1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
|
/*
* This file is part of ETL-Processor
*
* Copyright (c) 2023 Comprehensive Cancer Center Mainfranken
* Copyright (c) 2026 Paul-Christian Volkmer, Datenintegrationszentrum Philipps-Universität Marburg and Contributors
*
* This program is free software: you can redistribute it and/or modify
* it under the terms of the GNU Affero General Public License as published
* by the Free Software Foundation, either version 3 of the License, or
* (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU Affero General Public License for more details.
*
* You should have received a copy of the GNU Affero General Public License
* along with this program. If not, see <https://www.gnu.org/licenses/>.
*/
package dev.dnpm.etl.processor.consent;
import static dev.dnpm.etl.processor.consent.GicsConsentService.IS_CONSENTED_ENDPOINT;
import static org.assertj.core.api.Assertions.assertThat;
import static org.springframework.test.web.client.match.MockRestRequestMatchers.requestTo;
import static org.springframework.test.web.client.response.MockRestResponseCreators.withServerError;
import static org.springframework.test.web.client.response.MockRestResponseCreators.withSuccess;
import ca.uhn.fhir.context.FhirContext;
import com.fasterxml.jackson.databind.ObjectMapper;
import dev.dnpm.etl.processor.config.AppConfiguration;
import dev.dnpm.etl.processor.config.AppFhirConfig;
import dev.dnpm.etl.processor.config.GIcsConfigProperties;
import java.net.URI;
import java.nio.charset.StandardCharsets;
import java.time.Instant;
import java.util.Date;
import java.util.Objects;
import org.apache.commons.io.IOUtils;
import org.apache.hc.core5.net.URIBuilder;
import org.hl7.fhir.r4.model.*;
import org.hl7.fhir.r4.model.OperationOutcome.IssueSeverity;
import org.hl7.fhir.r4.model.OperationOutcome.IssueType;
import org.hl7.fhir.r4.model.OperationOutcome.OperationOutcomeIssueComponent;
import org.hl7.fhir.r4.model.Parameters.ParametersParameterComponent;
import org.junit.jupiter.api.BeforeEach;
import org.junit.jupiter.api.Test;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.boot.restclient.test.autoconfigure.RestClientTest;
import org.springframework.http.MediaType;
import org.springframework.retry.support.RetryTemplate;
import org.springframework.test.context.ContextConfiguration;
import org.springframework.test.context.TestPropertySource;
import org.springframework.test.web.client.MockRestServiceServer;
import org.springframework.web.client.RestTemplate;
@ContextConfiguration(classes = {AppConfiguration.class, ObjectMapper.class})
@TestPropertySource(
properties = {
"app.consent.service=gics",
"app.consent.gics.uri=http://localhost:8090/ttp-fhir/fhir/gics"
})
@RestClientTest
class GicsConsentServiceTest {
static final String GICS_BASE_URI = "http://localhost:8090/ttp-fhir/fhir/gics";
MockRestServiceServer mockRestServiceServer;
AppFhirConfig appFhirConfig;
GIcsConfigProperties gIcsConfigProperties;
GicsConsentService gicsConsentService;
static URI expectedGicsConsentedEndpoint() throws Exception {
return new URIBuilder(URI.create(GICS_BASE_URI)).appendPath(IS_CONSENTED_ENDPOINT).build();
}
@BeforeEach
void setUp(
@Autowired AppFhirConfig appFhirConfig,
@Autowired GIcsConfigProperties gIcsConfigProperties) {
this.appFhirConfig = appFhirConfig;
this.gIcsConfigProperties = gIcsConfigProperties;
var restTemplate = new RestTemplate();
this.mockRestServiceServer = MockRestServiceServer.createServer(restTemplate);
this.gicsConsentService =
new GicsConsentService(
this.gIcsConfigProperties,
RetryTemplate.builder().maxAttempts(1).build(),
restTemplate,
this.appFhirConfig);
}
@Test
void shouldReturnTtpBroadConsentStatus() throws Exception {
final Parameters consentedResponse =
new Parameters()
.addParameter(
new ParametersParameterComponent()
.setName("consented")
.setValue(new BooleanType().setValue(true)));
mockRestServiceServer
.expect(requestTo(expectedGicsConsentedEndpoint()))
.andRespond(
withSuccess(
appFhirConfig
.fhirContext()
.newJsonParser()
.encodeResourceToString(consentedResponse),
MediaType.APPLICATION_JSON));
var consentStatus = gicsConsentService.getTtpBroadConsentStatus("123456");
assertThat(consentStatus).isEqualTo(TtpConsentStatus.BROAD_CONSENT_GIVEN);
}
@Test
void shouldReturnRevokedConsent() throws Exception {
final Parameters revokedResponse =
new Parameters()
.addParameter(
