Work on #682 - Allow fewtching structure definitions by relative URL
This commit is contained in:
James Agnew
parent
0dacf8d82a
commit
1a6b3ea867
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@ -7,6 +7,7 @@ import java.io.InputStreamReader;
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import java.util.*;
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import java.util.*;
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import org.apache.commons.io.Charsets;
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import org.apache.commons.io.Charsets;
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import org.apache.commons.lang3.StringUtils;
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import org.apache.commons.lang3.Validate;
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import org.apache.commons.lang3.Validate;
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import org.hl7.fhir.dstu3.model.*;
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import org.hl7.fhir.dstu3.model.*;
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import org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent;
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import org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent;
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@ -22,6 +23,10 @@ import ca.uhn.fhir.context.FhirContext;
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public class DefaultProfileValidationSupport implements IValidationSupport {
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public class DefaultProfileValidationSupport implements IValidationSupport {
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private static final String URL_PREFIX_VALUE_SET = "http://hl7.org/fhir/ValueSet/";
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private static final String URL_PREFIX_STRUCTURE_DEFINITION = "http://hl7.org/fhir/StructureDefinition/";
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private static final String URL_PREFIX_STRUCTURE_DEFINITION_BASE = "http://hl7.org/fhir/";
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private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(DefaultProfileValidationSupport.class);
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private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(DefaultProfileValidationSupport.class);
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private Map<String, CodeSystem> myCodeSystems;
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private Map<String, CodeSystem> myCodeSystems;
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@ -86,51 +91,28 @@ public class DefaultProfileValidationSupport implements IValidationSupport {
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public <T extends IBaseResource> T fetchResource(FhirContext theContext, Class<T> theClass, String theUri) {
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public <T extends IBaseResource> T fetchResource(FhirContext theContext, Class<T> theClass, String theUri) {
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Validate.notBlank(theUri, "theUri must not be null or blank");
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Validate.notBlank(theUri, "theUri must not be null or blank");
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if (theUri.startsWith("http://hl7.org/fhir/StructureDefinition/")) {
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if (theClass.equals(StructureDefinition.class)) {
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return (T) fetchStructureDefinition(theContext, theUri);
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return (T) fetchStructureDefinition(theContext, theUri);
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}
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}
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if (theUri.startsWith("http://hl7.org/fhir/ValueSet/")) {
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if (theClass.equals(ValueSet.class) || theUri.startsWith(URL_PREFIX_VALUE_SET)) {
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return (T) fetchValueSet(theContext, theUri);
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return (T) fetchValueSet(theContext, theUri);
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}
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}
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// if (theUri.startsWith("http://hl7.org/fhir/ValueSet/")) {
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// Map<String, ValueSet> defaultValueSets = myDefaultValueSets;
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// if (defaultValueSets == null) {
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// String path = theContext.getVersion().getPathToSchemaDefinitions().replace("/schema", "/valueset") + "/valuesets.xml";
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// InputStream valuesetText = DefaultProfileValidationSupport.class.getResourceAsStream(path);
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// if (valuesetText == null) {
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// return null;
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// }
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// InputStreamReader reader;
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// try {
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// reader = new InputStreamReader(valuesetText, "UTF-8");
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// } catch (UnsupportedEncodingException e) {
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// // Shouldn't happen!
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// throw new InternalErrorException("UTF-8 encoding not supported on this platform", e);
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// }
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//
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// defaultValueSets = new HashMap<String, ValueSet>();
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//
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// Bundle bundle = theContext.newXmlParser().parseResource(Bundle.class, reader);
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// for (BundleEntryComponent next : bundle.getEntry()) {
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// IdType nextId = new IdType(next.getFullUrl());
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// if (nextId.isEmpty() || !nextId.getValue().startsWith("http://hl7.org/fhir/ValueSet/")) {
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// continue;
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// }
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// defaultValueSets.put(nextId.toVersionless().getValue(), (ValueSet) next.getResource());
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// }
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//
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// myDefaultValueSets = defaultValueSets;
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// }
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//
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// return (T) defaultValueSets.get(theUri);
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// }
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return null;
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return null;
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}
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}
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@Override
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@Override
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public StructureDefinition fetchStructureDefinition(FhirContext theContext, String theUrl) {
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public StructureDefinition fetchStructureDefinition(FhirContext theContext, String theUrl) {
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return provideStructureDefinitionMap(theContext).get(theUrl);
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String url = theUrl;
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if (url.startsWith(URL_PREFIX_STRUCTURE_DEFINITION)) {
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// no change
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} else if (url.indexOf('/') == -1) {
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url = URL_PREFIX_STRUCTURE_DEFINITION + url;
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} else if (StringUtils.countMatches(url, '/') == 1) {
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url = URL_PREFIX_STRUCTURE_DEFINITION_BASE + url;
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}
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return provideStructureDefinitionMap(theContext).get(url);
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}
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}
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ValueSet fetchValueSet(FhirContext theContext, String theSystem) {
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ValueSet fetchValueSet(FhirContext theContext, String theSystem) {
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@ -1,14 +1,14 @@
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package org.hl7.fhir.dstu3.hapi.validation;
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package org.hl7.fhir.dstu3.hapi.validation;
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import static org.apache.commons.lang3.StringUtils.isNotBlank;
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import java.util.ArrayList;
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import java.util.ArrayList;
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import java.util.HashMap;
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import java.util.HashMap;
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import java.util.List;
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import java.util.List;
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import java.util.Map;
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import java.util.Map;
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import org.apache.commons.lang3.Validate;
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import org.apache.commons.lang3.Validate;
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import org.hl7.fhir.dstu3.model.CodeSystem;
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import org.hl7.fhir.dstu3.model.*;
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import org.hl7.fhir.dstu3.model.StructureDefinition;
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import org.hl7.fhir.dstu3.model.ValueSet;
