Avoid multi-term for ElasticSearch (#1717)
* Avoid multi-term for ElasticSearch * Add changelog * Remove redundant code
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---
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type: fix
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issue: 1717
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title: ValueSet expansions containing lists of terms did not correctly expand when backed by
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ElasticSearch due to the use of a feature not supported in ES. Thanks to Jens Villadsen for
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reporting!
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@ -66,6 +66,7 @@ import org.apache.lucene.search.BooleanQuery;
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import org.apache.lucene.search.MultiPhraseQuery;
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import org.apache.lucene.search.Query;
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import org.apache.lucene.search.RegexpQuery;
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import org.apache.lucene.search.TermQuery;
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import org.hibernate.ScrollMode;
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import org.hibernate.ScrollableResults;
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import org.hibernate.search.jpa.FullTextEntityManager;
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@ -600,11 +601,16 @@ public abstract class BaseTermReadSvcImpl implements ITermReadSvc, ApplicationCo
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.map(t -> new Term("myCode", t))
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.collect(Collectors.toList());
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if (codes.size() > 0) {
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MultiPhraseQuery query = new MultiPhraseQuery();
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query.add(codes.toArray(new Term[0]));
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BooleanQuery.Builder builder = new BooleanQuery.Builder();
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builder.setMinimumNumberShouldMatch(1);
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for (Term nextCode : codes) {
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builder.add(new TermQuery(nextCode), BooleanClause.Occur.SHOULD);
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}
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luceneQuery = new BooleanQuery.Builder()
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.add(luceneQuery, BooleanClause.Occur.MUST)
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.add(query, BooleanClause.Occur.MUST)
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.add(builder.build(), BooleanClause.Occur.MUST)
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.build();
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}
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@ -23,6 +23,7 @@ import ca.uhn.fhir.rest.param.StringParam;
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import ca.uhn.fhir.util.TestUtil;
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import ca.uhn.fhir.validation.FhirValidator;
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import ca.uhn.fhir.validation.ValidationResult;
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import org.hamcrest.Matchers;
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import org.hl7.fhir.instance.model.api.IIdType;
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import org.hl7.fhir.r4.model.*;
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import org.junit.AfterClass;
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@ -37,8 +38,10 @@ import org.springframework.test.context.ContextConfiguration;
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import org.springframework.test.context.junit4.SpringJUnit4ClassRunner;
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import org.springframework.transaction.PlatformTransactionManager;
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import java.io.IOException;
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import java.util.ArrayList;
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import java.util.List;
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import java.util.stream.Collectors;
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import static org.hamcrest.Matchers.containsInAnyOrder;
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import static org.junit.Assert.assertEquals;
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@ -146,6 +149,53 @@ public class FhirResourceDaoR4SearchWithElasticSearchTest extends BaseJpaTest {
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}
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@Test
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public void testExpandVsWithMultiInclude_All() throws IOException {
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CodeSystem cs = loadResource(myFhirCtx, CodeSystem.class, "/r4/expand-multi-cs.json");
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myCodeSystemDao.update(cs);
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ValueSet vs = loadResource(myFhirCtx, ValueSet.class, "/r4/expand-multi-vs-all.json");
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ValueSet expanded = myValueSetDao.expand(vs, null);
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ourLog.info(myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(expanded));
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// All codes
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List<String> codes = expanded
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.getExpansion()
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.getContains()
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.stream()
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.map(t -> t.getCode())
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.sorted()
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.collect(Collectors.toList());
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assertThat(codes.toString(), codes, Matchers.contains("advice", "message", "note", "notification"));
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}
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@Test
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public void testExpandVsWithMultiInclude_Some() throws IOException {
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CodeSystem cs = loadResource(myFhirCtx, CodeSystem.class, "/r4/expand-multi-cs.json");
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myCodeSystemDao.update(cs);
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ValueSet vs = loadResource(myFhirCtx, ValueSet.class, "/r4/expand-multi-vs-all.json");
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vs.getCompose().getInclude().get(0).getConcept().remove(0);
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vs.getCompose().getInclude().get(0).getConcept().remove(0);
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ValueSet expanded = myValueSetDao.expand(vs, null);
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ourLog.info(myFhirCtx.newJsonParser().setPrettyPrint(true).encodeResourceToString(expanded));
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// All codes
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List<String> codes = expanded
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.getExpansion()
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.getContains()
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.stream()
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.map(t -> t.getCode())
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.sorted()
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.collect(Collectors.toList());
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assertThat(codes.toString(), codes, Matchers.contains("advice", "note"));
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}
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private CodeSystem createExternalCs() {
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CodeSystem codeSystem = new CodeSystem();
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codeSystem.setUrl(URL_MY_CODE_SYSTEM);
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@ -0,0 +1,86 @@
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{
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"resourceType" : "CodeSystem",
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"id" : "ehealth-message-category",
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"text" : {
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"status" : "generated",
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"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><h2>MessageCategory</h2><div><p>Message category types</p>\n</div><p>This code system http://ehealth.sundhed.dk/cs/message-category defines the following codes:</p><table class=\"codes\"><tr><td style=\"white-space:nowrap\"><b>Code</b></td><td><b>Display</b></td><td><b>Definition</b></td></tr><tr><td style=\"white-space:nowrap\">message<a name=\"ehealth-message-category-message\"> </a></td><td>Message</td><td/></tr><tr><td style=\"white-space:nowrap\">notification<a name=\"ehealth-message-category-notification\"> </a></td><td>Notification</td><td/></tr><tr><td style=\"white-space:nowrap\">advice<a name=\"ehealth-message-category-advice\"> </a></td><td>Advice</td><td/></tr><tr><td style=\"white-space:nowrap\">note<a name=\"ehealth-message-category-note\"> </a></td><td>Note</td><td/></tr></table></div>"
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},
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"url" : "http://ehealth.sundhed.dk/cs/message-category",
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"version" : "0.6.0",
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"name" : "MessageCategory",
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"status" : "active",
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"experimental" : false,
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"date" : "2019-01-29T00:00:00+00:00",
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"publisher" : "ehealth.sundhed.dk",
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"contact" : [
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{
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"telecom" : [
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{