new ParametersParameterComponent()
.setName("consented")
.setValue(new BooleanType().setValue(false)));
mockRestServiceServer
.expect(requestTo(expectedGicsConsentedEndpoint()))
.andRespond(
withSuccess(
appFhirConfig.fhirContext().newJsonParser().encodeResourceToString(revokedResponse),
MediaType.APPLICATION_JSON));
var consentStatus = gicsConsentService.getTtpBroadConsentStatus("123456");
assertThat(consentStatus).isEqualTo(TtpConsentStatus.BROAD_CONSENT_MISSING_OR_REJECTED);
}
@Test
void shouldReturnInvalidParameterResponse() throws Exception {
final OperationOutcome responseWithErrorOutcome =
new OperationOutcome()
.addIssue(
new OperationOutcomeIssueComponent()
.setSeverity(IssueSeverity.ERROR)
.setCode(IssueType.PROCESSING)
.setDiagnostics("Invalid policy parameter..."));
mockRestServiceServer
.expect(requestTo(expectedGicsConsentedEndpoint()))
.andRespond(
withSuccess(
appFhirConfig
.fhirContext()
.newJsonParser()
.encodeResourceToString(responseWithErrorOutcome),
MediaType.APPLICATION_JSON));
var consentStatus = gicsConsentService.getTtpBroadConsentStatus("123456");
assertThat(consentStatus).isEqualTo(TtpConsentStatus.FAILED_TO_ASK);
}
@Test
void shouldReturnRequestError() throws Exception {
mockRestServiceServer
.expect(requestTo(expectedGicsConsentedEndpoint()))
.andRespond(withServerError());
var consentStatus = gicsConsentService.getTtpBroadConsentStatus("123456");
assertThat(consentStatus).isEqualTo(TtpConsentStatus.FAILED_TO_ASK);
}
@Test
void buildRequestParameterCurrentPolicyStatesForPersonTest() {
String pid = "12345678";
var result =
gicsConsentService.buildRequestParameterCurrentPolicyStatesForPerson(
pid, Date.from(Instant.now()), ConsentDomain.MODELLVORHABEN_64E);
assertThat(result.getParameter()).as("should contain 3 parameter resources").hasSize(3);
assertThat(((StringType) result.getParameter("domain").getValue()).getValue())
.isEqualTo(gIcsConfigProperties.getGenomDeConsentDomainName());
assertThat(((Identifier) result.getParameter("personIdentifier").getValue()).getValue())
.isEqualTo(pid);
}
@Test
void convertGicsResultToMiiBroadConsent() throws Exception {
var fhirJsonParser = FhirContext.forR4().newJsonParser();
fhirJsonParser.setPrettyPrint(true);
var gicsInputStream =
Objects.requireNonNull(
this.getClass()
.getClassLoader()
.getResourceAsStream("fake_broadConsent_gics_response_permit.json"));
var gicsConsentBundle =
(Bundle)
fhirJsonParser.parseResource(IOUtils.toString(gicsInputStream, StandardCharsets.UTF_8));
var miiInputStream =
Objects.requireNonNull(
this.getClass()
.getClassLoader()
.getResourceAsStream("fake_broadConsent_mii_response_permit.json"));
var miiConsent = IOUtils.toString(miiInputStream, StandardCharsets.UTF_8);
var actual = gicsConsentService.convertGicsResultToMiiBroadConsent(gicsConsentBundle);
assertThat(fhirJsonParser.encodeToString(actual)).isEqualTo(miiConsent);
}
@Test
void convertedMiiBroadConsentShouldNotContainPatientId() throws Exception {
var fhirJsonParser = FhirContext.forR4().newJsonParser();
fhirJsonParser.setPrettyPrint(true);
var miiInputStream =
Objects.requireNonNull(
this.getClass()
.getClassLoader()
.getResourceAsStream("fake_broadConsent_mii_response_permit.json"));
var miiConsentBundle =
(Bundle)
fhirJsonParser.parseResource(IOUtils.toString(miiInputStream, StandardCharsets.UTF_8));
var currentPatientId = miiConsentBundle.getEntry().getFirst().getResource().getIdPart();
var actual = gicsConsentService.anonymizeBroadConsent(miiConsentBundle);
assertThat(fhirJsonParser.encodeToString(actual)).doesNotContain(currentPatientId);
}
@Test
void miiBroadConsentShouldNotBeConvertedAgain() throws Exception {
var fhirJsonParser = FhirContext.forR4().newJsonParser();
fhirJsonParser.setPrettyPrint(true);
var gicsInputStream =
Objects.requireNonNull(
this.getClass()
.getClassLoader()
.getResourceAsStream("fake_broadConsent_mii_response_permit.json"));
var gicsConsentBundle =
(Bundle)
fhirJsonParser.parseResource(IOUtils.toString(gicsInputStream, StandardCharsets.UTF_8));
var miiInputStream =
Objects.requireNonNull(
this.getClass()
.getClassLoader()
.getResourceAsStream("fake_broadConsent_mii_response_permit.json"));
var miiConsent = IOUtils.toString(miiInputStream, StandardCharsets.UTF_8);
var actual = gicsConsentService.convertGicsResultToMiiBroadConsent(gicsConsentBundle);
assertThat(fhirJsonParser.encodeToString(actual)).isEqualTo(miiConsent);
}
}
|