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Merge pull request #1454 from hapifhir/2023-10-gg-cda-fixes-2 

2023 10 gg cda fixes 2
This commit is contained in:
Grahame Grieve 2023-10-09 14:59:21 +03:00 committed by GitHub
parent 66ecd24cad 31e3e5c9bb
commit a30218177f
No known key found for this signature in database
GPG Key ID: 4AEE18F83AFDEB23
39 changed files with 1176 additions and 426 deletions
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2
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/VersionConvertorConstants.java
View File

@ -41,7 +41,7 @@ public class VersionConvertorConstants {
public final static String MODIFIER_REASON_LEGACY = "No Modifier Reason provideed in previous versions of FHIR";
public final static String PROFILE_EXTENSION = "http://hl7.org/fhir/4.0/StructureDefinition/extension-ElementDefinition.type.profile";
public final static String IG_CONFORMANCE_MESSAGE_EVENT = "http://hl7.org/fhir/1.0/StructureDefinition/extension-Conformance.messaging.event";
public static final String EXT_OLD_CONCEPTMAP_EQUIVALENCE = "http://hl7.org/fhir/1.0/StructureDefinition/extension-ConceptMap.element.target.equivalence";
public static final String EXT_OLD_CONCEPTMAP_EQUIVALENCE = "http://hl7.org/fhir/1.0/StructureDefinition/extension-ConceptMap.group.element.target.equivalence";
public static final String EXT_ACTUAL_RESOURCE_NAME = "http://hl7.org/fhir/tools/StructureDefinition/original-resource-name";
public static final String EXT_QUESTIONNAIRE_ITEM_TYPE_ORIGINAL = QuestionnaireRenderer.EXT_QUESTIONNAIRE_ITEM_TYPE_ORIGINAL;
public static final String EXT_NAMINGSYSTEM_TITLE = "http://hl7.org/fhir/5.0/StructureDefinition/extension-NamingSystem.title";

18
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv10_50/resources10_50/ConceptMap10_50.java
View File

@ -148,13 +148,13 @@ public class ConceptMap10_50 {
return tgt;
}
public static org.hl7.fhir.dstu2.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src) throws FHIRException {
public static org.hl7.fhir.dstu2.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent ccm) throws FHIRException {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.dstu2.model.Enumeration<ConceptMapEquivalence> tgt = new org.hl7.fhir.dstu2.model.Enumeration<ConceptMapEquivalence>(new org.hl7.fhir.dstu2.model.Enumerations.ConceptMapEquivalenceEnumFactory());
ConversionContext10_50.INSTANCE.getVersionConvertor_10_50().copyElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(src.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
ConversionContext10_50.INSTANCE.getVersionConvertor_10_50().copyElement(src, tgt);
if (ccm.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(ccm.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
} else {
switch (src.getValue()) {
case EQUIVALENT:
@ -177,12 +177,12 @@ public class ConceptMap10_50 {
return tgt;
}
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.dstu2.model.Enumeration<ConceptMapEquivalence> src) throws FHIRException {
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.dstu2.model.Enumeration<ConceptMapEquivalence> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent tgtCtxt) throws FHIRException {
if (src == null || src.isEmpty())
return null;
Enumeration<ConceptMapRelationship> tgt = new Enumeration<ConceptMapRelationship>(new Enumerations.ConceptMapRelationshipEnumFactory());
ConversionContext10_50.INSTANCE.getVersionConvertor_10_50().copyElement(src, tgt);
ToolingExtensions.setCodeExtension(tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
ToolingExtensions.setCodeExtensionMod(tgtCtxt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
switch (src.getValue()) {
case EQUIVALENT:
tgt.setValue(org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship.EQUIVALENT);
@ -283,12 +283,12 @@ public class ConceptMap10_50 {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.dstu2.model.ConceptMap.TargetElementComponent tgt = new org.hl7.fhir.dstu2.model.ConceptMap.TargetElementComponent();
ConversionContext10_50.INSTANCE.getVersionConvertor_10_50().copyBackboneElement(src,tgt);
ConversionContext10_50.INSTANCE.getVersionConvertor_10_50().copyBackboneElement(src,tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
tgt.setCodeSystem(g.getTarget());
if (src.hasCodeElement())
tgt.setCodeElement(Code10_50.convertCode(src.getCodeElement()));
if (src.hasRelationship())
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement()));
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement(), src));
if (src.hasCommentElement())
tgt.setCommentsElement(String10_50.convertString(src.getCommentElement()));
for (org.hl7.fhir.r5.model.ConceptMap.OtherElementComponent t : src.getDependsOn())
@ -306,7 +306,7 @@ public class ConceptMap10_50 {
if (src.hasCodeElement())
tgt.setCodeElement(Code10_50.convertCode(src.getCodeElement()));
if (src.hasEquivalence())
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement()));
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement(), tgt));
if (src.hasCommentsElement())
tgt.setCommentElement(String10_50.convertString(src.getCommentsElement()));
for (org.hl7.fhir.dstu2.model.ConceptMap.OtherElementComponent t : src.getDependsOn())