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"system" : "url",
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"value" : "http://ehealth.sundhed.dk/terminology"
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}
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]
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}
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],
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"description" : "Message category types",
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"caseSensitive" : true,
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"content" : "complete",
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"concept" : [
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{
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"code" : "message",
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"display" : "Message",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Message"
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},
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{
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"language" : "da",
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"value" : "Besked"
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}
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]
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},
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{
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"code" : "notification",
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"display" : "Notification",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Notification"
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},
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{
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"language" : "da",
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"value" : "Notifikation"
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}
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]
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},
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{
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"code" : "advice",
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"display" : "Advice",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Advice"
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},
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{
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"language" : "da",
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"value" : "Advisering"
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}
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]
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},
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{
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"code" : "note",
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"display" : "Note",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Note"
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},
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{
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"language" : "da",
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"value" : "Note"
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}
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]
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}
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]
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}
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@ -0,0 +1,92 @@
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{
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"resourceType" : "ValueSet",
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"id" : "message-category",
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"text" : {
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"status" : "generated",
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"div" : "<div xmlns=\"http://www.w3.org/1999/xhtml\"><h2>MessageCategory</h2><div><p>The set of possible message types</p>\n</div><p>This value set includes codes from the following code systems:</p><ul><li>Include these codes as defined in <a href=\"CodeSystem-ehealth-message-category.html\"><code>http://ehealth.sundhed.dk/cs/message-category</code></a><table class=\"none\"><tr><td style=\"white-space:nowrap\"><b>Code</b></td><td><b>Display</b></td></tr><tr><td><a href=\"CodeSystem-ehealth-message-category.html#ehealth-message-category-message\">message</a></td><td>Message</td><td/></tr><tr><td><a href=\"CodeSystem-ehealth-message-category.html#ehealth-message-category-notification\">notification</a></td><td>Notification</td><td/></tr><tr><td><a href=\"CodeSystem-ehealth-message-category.html#ehealth-message-category-advice\">advice</a></td><td>Advice</td><td/></tr><tr><td><a href=\"CodeSystem-ehealth-message-category.html#ehealth-message-category-note\">note</a></td><td>Note</td><td/></tr></table></li></ul><p><b>Additional Language Displays</b></p><table class=\"codes\"><tr><td><b>Code</b></td><td><b>Dansk (Danish, da)</b></td><td><b>English (United States) (English (United States), en)</b></td></tr><tr><td>message</td><td>Besked</td><td>Message</td></tr><tr><td>notification</td><td>Notifikation</td><td>Notification</td></tr><tr><td>advice</td><td>Advisering</td><td>Advice</td></tr><tr><td>note</td><td>Note</td><td>Note</td></tr></table></div>"
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},
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"url" : "http://ehealth.sundhed.dk/vs/message-category",
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"version" : "0.0.1",
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"name" : "MessageCategory",
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"status" : "active",
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"experimental" : true,
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"date" : "2019-02-08T00:00:00+00:00",
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"publisher" : "ehealth.sundhed.dk",
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"contact" : [
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{
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"name" : "FUT",
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"telecom" : [
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{
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"system" : "url",
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"value" : "https://digst.dk/digital-service/digital-velfaerd/telemedicin-kol/faelles-udbud-af-telemedicin-fut/"
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}
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]
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}
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],
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"description" : "The set of possible message types",
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"compose" : {
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"include" : [
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{
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"system" : "http://ehealth.sundhed.dk/cs/message-category",
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"concept" : [
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{
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"code" : "message",
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"display" : "Message",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Message"
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},
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{
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"language" : "da",
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"value" : "Besked"
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}
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]
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},
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{
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"code" : "notification",
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"display" : "Notification",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Notification"
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},
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{
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"language" : "da",
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"value" : "Notifikation"
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}
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]
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},
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{
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"code" : "advice",
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"display" : "Advice",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Advice"
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},
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{
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"language" : "da",
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"value" : "Advisering"
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}
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]
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},
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{
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"code" : "note",
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"display" : "Note",
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"designation" : [
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{
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"language" : "en-US",
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"value" : "Note"
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},
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{
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"language" : "da",
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"value" : "Note"
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}
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]
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}
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]
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}
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]
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}
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}
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