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import org.hl7.fhir.dstu3.model.ValueSet.ConceptSetComponent;
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import org.hl7.fhir.dstu3.model.ValueSet.ConceptSetComponent;
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import org.hl7.fhir.dstu3.model.ValueSet.ValueSetExpansionComponent;
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import org.hl7.fhir.dstu3.model.ValueSet.ValueSetExpansionComponent;
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import org.hl7.fhir.instance.model.api.IBaseResource;
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import org.hl7.fhir.instance.model.api.IBaseResource;
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@ -21,112 +21,154 @@ import ca.uhn.fhir.context.FhirContext;
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*/
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*/
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public class PrePopulatedValidationSupport implements IValidationSupport {
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public class PrePopulatedValidationSupport implements IValidationSupport {
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private Map<String, StructureDefinition> myStructureDefinitions;
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private Map<String, CodeSystem> myCodeSystems;
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private Map<String, ValueSet> myValueSets;
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private Map<String, StructureDefinition> myStructureDefinitions;
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private Map<String, CodeSystem> myCodeSystems;
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private Map<String, ValueSet> myValueSets;
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/**
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/**
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* Constructor
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* Constructor
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*/
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*/
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public PrePopulatedValidationSupport() {
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public PrePopulatedValidationSupport() {
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myStructureDefinitions = new HashMap<String,StructureDefinition>();
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myStructureDefinitions = new HashMap<String, StructureDefinition>();
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myValueSets = new HashMap<String,ValueSet>();
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myValueSets = new HashMap<String, ValueSet>();
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myCodeSystems = new HashMap<String,CodeSystem>();
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myCodeSystems = new HashMap<String, CodeSystem>();
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}
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}
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/**
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* Constructor
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*
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* @param theStructureDefinitions
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* The StructureDefinitions to be returned by this module. Keys are the logical URL for the resource, and
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* values are the resource itself.
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* @param theValueSets
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* The ValueSets to be returned by this module. Keys are the logical URL for the resource, and values are
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* the resource itself.
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* @param theCodeSystems
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* The CodeSystems to be returned by this module. Keys are the logical URL for the resource, and values are
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* the resource itself.
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*/
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public PrePopulatedValidationSupport(Map<String, StructureDefinition> theStructureDefinitions, Map<String, ValueSet> theValueSets, Map<String, CodeSystem> theCodeSystems) {
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myStructureDefinitions = theStructureDefinitions;
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myValueSets = theValueSets;
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myCodeSystems = theCodeSystems;
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}
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/**
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/**
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* Add a new StructureDefinition resource which will be available to the validator. Note that
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* Add a new CodeSystem resource which will be available to the validator. Note that
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* {@link StructureDefinition#getUrl() the URL field) in this resource must contain a value as this
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* {@link CodeSystem#getUrl() the URL field) in this resource must contain a value as this
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* value will be used as the logical URL.
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* value will be used as the logical URL.
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*/
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* <p>
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public void addStructureDefinition(StructureDefinition theStructureDefinition) {
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* Note that if the URL is a canonical FHIR URL (e.g. http://hl7.org/StructureDefinition/Extension),
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Validate.notBlank(theStructureDefinition.getUrl(), "theStructureDefinition.getUrl() must not return a value");
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* it will be stored in three ways:
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myStructureDefinitions.put(theStructureDefinition.getUrl(), theStructureDefinition);
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* <ul>
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}
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* <li>Extension</li>
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* <li>StructureDefinition/Extension</li>
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* <li>http://hl7.org/StructureDefinition/Extension</li>
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* </ul>
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* </p>
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*/
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public void addCodeSystem(CodeSystem theCodeSystem) {
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Validate.notBlank(theCodeSystem.getUrl(), "theCodeSystem.getUrl() must not return a value");
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addToMap(theCodeSystem, myCodeSystems, theCodeSystem.getUrl());
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}
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/**
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/**
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* Add a new ValueSet resource which will be available to the validator. Note that
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* Add a new StructureDefinition resource which will be available to the validator. Note that
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* {@link ValueSet#getUrl() the URL field) in this resource must contain a value as this
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* {@link StructureDefinition#getUrl() the URL field) in this resource must contain a value as this
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* value will be used as the logical URL.
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* value will be used as the logical URL.
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*/
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* <p>
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public void addValueSet(ValueSet theValueSet) {
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* Note that if the URL is a canonical FHIR URL (e.g. http://hl7.org/StructureDefinition/Extension),
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Validate.notBlank(theValueSet.getUrl(), "theValueSet.getUrl() must not return a value");
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* it will be stored in three ways:
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myValueSets.put(theValueSet.getUrl(), theValueSet);
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* <ul>
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}
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* <li>Extension</li>
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* <li>StructureDefinition/Extension</li>
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* <li>http://hl7.org/StructureDefinition/Extension</li>
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* </ul>
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* </p>
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*/
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public void addStructureDefinition(StructureDefinition theStructureDefinition) {
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Validate.notBlank(theStructureDefinition.getUrl(), "theStructureDefinition.getUrl() must not return a value");
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addToMap(theStructureDefinition, myStructureDefinitions, theStructureDefinition.getUrl());
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}
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/**
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private <T extends MetadataResource> void addToMap(T theStructureDefinition, Map<String, T> map, String theUrl) {
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* Add a new CodeSystem resource which will be available to the validator. Note that
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if (isNotBlank(theUrl)) {
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* {@link CodeSystem#getUrl() the URL field) in this resource must contain a value as this
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map.put(theUrl, theStructureDefinition);
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* value will be used as the logical URL.