18
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv14_50/resources14_50/ConceptMap14_50.java
View File

@ -151,13 +151,13 @@ public class ConceptMap14_50 {
return tgt;
}
public static org.hl7.fhir.dstu2016may.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src) throws FHIRException {
public static org.hl7.fhir.dstu2016may.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent ccm) throws FHIRException {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.dstu2016may.model.Enumeration<ConceptMapEquivalence> tgt = new org.hl7.fhir.dstu2016may.model.Enumeration<ConceptMapEquivalence>(new org.hl7.fhir.dstu2016may.model.Enumerations.ConceptMapEquivalenceEnumFactory());
ConversionContext14_50.INSTANCE.getVersionConvertor_14_50().copyElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(src.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
ConversionContext14_50.INSTANCE.getVersionConvertor_14_50().copyElement(src, tgt);
if (ccm.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(ccm.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
} else {
switch (src.getValue()) {
case EQUIVALENT:
@ -180,12 +180,12 @@ public class ConceptMap14_50 {
return tgt;
}
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.dstu2016may.model.Enumeration<ConceptMapEquivalence> src) throws FHIRException {
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.dstu2016may.model.Enumeration<ConceptMapEquivalence> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent tgtCtxt) throws FHIRException {
if (src == null || src.isEmpty())
return null;
Enumeration<ConceptMapRelationship> tgt = new Enumeration<ConceptMapRelationship>(new Enumerations.ConceptMapRelationshipEnumFactory());
ConversionContext14_50.INSTANCE.getVersionConvertor_14_50().copyElement(src, tgt);
ToolingExtensions.setCodeExtension(tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
ToolingExtensions.setCodeExtensionMod(tgtCtxt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
switch (src.getValue()) {
case EQUIVALENT:
tgt.setValue(org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship.EQUIVALENT);
@ -293,13 +293,13 @@ public class ConceptMap14_50 {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.dstu2016may.model.ConceptMap.TargetElementComponent tgt = new org.hl7.fhir.dstu2016may.model.ConceptMap.TargetElementComponent();
ConversionContext14_50.INSTANCE.getVersionConvertor_14_50().copyBackboneElement(src,tgt);
ConversionContext14_50.INSTANCE.getVersionConvertor_14_50().copyBackboneElement(src,tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (g.hasTarget())
tgt.setSystem(g.getTarget());
if (src.hasCode())
tgt.setCodeElement(Code14_50.convertCode(src.getCodeElement()));
if (src.hasRelationship())
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement()));
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement(), src));
if (src.hasComment())
tgt.setCommentsElement(String14_50.convertString(src.getCommentElement()));
for (org.hl7.fhir.r5.model.ConceptMap.OtherElementComponent t : src.getDependsOn())
@ -317,7 +317,7 @@ public class ConceptMap14_50 {
if (src.hasCode())
tgt.setCodeElement(Code14_50.convertCode(src.getCodeElement()));
if (src.hasEquivalence())
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement()));
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement(), tgt));
if (src.hasComments())
tgt.setCommentElement(String14_50.convertString(src.getCommentsElement()));
for (org.hl7.fhir.dstu2016may.model.ConceptMap.OtherElementComponent t : src.getDependsOn())

