options), fhir_headers
|
17
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+
else
|
18
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options[:search][:flag] = true
|
19
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post resource_url(options), options.dig(:search, :body), fhir_headers({content_type: 'application/x-www-form-urlencoded'})
|
19
20
|
end
|
20
|
-
|
21
|
+
|
21
22
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reply.resource = parse_reply(klass, format, reply)
|
22
23
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reply.resource_class = klass
|
23
24
|
reply
|
24
25
|
end
|
25
26
|
|
27
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+
# It does not appear that this is part of the specification (any more?)
|
28
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+
# Investigate removing in next major version.
|
26
29
|
def search_existing(klass, id, options = {}, format = @default_format)
|
27
|
-
options
|
28
|
-
|
29
|
-
reply = if options[:search] && options[:search][:flag]
|
30
|
-
post resource_url(options), nil, fhir_headers({content_type: 'application/x-www-form-urlencoded'})
|
31
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-
else
|
32
|
-
get resource_url(options), fhir_headers
|
33
|
-
end
|
34
|
-
reply.resource = parse_reply(klass, format, reply)
|
35
|
-
reply.resource_class = klass
|
36
|
-
reply
|
30
|
+
options[:id] = id
|
31
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+
search(klass, options, format)
|
37
32
|
end
|
38
33
|
|
39
34
|
def search_all(options = {}, format = @default_format)
|
40
35
|
options[:format] = format
|
41
|
-
|
42
|
-
post resource_url(options), nil, fhir_headers({content_type: 'application/x-www-form-urlencoded'})
|
43
|
-
else
|
44
|
-
get resource_url(options), fhir_headers
|
45
|
-
end
|
46
|
-
reply.resource = parse_reply(nil, format, reply)
|
47
|
-
reply.resource_class = nil
|
48
|
-
reply
|
36
|
+
search(nil, options, format)
|
49
37
|
end
|
50
38
|
end
|
51
39
|
end
|
data/lib/fhir_client/version.rb
CHANGED
metadata
CHANGED
@@ -1,16 +1,17 @@
|
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1
1
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--- !ruby/object:Gem::Specification
|
2
2
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name: fhir_client
|
3
3
|
version: !ruby/object:Gem::Version
|
4
|
-
version: 4.0.
|
4
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+
version: 4.0.6
|
5
5
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platform: ruby
|
6
6
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authors:
|
7
7
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- Andre Quina
|
8
8
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- Jason Walonoski
|
9
|
-
-
|
9
|
+
- Robert Scanlon
|
10
|
+
- Reece Adamson
|
10
11
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autorequire:
|
11
12
|
bindir: exe
|
12
13
|
cert_chain: []
|
13
|
-
date:
|
14
|
+
date: 2021-04-30 00:00:00.000000000 Z
|
14
15
|
dependencies:
|
15
16
|
- !ruby/object:Gem::Dependency
|
16
17
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name: activesupport
|
@@ -46,56 +47,56 @@ dependencies:
|
|
46
47
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requirements:
|
47
48
|
- - ">="
|
48
49
|
- !ruby/object:Gem::Version
|
49
|
-
version: 4.0.
|
50
|
+
version: 4.0.2
|
50
51
|
type: :runtime
|
51
52
|
prerelease: false
|
52
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version_requirements: !ruby/object:Gem::Requirement
|
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|
requirements:
|
54
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|
- - ">="
|
55
56
|
- !ruby/object:Gem::Version
|
56
|
-
version: 4.0.
|
57
|
+
version: 4.0.2
|
57
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|
- !ruby/object:Gem::Dependency
|
58
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name: fhir_stu3_models
|
59
60
|
requirement: !ruby/object:Gem::Requirement
|
60
61
|
requirements:
|
61
62
|
- - ">="
|
62
63
|
- !ruby/object:Gem::Version
|
63
|
-
version: 3.0.
|
64
|
+
version: 3.0.1
|
64
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|
type: :runtime
|
65
66
|
prerelease: false
|
66
67
|
version_requirements: !ruby/object:Gem::Requirement
|
67
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|
requirements:
|
68
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|
- - ">="
|
69
70
|
- !ruby/object:Gem::Version
|
70
|
-
version: 3.0.
|
71
|
+
version: 3.0.1
|
71
72
|
- !ruby/object:Gem::Dependency
|
72
73
|
name: fhir_dstu2_models
|
73
74
|
requirement: !ruby/object:Gem::Requirement
|
74
75
|
requirements:
|
75
76
|
- - ">="
|
76
77
|
- !ruby/object:Gem::Version
|
77
|
-
version: 1.0.