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*/
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public void addCodeSystem(CodeSystem theCodeSystem) {
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Validate.notBlank(theCodeSystem.getUrl(), "theCodeSystem.getUrl() must not return a value");
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myCodeSystems.put(theCodeSystem.getUrl(), theCodeSystem);
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}
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/**
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int lastSlashIdx = theUrl.lastIndexOf('/');
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* Constructor
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if (lastSlashIdx != -1) {
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*
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map.put(theUrl.substring(lastSlashIdx + 1), theStructureDefinition);
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* @param theStructureDefinitions
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int previousSlashIdx = theUrl.lastIndexOf('/', lastSlashIdx - 1);
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* The StructureDefinitions to be returned by this module. Keys are the logical URL for the resource, and
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if (previousSlashIdx != -1) {
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* values are the resource itself.
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map.put(theUrl.substring(previousSlashIdx + 1), theStructureDefinition);
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* @param theValueSets
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}
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* The ValueSets to be returned by this module. Keys are the logical URL for the resource, and values are
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}
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* the resource itself.
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* @param theCodeSystems
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* The CodeSystems to be returned by this module. Keys are the logical URL for the resource, and values are
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* the resource itself.
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*/
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public PrePopulatedValidationSupport(Map<String, StructureDefinition> theStructureDefinitions, Map<String, ValueSet> theValueSets, Map<String, CodeSystem> theCodeSystems) {
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myStructureDefinitions = theStructureDefinitions;
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myValueSets = theValueSets;
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myCodeSystems = theCodeSystems;
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}
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@Override
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}
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public ValueSetExpansionComponent expandValueSet(FhirContext theContext, ConceptSetComponent theInclude) {
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}
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return null;
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}
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@Override
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/**
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public List<StructureDefinition> fetchAllStructureDefinitions(FhirContext theContext) {
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* Add a new ValueSet resource which will be available to the validator. Note that
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return new ArrayList<StructureDefinition>(myStructureDefinitions.values());
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* {@link ValueSet#getUrl() the URL field) in this resource must contain a value as this
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}
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* value will be used as the logical URL.
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* <p>
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* Note that if the URL is a canonical FHIR URL (e.g. http://hl7.org/StructureDefinition/Extension),
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* it will be stored in three ways:
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* <ul>
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* <li>Extension</li>
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* <li>StructureDefinition/Extension</li>
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* <li>http://hl7.org/StructureDefinition/Extension</li>
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* </ul>
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* </p>
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*/
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public void addValueSet(ValueSet theValueSet) {
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Validate.notBlank(theValueSet.getUrl(), "theValueSet.getUrl() must not return a value");
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addToMap(theValueSet, myValueSets, theValueSet.getUrl());
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}
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@Override
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@Override
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public CodeSystem fetchCodeSystem(FhirContext theContext, String theSystem) {
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public ValueSetExpansionComponent expandValueSet(FhirContext theContext, ConceptSetComponent theInclude) {
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return myCodeSystems.get(theSystem);
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return null;
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}
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}
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@SuppressWarnings("unchecked")
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@Override
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@Override
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public List<StructureDefinition> fetchAllStructureDefinitions(FhirContext theContext) {
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public <T extends IBaseResource> T fetchResource(FhirContext theContext, Class<T> theClass, String theUri) {
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return new ArrayList<StructureDefinition>(myStructureDefinitions.values());
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if (theClass.equals(StructureDefinition.class)) {
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}
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return (T) myStructureDefinitions.get(theUri);
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}
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if (theClass.equals(ValueSet.class)) {
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return (T) myValueSets.get(theUri);
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}
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if (theClass.equals(CodeSystem.class)) {
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return (T) myCodeSystems.get(theUri);
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}
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return null;
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}
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@Override
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@Override
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public StructureDefinition fetchStructureDefinition(FhirContext theCtx, String theUrl) {
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public CodeSystem fetchCodeSystem(FhirContext theContext, String theSystem) {
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return myStructureDefinitions.get(theUrl);
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return myCodeSystems.get(theSystem);
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}
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}
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@Override
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@SuppressWarnings("unchecked")
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public boolean isCodeSystemSupported(FhirContext theContext, String theSystem) {
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@Override
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return false;
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public <T extends IBaseResource> T fetchResource(FhirContext theContext, Class<T> theClass, String theUri) {
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}
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if (theClass.equals(StructureDefinition.class)) {