18
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv30_50/resources30_50/ConceptMap30_50.java
View File

@ -247,13 +247,13 @@ public class ConceptMap30_50 {
return tgt;
}
public static org.hl7.fhir.dstu3.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src) throws FHIRException {
public static org.hl7.fhir.dstu3.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent ccm) throws FHIRException {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.dstu3.model.Enumeration<ConceptMapEquivalence> tgt = new org.hl7.fhir.dstu3.model.Enumeration<ConceptMapEquivalence>(new org.hl7.fhir.dstu3.model.Enumerations.ConceptMapEquivalenceEnumFactory());
ConversionContext30_50.INSTANCE.getVersionConvertor_30_50().copyElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(src.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
ConversionContext30_50.INSTANCE.getVersionConvertor_30_50().copyElement(src, tgt);
if (ccm.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(ccm.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
} else {
switch (src.getValue()) {
case EQUIVALENT:
@ -279,12 +279,12 @@ public class ConceptMap30_50 {
return tgt;
}
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.dstu3.model.Enumeration<ConceptMapEquivalence> src) throws FHIRException {
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.dstu3.model.Enumeration<ConceptMapEquivalence> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent tgtCtxt) throws FHIRException {
if (src == null || src.isEmpty())
return null;
Enumeration<ConceptMapRelationship> tgt = new Enumeration<ConceptMapRelationship>(new Enumerations.ConceptMapRelationshipEnumFactory());
ConversionContext30_50.INSTANCE.getVersionConvertor_30_50().copyElement(src, tgt);
ToolingExtensions.setCodeExtension(tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
ToolingExtensions.setCodeExtensionMod(tgtCtxt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
switch (src.getValue()) {
case EQUIVALENT:
tgt.setValue(org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship.EQUIVALENT);
@ -402,7 +402,7 @@ public class ConceptMap30_50 {
if (src.hasDisplay())
tgt.setDisplayElement(String30_50.convertString(src.getDisplayElement()));
if (src.hasEquivalence())
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement()));
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement(), tgt));
if (src.hasComment())
tgt.setCommentElement(String30_50.convertString(src.getCommentElement()));
for (org.hl7.fhir.dstu3.model.ConceptMap.OtherElementComponent t : src.getDependsOn())
@ -416,13 +416,13 @@ public class ConceptMap30_50 {
if (src == null)
return null;
org.hl7.fhir.dstu3.model.ConceptMap.TargetElementComponent tgt = new org.hl7.fhir.dstu3.model.ConceptMap.TargetElementComponent();
ConversionContext30_50.INSTANCE.getVersionConvertor_30_50().copyBackboneElement(src,tgt);
ConversionContext30_50.INSTANCE.getVersionConvertor_30_50().copyBackboneElement(src,tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasCode())
tgt.setCodeElement(Code30_50.convertCode(src.getCodeElement()));
if (src.hasDisplay())
tgt.setDisplayElement(String30_50.convertString(src.getDisplayElement()));
if (src.hasRelationship())
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement()));
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement(), src));
if (src.hasComment())
tgt.setCommentElement(String30_50.convertString(src.getCommentElement()));
for (org.hl7.fhir.r5.model.ConceptMap.OtherElementComponent t : src.getDependsOn())

18
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv40_50/resources40_50/ConceptMap40_50.java
View File