|
78
|
+
version: 1.0.10
|
78
79
|
type: :runtime
|
79
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|
prerelease: false
|
80
81
|
version_requirements: !ruby/object:Gem::Requirement
|
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|
requirements:
|
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83
|
- - ">="
|
83
84
|
- !ruby/object:Gem::Version
|
84
|
-
version: 1.0.
|
85
|
+
version: 1.0.10
|
85
86
|
- !ruby/object:Gem::Dependency
|
86
87
|
name: nokogiri
|
87
88
|
requirement: !ruby/object:Gem::Requirement
|
88
89
|
requirements:
|
89
90
|
- - ">="
|
90
91
|
- !ruby/object:Gem::Version
|
91
|
-
version: 1.
|
92
|
+
version: 1.10.4
|
92
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|
type: :runtime
|
93
94
|
prerelease: false
|
94
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|
version_requirements: !ruby/object:Gem::Requirement
|
95
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|
requirements:
|
96
97
|
- - ">="
|
97
98
|
- !ruby/object:Gem::Version
|
98
|
-
version: 1.
|
99
|
+
version: 1.10.4
|
99
100
|
- !ruby/object:Gem::Dependency
|
100
101
|
name: oauth2
|
101
102
|
requirement: !ruby/object:Gem::Requirement
|
@@ -170,16 +171,16 @@ dependencies:
|
|
170
171
|
name: rake
|
171
172
|
requirement: !ruby/object:Gem::Requirement
|
172
173
|
requirements:
|
173
|
-
- - "
|
174
|
+
- - ">="
|
174
175
|
- !ruby/object:Gem::Version
|
175
|
-
version:
|
176
|
+
version: 12.3.3
|
176
177
|
type: :development
|
177
178
|
prerelease: false
|
178
179
|
version_requirements: !ruby/object:Gem::Requirement
|
179
180
|
requirements:
|
180
|
-
- - "
|
181
|
+
- - ">="
|
181
182
|
- !ruby/object:Gem::Version
|
182
|
-
version:
|
183
|
+
version: 12.3.3
|
183
184
|
- !ruby/object:Gem::Dependency
|
184
185
|
name: pry
|
185
186
|
requirement: !ruby/object:Gem::Requirement
|
@@ -247,11 +248,11 @@ files:
|
|
247
248
|
- ".csslintrc"
|
248
249
|
- ".eslintignore"
|
249
250
|
- ".eslintrc"
|
251
|
+
- ".github/workflows/ruby.yml"
|
250
252
|
- ".gitignore"
|
251
253
|
- ".rubocop.yml"
|
252
254
|
- ".rubocop_todo.yml"
|
253
255
|
- ".simplecov"
|
254
|
-
- ".travis.yml"
|
255
256
|
- Gemfile
|
256
257
|
- LICENSE
|
257
258
|
- README.md
|
@@ -283,7 +284,8 @@ files:
|
|
283
284
|
- lib/fhir_client/version.rb
|
284
285
|
- lib/fhir_client/version_management.rb
|
285
286
|
homepage: https://github.com/fhir-crucible/fhir_client
|
286
|
-
licenses:
|
287
|
+
licenses:
|
288
|
+
- Apache-2.0
|
287
289
|
metadata: {}
|
288
290
|
post_install_message:
|
289
291
|
rdoc_options: []
|
@@ -300,7 +302,7 @@ required_rubygems_version: !ruby/object:Gem::Requirement
|
|
300
302
|
- !ruby/object:Gem::Version
|
301
303
|
version: '0'
|
302
304
|
requirements: []
|
303
|
-
rubygems_version: 3.
|
305
|
+
rubygems_version: 3.1.4
|
304
306
|
signing_key:
|
305
307
|
specification_version: 4
|
306
308
|
summary: A Gem for handling FHIR client requests in ruby
|
data/.travis.yml
DELETED
@@ -1,19 +0,0 @@
|
|
1
|
-
language: ruby
|
2
|
-
rvm:
|
3
|
-
- 2.4
|
4
|
-
- 2.5
|
5
|
-
- 2.6
|
6
|
-
before_install:
|
7
|
-
- gem update --system
|
8
|
-
- gem install bundler
|
9
|
-
script:
|
10
|
-
- bundle exec rake test
|
11
|
-
- bundle exec codeclimate-test-reporter
|
12
|
-
notifications:
|
13
|
-
email:
|
14
|
-
recipients:
|
15
|
-
- fhir-testing-list@lists.mitre.org
|
16
|
-
on_failure: change
|
17
|
-
addons:
|
18
|
-
code_climate:
|
19
|
-
repo_token: ac1640edaefa720557e56bfaba4e09808559d7d61812f96d58ea4aa5f4669738
|