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return (T) myStructureDefinitions.get(theUri);
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}
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if (theClass.equals(ValueSet.class)) {
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return (T) myValueSets.get(theUri);
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}
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if (theClass.equals(CodeSystem.class)) {
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return (T) myCodeSystems.get(theUri);
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}
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return null;
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}
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@Override
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@Override
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public CodeValidationResult validateCode(FhirContext theContext, String theCodeSystem, String theCode, String theDisplay) {
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public StructureDefinition fetchStructureDefinition(FhirContext theCtx, String theUrl) {
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return null;
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return myStructureDefinitions.get(theUrl);
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}
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}
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@Override
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public boolean isCodeSystemSupported(FhirContext theContext, String theSystem) {
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return false;
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}
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@Override
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public CodeValidationResult validateCode(FhirContext theContext, String theCodeSystem, String theCode, String theDisplay) {
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return null;
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}
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}
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}
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@ -0,0 +1,34 @@
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package org.hl7.fhir.dstu3.hapi.validation;
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import static org.junit.Assert.*;
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import org.junit.AfterClass;
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import org.junit.Test;
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import ca.uhn.fhir.context.FhirContext;
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import ca.uhn.fhir.util.TestUtil;
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public class DefaultProfileValidationSupportTest {
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private DefaultProfileValidationSupport mySvc = new DefaultProfileValidationSupport();
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private static FhirContext ourCtx = FhirContext.forDstu3();
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@Test
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public void testGetStructureDefinitionsWithRelativeUrls() {
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assertNotNull(mySvc.fetchStructureDefinition(ourCtx, "http://hl7.org/fhir/StructureDefinition/Extension"));
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assertNotNull(mySvc.fetchStructureDefinition(ourCtx, "StructureDefinition/Extension"));
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||||||
|
assertNotNull(mySvc.fetchStructureDefinition(ourCtx, "Extension"));
|
||||||
|
|
||||||
|
assertNull(mySvc.fetchStructureDefinition(ourCtx, "http://hl7.org/fhir/StructureDefinition/Extension2"));
|
||||||
|
assertNull(mySvc.fetchStructureDefinition(ourCtx, "StructureDefinition/Extension2"));
|
||||||
|
assertNull(mySvc.fetchStructureDefinition(ourCtx, "Extension2"));
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
|
||||||
|
@AfterClass
|
||||||
|
public static void afterClassClearContext() {
|
||||||
|
TestUtil.clearAllStaticFieldsForUnitTest();
|
||||||
|
}
|
||||||
|
|
||||||
|
}
|
||||||
|
|
@ -1,4 +1,4 @@
|
||||||
package org.hl7.fhir.dstu3.validation;
|
package org.hl7.fhir.dstu3.hapi.validation;
|
||||||
|
|
||||||
import static org.junit.Assert.assertEquals;
|
import static org.junit.Assert.assertEquals;
|
||||||
|
|
||||||
|
|
@ -7,24 +7,19 @@ import java.util.*;
|
||||||
import javax.annotation.Nullable;
|
import javax.annotation.Nullable;
|
||||||
|
|
||||||
import org.hl7.fhir.dstu3.context.IWorkerContext;
|
import org.hl7.fhir.dstu3.context.IWorkerContext;
|
||||||
import org.hl7.fhir.dstu3.hapi.validation.*;
|
|
||||||
import org.hl7.fhir.dstu3.model.*;
|
import org.hl7.fhir.dstu3.model.*;
|
||||||
import org.hl7.fhir.dstu3.utils.StructureMapUtilities;
|
import org.hl7.fhir.dstu3.utils.StructureMapUtilities;
|
||||||
import org.junit.*;
|
import org.junit.Before;
|
||||||
|
import org.junit.Test;
|
||||||
|
|
||||||
import ca.uhn.fhir.context.FhirContext;
|
import ca.uhn.fhir.context.FhirContext;
|
||||||
|
|
||||||
public class StructureMapTests2 {
|
public class StructureMapTest {
|
||||||
|
|
||||||
/**
|
|
||||||
* path to the files used to test the profile generator.
|
|
||||||
*/
|
|
||||||
String resourcePath = null;
|
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* The logger object.
|
* The logger object.
|
||||||
*/
|
*/
|
||||||
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(StructureMapTests2.class);
|
private static final org.slf4j.Logger ourLog = org.slf4j.LoggerFactory.getLogger(StructureMapTest.class);
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* The basic fhir context used to parse structure definitions.
|
* The basic fhir context used to parse structure definitions.
|
||||||
|
|
@ -36,141 +31,60 @@ public class StructureMapTests2 {
|
||||||
*/
|
*/
|
||||||
IWorkerContext hapiContext;
|
IWorkerContext hapiContext;
|
||||||
|
|
||||||
|
/**
|
||||||
|
* path to the files used to test the profile generator.
|
||||||
|
*/
|
||||||
|
String resourcePath = null;
|
||||||
|
|
||||||
/**
|
/**
|
||||||
* Used to validate definitions as well as add new structure definitions to a registry.
|
* Used to validate definitions as well as add new structure definitions to a registry.
|
||||||
*/
|
*/
|
||||||
PrePopulatedValidationSupport validationSupport;
|
PrePopulatedValidationSupport validationSupport;
|
||||||
|
|
||||||
/**
|
public StructureMap.StructureMapGroupRuleSourceComponent buildSource(String context, @Nullable String element, @Nullable String variable, @Nullable String type, @Nullable Integer min,
|
||||||
* Sets up the resource paths as well as create the contexts using a defalut validator to start with.
|
@Nullable String max) {
|
||||||
*
|
StructureMap.StructureMapGroupRuleSourceComponent retVal = new StructureMap.StructureMapGroupRuleSourceComponent();
|
||||||
* @throws Exception
|
retVal.setContext(context);
|
||||||
*/
|
if (element != null)
|
||||||
@Before
|
retVal.setElement(element);
|
||||||
public void setUp() throws Exception {
|
if (variable != null)
|
||||||
// resourcePath = getFileFromURL().getParent();
|
retVal.setVariable(variable);
|
||||||
if (this.context == null)
|
if (type != null)
|
||||||
this.context = FhirContext.forDstu3();
|
retVal.setType(type);
|
||||||
|
if (min != null)
|
||||||
|
retVal.setMin(min);
|
||||||
|
if (max != null)
|
||||||
|
retVal.setMax(max);
|
||||||
|
return retVal;
|
||||||
}
|
}
|
||||||
|
|
||||||
/**
|
public List<StructureMap.StructureMapGroupRuleSourceComponent> buildSourceList(StructureMap.StructureMapGroupRuleSourceComponent[] sources) {
|
||||||
* See #682
|
List<StructureMap.StructureMapGroupRuleSourceComponent> retVal = new ArrayList<StructureMap.StructureMapGroupRuleSourceComponent>();
|
||||||
*/
|
retVal.addAll(Arrays.asList(sources));
|
||||||
@Test
|
return retVal;
|
||||||
@Ignore
|
}
|
||||||
public void testMappingTransform() throws Exception {
|
|
||||||
Map<String, StructureMap> maps = new HashMap<String, StructureMap>(); // Instantiate a hashmap for StructureMaps
|
public StructureMap.StructureMapGroupRuleTargetComponent buildTarget(@Nullable String context, @Nullable String element, @Nullable String variable,
|
||||||
this.validationSupport = new PrePopulatedValidationSupport(); // Create Validation Instance
|
@Nullable StructureMap.StructureMapTransform transform, @Nullable TargetParam[] params) throws Exception {
|
||||||
for (StructureDefinition sd : new DefaultProfileValidationSupport().fetchAllStructureDefinitions(this.context)) { // Read in the default Structure Definitions into a validator that allows custom
|
StructureMap.StructureMapGroupRuleTargetComponent retVal = new StructureMap.StructureMapGroupRuleTargetComponent();
|
||||||
// declared structure definitions.