@ -242,7 +242,7 @@ public class ConceptMap40_50 {
if (src.hasDisplay())
tgt.setDisplayElement(String40_50.convertString(src.getDisplayElement()));
if (src.hasEquivalence())
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement()));
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement(), tgt));
if (src.hasComment())
tgt.setCommentElement(String40_50.convertString(src.getCommentElement()));
for (org.hl7.fhir.r4.model.ConceptMap.OtherElementComponent t : src.getDependsOn())
@ -256,13 +256,13 @@ public class ConceptMap40_50 {
if (src == null)
return null;
org.hl7.fhir.r4.model.ConceptMap.TargetElementComponent tgt = new org.hl7.fhir.r4.model.ConceptMap.TargetElementComponent();
ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().copyBackboneElement(src, tgt);
ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().copyBackboneElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasCode())
tgt.setCodeElement(Code40_50.convertCode(src.getCodeElement()));
if (src.hasDisplay())
tgt.setDisplayElement(String40_50.convertString(src.getDisplayElement()));
if (src.hasRelationship())
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement()));
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement(), src));
else
tgt.setEquivalence(ConceptMapEquivalence.RELATEDTO);
if (src.hasComment())
@ -274,13 +274,13 @@ public class ConceptMap40_50 {
return tgt;
}
public static org.hl7.fhir.r4.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src) throws FHIRException {
public static org.hl7.fhir.r4.model.Enumeration<ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent ccm) throws FHIRException {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.r4.model.Enumeration<ConceptMapEquivalence> tgt = new org.hl7.fhir.r4.model.Enumeration<ConceptMapEquivalence>(new org.hl7.fhir.r4.model.Enumerations.ConceptMapEquivalenceEnumFactory());
ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().copyElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(src.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().copyElement(src, tgt);
if (ccm.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(ccm.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
} else {
switch (src.getValue()) {
case RELATEDTO:
@ -306,12 +306,12 @@ public class ConceptMap40_50 {
return tgt;
}
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.r4.model.Enumeration<ConceptMapEquivalence> src) throws FHIRException {
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.r4.model.Enumeration<ConceptMapEquivalence> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent tgtCtxt) throws FHIRException {
if (src == null || src.isEmpty())
return null;
Enumeration<ConceptMapRelationship> tgt = new Enumeration<ConceptMapRelationship>(new Enumerations.ConceptMapRelationshipEnumFactory());
ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().copyElement(src, tgt);
ToolingExtensions.setCodeExtension(tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
ToolingExtensions.setCodeExtensionMod(tgtCtxt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
switch (src.getValue()) {
case EQUIVALENT:
tgt.setValue(org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship.EQUIVALENT);

18
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv43_50/resources43_50/ConceptMap43_50.java
View File

@ -241,7 +241,7 @@ public class ConceptMap43_50 {
if (src.hasDisplay())
tgt.setDisplayElement(String43_50.convertString(src.getDisplayElement()));
if (src.hasEquivalence())
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement()));
tgt.setRelationshipElement(convertConceptMapRelationship(src.getEquivalenceElement(), tgt));
if (src.hasComment())
tgt.setCommentElement(String43_50.convertString(src.getCommentElement()));
for (org.hl7.fhir.r4b.model.ConceptMap.OtherElementComponent t : src.getDependsOn())
@ -255,13 +255,13 @@ public class ConceptMap43_50 {
if (src == null)
return null;
org.hl7.fhir.r4b.model.ConceptMap.TargetElementComponent tgt = new org.hl7.fhir.r4b.model.ConceptMap.TargetElementComponent();
ConversionContext43_50.INSTANCE.getVersionConvertor_43_50().copyBackboneElement(src, tgt);
ConversionContext43_50.INSTANCE.getVersionConvertor_43_50().copyBackboneElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasCode())
tgt.setCodeElement(Code43_50.convertCode(src.getCodeElement()));
if (src.hasDisplay())
tgt.setDisplayElement(String43_50.convertString(src.getDisplayElement()));
if (src.hasRelationship())
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement()));
tgt.setEquivalenceElement(convertConceptMapEquivalence(src.getRelationshipElement(), src));
else
tgt.setEquivalence(org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence.RELATEDTO);
if (src.hasComment())
@ -273,13 +273,13 @@ public class ConceptMap43_50 {
return tgt;
}
public static org.hl7.fhir.r4b.model.Enumeration<org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src) throws FHIRException {
public static org.hl7.fhir.r4b.model.Enumeration<org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence> convertConceptMapEquivalence(Enumeration<ConceptMapRelationship> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent ccm) throws FHIRException {
if (src == null || src.isEmpty())
return null;
org.hl7.fhir.r4b.model.Enumeration<org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence> tgt = new org.hl7.fhir.r4b.model.Enumeration<org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence>(new org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalenceEnumFactory());
ConversionContext43_50.INSTANCE.getVersionConvertor_43_50().copyElement(src, tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (src.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(src.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
ConversionContext43_50.INSTANCE.getVersionConvertor_43_50().copyElement(src, tgt);
if (ccm.hasExtension(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
tgt.setValueAsString(ccm.getExtensionString(VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE));
} else {
switch (src.getValue()) {
case RELATEDTO:
@ -305,12 +305,12 @@ public class ConceptMap43_50 {
return tgt;
}
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.r4b.model.Enumeration<org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence> src) throws FHIRException {
public static Enumeration<ConceptMapRelationship> convertConceptMapRelationship(org.hl7.fhir.r4b.model.Enumeration<org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence> src, org.hl7.fhir.r5.model.ConceptMap.TargetElementComponent tgtCtxt) throws FHIRException {
if (src == null || src.isEmpty())
return null;
Enumeration<ConceptMapRelationship> tgt = new Enumeration<ConceptMapRelationship>(new Enumerations.ConceptMapRelationshipEnumFactory());
ConversionContext43_50.INSTANCE.getVersionConvertor_43_50().copyElement(src, tgt);
ToolingExtensions.setCodeExtension(tgt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
ToolingExtensions.setCodeExtensionMod(tgtCtxt, VersionConvertorConstants.EXT_OLD_CONCEPTMAP_EQUIVALENCE, src.getValueAsString());
switch (src.getValue()) {
case EQUIVALENT:
tgt.setValue(org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship.EQUIVALENT);