|
if (context != null)
|
||||||
this.validationSupport.addStructureDefinition(sd);
|
retVal.setContext(context);
|
||||||
|
if (element != null)
|
||||||
|
retVal.setElement(element);
|
||||||
|
if (variable != null)
|
||||||
|
retVal.setVariable(variable);
|
||||||
|
if (transform != null)
|
||||||
|
retVal.setTransform(transform);
|
||||||
|
if (params != null) {
|
||||||
|
if (params.length > 0)
|
||||||
|
retVal.setParameter(this.constructParameters(params));
|
||||||
}
|
}
|
||||||
StructureDefinition sd1 = this.createTestStructure(); // Calls a method that constructs a comp
|
|
||||||
this.validationSupport.addStructureDefinition(sd1); // Add custom structure to validation support.
|
|
||||||
this.hapiContext = new HapiWorkerContext(this.context, this.validationSupport);// Init the Hapi Work
|
|
||||||
StructureMap map = this.createTestStructuremap();
|
|
||||||
maps.put(map.getUrl(), map);
|
|
||||||
StructureMapUtilities scu = new StructureMapUtilities(hapiContext, maps, null, null);
|
|
||||||
List<StructureDefinition> result = scu.analyse(null, map).getProfiles();
|
|
||||||
|
|
||||||
assertEquals(1, result.size());
|
|
||||||
|
|
||||||
ourLog.info(context.newXmlParser().setPrettyPrint(true).encodeResourceToString(result.get(0)));
|
|
||||||
}
|
|
||||||
|
|
||||||
public StructureDefinition createTestStructure() {
|
|
||||||
StructureDefinition sd = new StructureDefinition();
|
|
||||||
sd.setId("TestStructure");
|
|
||||||
sd.setUrl("http://opencimi.org/structuredefinition/TestStructure");
|
|
||||||
sd.setStatus(Enumerations.PublicationStatus.DRAFT);
|
|
||||||
sd.setName("TestStructure");
|
|
||||||
sd.setType("TestStructure");
|
|
||||||
sd.setSnapshot(this.createTestSnapshot());
|
|
||||||
sd.setDifferential(this.createTestDiff());
|
|
||||||
sd.setKind(StructureDefinition.StructureDefinitionKind.LOGICAL);
|
|
||||||
|
|
||||||
return sd;
|
|
||||||
}
|
|
||||||
|
|
||||||
public StructureDefinition.StructureDefinitionSnapshotComponent createTestSnapshot() {
|
|
||||||
StructureDefinition.StructureDefinitionSnapshotComponent retVal = new StructureDefinition.StructureDefinitionSnapshotComponent();
|
|
||||||
List<ElementDefinition> eList = new ArrayList<ElementDefinition>();
|
|
||||||
ElementDefinition ed0 = new ElementDefinition();
|
|
||||||
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
|
||||||
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
|
||||||
ed0.setId("TestStructure");
|
|
||||||
ed0.setSliceName("TestStructure");
|
|
||||||
ed0.setPath("TestStructure");
|
|
||||||
// ed0.setBase(base);
|
|
||||||
ed0.setMin(1);
|
|
||||||
ed0.setMax("1");
|
|
||||||
eList.add(ed0);
|
|
||||||
|
|
||||||
ElementDefinition ed = new ElementDefinition();
|
|
||||||
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
|
||||||
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
|
||||||
ed.setId("system");
|
|
||||||
ed.setSliceName("system");
|
|
||||||
ed.setPath("TestStructure.system");
|
|
||||||
// ed.setBase(base);
|
|
||||||
ed.setFixed(new UriType().setValue("HTTP://opencimi.org/structuredefinition/TestStructure.html#Debugging"));
|
|
||||||
// ed.setType(this.createTypeRefList());
|
|
||||||
ed.setMin(1);
|
|
||||||
ed.setMax("1");
|
|
||||||
eList.add(ed);
|
|
||||||
retVal.setElement(eList);
|
|
||||||
return retVal;
|
|
||||||
|
|
||||||
}
|
|
||||||
|
|
||||||
public StructureDefinition.StructureDefinitionDifferentialComponent createTestDiff() {
|
|
||||||
StructureDefinition.StructureDefinitionDifferentialComponent retVal = new StructureDefinition.StructureDefinitionDifferentialComponent();
|
|
||||||
List<ElementDefinition> eList = new ArrayList<ElementDefinition>();
|
|
||||||
ElementDefinition ed0 = new ElementDefinition();
|
|
||||||
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
|
||||||
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
|
||||||
ed0.setId("TestStructure");
|
|
||||||
ed0.setSliceName("TestStructure");
|
|
||||||
ed0.setPath("TestStructure");
|
|
||||||
// ed0.setBase(base);
|
|
||||||
ed0.setMin(1);
|
|
||||||
ed0.setMax("1");
|
|
||||||
eList.add(ed0);
|
|
||||||
|
|
||||||
ElementDefinition ed = new ElementDefinition();
|
|
||||||
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
|
||||||
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
|
||||||
ed.setId("system");
|
|
||||||
ed.setSliceName("system");
|
|
||||||
ed.setPath("TestStructure.system");
|
|
||||||
// ed.setBase(base);
|
|
||||||
ed.setFixed(new UriType().setValue("HTTP://opencimi.org/structuredefinition/TestStructure.html#Debugging"));
|
|
||||||
// ed.setType(this.createTypeRefList());
|
|
||||||
eList.add(ed);
|
|
||||||
retVal.setElement(eList);
|
|
||||||
return retVal;
|
return retVal;
|
||||||
}
|
}
|
||||||
|
|
||||||
public StructureMap createTestStructuremap() throws Exception {
|
public List<StructureMap.StructureMapGroupRuleTargetComponent> buildTargetList(StructureMap.StructureMapGroupRuleTargetComponent[] sources) {
|
||||||
StructureMap retMap = new StructureMap();
|
List<StructureMap.StructureMapGroupRuleTargetComponent> retVal = new ArrayList<StructureMap.StructureMapGroupRuleTargetComponent>();
|
||||||
retMap.setUrl("http://opencimi.org/structuremap/testtransform");
|
retVal.addAll(Arrays.asList(sources));
|
||||||
retMap.setName("TestTransform");
|
|
||||||
retMap.setStatus(Enumerations.PublicationStatus.DRAFT);
|
|
||||||
retMap.setStructure(this.createMapStructureList());
|
|
||||||
retMap.setGroup(this.buildTestGroup());
|
|
||||||
return retMap;
|
|
||||||
}
|
|
||||||
|
|
||||||
public List<StructureMap.StructureMapStructureComponent> createMapStructureList() {
|
|
||||||
List<StructureMap.StructureMapStructureComponent> retVal = new ArrayList<StructureMap.StructureMapStructureComponent>();
|
|
||||||
StructureMap.StructureMapStructureComponent source = new StructureMap.StructureMapStructureComponent();
|
|
||||||
StructureMap.StructureMapStructureComponent target = new StructureMap.StructureMapStructureComponent();
|
|
||||||
source.setUrl("http://opencimi.org/structuredefinition/TestStructure");
|
|
||||||
source.setMode(StructureMap.StructureMapModelMode.SOURCE);
|
|
||||||
target.setUrl("http://hl7.org/fhir/StructureDefinition/Coding");
|
|
||||||
target.setMode(StructureMap.StructureMapModelMode.TARGET);
|
|
||||||
retVal.add(source);
|
|
||||||
retVal.add(target);
|
|
||||||
return retVal;
|
return retVal;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
|
@ -225,53 +139,6 @@ public class StructureMapTests2 {
|
||||||
return retVal;
|
return retVal;
|
||||||
}
|
}
|
||||||
|
|
||||||
public List<StructureMap.StructureMapGroupRuleSourceComponent> buildSourceList(StructureMap.StructureMapGroupRuleSourceComponent[] sources) {
|
|
||||||
List<StructureMap.StructureMapGroupRuleSourceComponent> retVal = new ArrayList<StructureMap.StructureMapGroupRuleSourceComponent>();
|
|
||||||
retVal.addAll(Arrays.asList(sources));
|
|
||||||
return retVal;
|
|
||||||
}
|
|
||||||
|
|
||||||
public StructureMap.StructureMapGroupRuleSourceComponent buildSource(String context, @Nullable String element, @Nullable String variable, @Nullable String type, @Nullable Integer min,
|
|
||||||
@Nullable String max) {
|
|
||||||
StructureMap.StructureMapGroupRuleSourceComponent retVal = new StructureMap.StructureMapGroupRuleSourceComponent();
|
|
||||||
retVal.setContext(context);
|
|
||||||
if (element != null)
|
|
||||||
retVal.setElement(element);
|
|
||||||
if (variable != null)
|
|
||||||
retVal.setVariable(variable);
|
|
||||||
if (type != null)
|
|
||||||
retVal.setType(type);
|
|
||||||
if (min != null)
|
|
||||||
retVal.setMin(min);
|
|
||||||
if (max != null)
|
|
||||||
retVal.setMax(max);
|
|
||||||
return retVal;
|
|
||||||
}
|
|
||||||
|
|
||||||
public List<StructureMap.StructureMapGroupRuleTargetComponent> buildTargetList(StructureMap.StructureMapGroupRuleTargetComponent[] sources) {
|
|
||||||
List<StructureMap.StructureMapGroupRuleTargetComponent> retVal = new ArrayList<StructureMap.StructureMapGroupRuleTargetComponent>();
|
|
||||||
retVal.addAll(Arrays.asList(sources));
|
|
||||||
return retVal;
|
|
||||||
}
|
|
||||||
|
|
||||||
public StructureMap.StructureMapGroupRuleTargetComponent buildTarget(@Nullable String context, @Nullable String element, @Nullable String variable,
|
|
||||||
@Nullable StructureMap.StructureMapTransform transform, @Nullable TargetParam[] params) throws Exception {
|
|
||||||
StructureMap.StructureMapGroupRuleTargetComponent retVal = new StructureMap.StructureMapGroupRuleTargetComponent();
|
|
||||||
if (context != null)
|
|
||||||
retVal.setContext(context);
|
|
||||||
if (element != null)
|
|
||||||
retVal.setElement(element);
|
|
||||||
if (variable != null)
|
|
||||||
retVal.setVariable(variable);
|
|
||||||
if (transform != null)
|
|
||||||
retVal.setTransform(transform);
|
|
||||||
if (params != null) {
|
|
||||||
if (params.length > 0)
|
|
||||||
retVal.setParameter(this.constructParameters(params));
|
|
||||||
}
|
|
||||||
return retVal;
|
|
||||||
}
|
|
||||||
|
|
||||||
public List<StructureMap.StructureMapGroupRuleTargetParameterComponent> constructParameters(TargetParam[] params) throws Exception {
|
public List<StructureMap.StructureMapGroupRuleTargetParameterComponent> constructParameters(TargetParam[] params) throws Exception {
|
||||||
List<StructureMap.StructureMapGroupRuleTargetParameterComponent> parameterComponents = new ArrayList<StructureMap.StructureMapGroupRuleTargetParameterComponent>();
|
List<StructureMap.StructureMapGroupRuleTargetParameterComponent> parameterComponents = new ArrayList<StructureMap.StructureMapGroupRuleTargetParameterComponent>();
|
||||||
for (TargetParam tp : params) {
|
for (TargetParam tp : params) {
|
||||||
|
|
@ -293,29 +160,161 @@ public class StructureMapTests2 {
|
||||||
return parameterComponents;
|
return parameterComponents;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
public List<StructureMap.StructureMapStructureComponent> createMapStructureList() {
|
||||||
|
List<StructureMap.StructureMapStructureComponent> retVal = new ArrayList<StructureMap.StructureMapStructureComponent>();
|
||||||
|
StructureMap.StructureMapStructureComponent source = new StructureMap.StructureMapStructureComponent();
|
||||||
|
StructureMap.StructureMapStructureComponent target = new StructureMap.StructureMapStructureComponent();
|
||||||
|
source.setUrl("http://opencimi.org/structuredefinition/TestStructure");
|
||||||
|
source.setMode(StructureMap.StructureMapModelMode.SOURCE);
|
||||||
|
target.setUrl("http://hl7.org/fhir/StructureDefinition/Coding");
|
||||||
|
target.setMode(StructureMap.StructureMapModelMode.TARGET);
|
||||||
|
retVal.add(source);
|
||||||
|
retVal.add(target);
|
||||||
|
return retVal;
|
||||||
|
}
|
||||||
|
|
||||||
|
public StructureDefinition.StructureDefinitionDifferentialComponent createTestDiff() {
|
||||||
|
StructureDefinition.StructureDefinitionDifferentialComponent retVal = new StructureDefinition.StructureDefinitionDifferentialComponent();
|
||||||
|
List<ElementDefinition> eList = new ArrayList<ElementDefinition>();
|
||||||
|
ElementDefinition ed0 = new ElementDefinition();
|
||||||
|
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
||||||
|
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
||||||
|
ed0.setId("TestStructure");
|
||||||
|
ed0.setSliceName("TestStructure");
|
||||||
|
ed0.setPath("TestStructure");
|
||||||
|
// ed0.setBase(base);
|
||||||
|
ed0.setMin(1);
|
||||||
|
ed0.setMax("1");
|
||||||
|
eList.add(ed0);
|
||||||
|
|
||||||
|
ElementDefinition ed = new ElementDefinition();
|
||||||
|
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
||||||
|
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
||||||
|
ed.setId("system");
|
||||||
|
ed.setSliceName("system");
|
||||||
|
ed.setPath("TestStructure.system");
|
||||||
|
// ed.setBase(base);
|
||||||
|
ed.setFixed(new UriType().setValue("HTTP://opencimi.org/structuredefinition/TestStructure.html#Debugging"));
|
||||||
|
// ed.setType(this.createTypeRefList());
|
||||||
|
eList.add(ed);
|
||||||
|
retVal.setElement(eList);
|
||||||
|
return retVal;
|
||||||
|
}
|
||||||
|
|
||||||
|
public StructureDefinition.StructureDefinitionSnapshotComponent createTestSnapshot() {
|
||||||
|
StructureDefinition.StructureDefinitionSnapshotComponent retVal = new StructureDefinition.StructureDefinitionSnapshotComponent();
|
||||||
|
List<ElementDefinition> eList = new ArrayList<ElementDefinition>();
|
||||||
|
ElementDefinition ed0 = new ElementDefinition();
|
||||||
|
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
||||||
|
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
||||||
|
ed0.setId("TestStructure");
|
||||||
|
ed0.setSliceName("TestStructure");
|
||||||
|
ed0.setPath("TestStructure");
|
||||||
|
// ed0.setBase(base);
|
||||||
|
ed0.setMin(1);
|
||||||
|
ed0.setMax("1");
|
||||||
|
eList.add(ed0);
|
||||||
|
|
||||||
|
ElementDefinition ed = new ElementDefinition();
|
||||||
|
// ElementDefinition.ElementDefinitionBaseComponent base = new ElementDefinition.ElementDefinitionBaseComponent();
|
||||||
|
// base.setId("http://hl7.org/fhir/StructureDefinition/Element");
|
||||||
|
ed.setId("system");
|
||||||
|
ed.setSliceName("system");
|
||||||
|
ed.setPath("TestStructure.system");
|
||||||
|
// ed.setBase(base);
|
||||||
|
ed.setFixed(new UriType().setValue("HTTP://opencimi.org/structuredefinition/TestStructure.html#Debugging"));
|
||||||
|
// ed.setType(this.createTypeRefList());
|
||||||
|
ed.setMin(1);
|
||||||
|
ed.setMax("1");
|
||||||
|
eList.add(ed);
|
||||||
|
retVal.setElement(eList);
|
||||||
|
return retVal;
|
||||||
|
|
||||||
|
}
|
||||||
|
|
||||||
|
public StructureDefinition createTestStructure() {
|
||||||
|
StructureDefinition sd = new StructureDefinition();
|
||||||
|
sd.setId("TestStructure");
|
||||||
|
sd.setUrl("http://opencimi.org/structuredefinition/TestStructure");
|
||||||
|
sd.setStatus(Enumerations.PublicationStatus.DRAFT);
|
||||||
|
sd.setName("TestStructure");
|
||||||
|
sd.setType("TestStructure");
|
||||||
|
sd.setSnapshot(this.createTestSnapshot());
|
||||||
|
sd.setDifferential(this.createTestDiff());
|
||||||
|
sd.setKind(StructureDefinition.StructureDefinitionKind.LOGICAL);
|
||||||
|
|
||||||
|
return sd;
|
||||||
|
}
|
||||||
|
|
||||||
|
public StructureMap createTestStructuremap() throws Exception {
|
||||||
|
StructureMap retMap = new StructureMap();
|
||||||
|
retMap.setUrl("http://opencimi.org/structuremap/testtransform");
|
||||||
|
retMap.setName("TestTransform");
|
||||||
|
retMap.setStatus(Enumerations.PublicationStatus.DRAFT);
|
||||||
|
retMap.setStructure(this.createMapStructureList());
|
||||||
|
retMap.setGroup(this.buildTestGroup());
|
||||||
|
return retMap;
|
||||||
|
}
|
||||||
|
|
||||||
|
/**
|
||||||
|
* Sets up the resource paths as well as create the contexts using a defalut validator to start with.
|
||||||
|
*
|
||||||
|
* @throws Exception
|
||||||
|
*/
|
||||||
|
@Before
|
||||||
|
public void setUp() throws Exception {
|
||||||
|
if (this.context == null) {
|
||||||
|
this.context = FhirContext.forDstu3();
|
||||||
|
}
|
||||||
|
}
|
||||||
|
|
||||||
|
/**
|
||||||
|
* See #682
|
||||||
|
*/
|
||||||
|
@Test
|
||||||
|
public void testMappingTransform() throws Exception {
|
||||||
|
Map<String, StructureMap> maps = new HashMap<String, StructureMap>(); // Instantiate a hashmap for StructureMaps
|
||||||
|
this.validationSupport = new PrePopulatedValidationSupport(); // Create Validation Instance
|
||||||
|
for (StructureDefinition sd : new DefaultProfileValidationSupport().fetchAllStructureDefinitions(this.context)) { // Read in the default Structure Definitions into a validator that allows custom
|
||||||
|
// declared structure definitions.
|
||||||
|
this.validationSupport.addStructureDefinition(sd);
|
||||||
|
}
|
||||||
|
StructureDefinition sd1 = this.createTestStructure(); // Calls a method that constructs a comp
|
||||||
|
this.validationSupport.addStructureDefinition(sd1); // Add custom structure to validation support.
|
||||||
|
this.hapiContext = new HapiWorkerContext(this.context, this.validationSupport);// Init the Hapi Work
|
||||||
|
StructureMap map = this.createTestStructuremap();
|
||||||
|
maps.put(map.getUrl(), map);
|
||||||
|
StructureMapUtilities scu = new StructureMapUtilities(hapiContext, maps, null, null);
|
||||||
|
List<StructureDefinition> result = scu.analyse(null, map).getProfiles();
|
||||||
|
|
||||||
|
assertEquals(1, result.size());
|
||||||
|
|
||||||
|
ourLog.info(context.newXmlParser().setPrettyPrint(true).encodeResourceToString(result.get(0)));
|
||||||
|
}
|
||||||
|
|
||||||
public class TargetParam {
|
public class TargetParam {
|
||||||
|
private String type;
|
||||||
|
|
||||||
|
private String value;
|
||||||
|
|
||||||
public TargetParam(String type, String value) {
|
public TargetParam(String type, String value) {
|
||||||
|
|
||||||
this.type = type;
|
this.type = type;
|
||||||
this.value = value;
|
this.value = value;
|
||||||
}
|
}
|
||||||
|
|
||||||
private String type;
|
|
||||||
|
|
||||||
private String value;
|
|
||||||
|
|
||||||
public String getType() {
|
public String getType() {
|
||||||
return type;
|
return type;
|
||||||
}
|
}
|
||||||
|
|
||||||
public void setType(String type) {
|
|
||||||
this.type = type;
|
|
||||||
}
|
|
||||||
|
|
||||||
public String getValue() {
|
public String getValue() {
|
||||||
return value;
|
return value;
|
||||||
}
|
}
|
||||||
|
|
||||||
|
public void setType(String type) {
|
||||||
|
this.type = type;
|
||||||
|
}
|
||||||
|
|
||||||
public void setValue(String value) {
|
public void setValue(String value) {
|
||||||
this.value = value;
|
this.value = value;
|
||||||
}
|
}
|
||||||
|
|
@ -149,6 +149,13 @@
|
||||||
AuthorizationInterceptor did not permit PATCH operations to proceed even
|
AuthorizationInterceptor did not permit PATCH operations to proceed even
|
||||||
if the user had write access for the resource being patched.
|
if the user had write access for the resource being patched.
|
||||||
</action>
|
</action>
|
||||||
|
<action type="fix" issue="682">
|
||||||
|
Fix an issue in HapiWorkerContext where structure definitions are
|
||||||
|
not able to be retrieved if they are referred to by their
|
||||||
|
relative or logical ID. This affects profile tooling such as
|
||||||
|
StructureMapUtilities. Thanks to Travis Lukach for reporting and
|
||||||
|
providing a test case!
|
||||||
|
</action>
|
||||||
</release>
|
</release>
|
||||||
<release version="2.5" date="2017-06-08">
|
<release version="2.5" date="2017-06-08">
|
||||||
<action type="fix">
|
<action type="fix">
|
||||||
|
|
|
||||||
Loading…
Reference in New Issue