7
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/loaderR5/R5ToR5Loader.java
View File

@ -107,6 +107,13 @@ public class R5ToR5Loader extends BaseLoaderR5 {
if (patchUrls) {
doPatchUrls(r5);
}
if (r5 instanceof StructureDefinition) {
StructureDefinition sd = (StructureDefinition) r5;
if ("http://hl7.org/fhir/StructureDefinition/Base".equals(sd.getUrl())) {
sd.getSnapshot().getElementFirstRep().getConstraint().clear();
}
}
return r5;
}

25
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/utils/ToolingExtensions.java
View File

@ -88,6 +88,8 @@ import org.hl7.fhir.dstu3.model.Type;
import org.hl7.fhir.dstu3.model.UriType;
import org.hl7.fhir.dstu3.model.ValueSet.ConceptReferenceComponent;
import org.hl7.fhir.dstu3.model.ValueSet.ConceptSetComponent;
import org.hl7.fhir.dstu3.model.BackboneElement;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.validation.ValidationMessage.Source;
@ -433,6 +435,29 @@ public class ToolingExtensions {
else
resource.getExtension().add(new Extension(new UriType(uri)).setValue(new IntegerType(value)));
}
public static void setCodeExtensionMod(DomainResource resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(BackboneElement resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
// public static String getOID(CodeSystem define) {
// return readStringExtension(define, EXT_OID);

136
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/BackboneElement.java
View File

@ -3,19 +3,19 @@ package org.hl7.fhir.r4.model;
/*
Copyright (c) 2011+, HL7, Inc.
All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* Redistributions in binary form must reproduce the above copyright notice,
* Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
* Neither the name of HL7 nor the names of its contributors may be used to
* Neither the name of HL7 nor the names of its contributors may be used to
endorse or promote products derived from this software without specific
prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.
@ -26,8 +26,8 @@ package org.hl7.fhir.r4.model;
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
POSSIBILITY OF SUCH DAMAGE.
*/
*/
// Generated on Tue, May 12, 2020 07:26+1000 for FHIR v4.0.1
import java.util.ArrayList;
@ -35,6 +35,7 @@ import java.util.List;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.IBaseBackboneElement;
import org.hl7.fhir.utilities.Utilities;
import ca.uhn.fhir.model.api.annotation.Child;
import ca.uhn.fhir.model.api.annotation.DatatypeDef;
@ -203,7 +204,7 @@ public abstract class BackboneElement extends Element implements IBaseBackboneEl
this.getModifierExtension().remove(castToExtension(value));
} else
super.removeChild(name, value);
}
@Override
@ -277,7 +278,7 @@ public abstract class BackboneElement extends Element implements IBaseBackboneEl
return super.isEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty(modifierExtension);
}
// added from java-adornments.txt:
// added from java-adornments.txt:
public void checkNoModifiers(String noun, String verb) throws FHIRException {
if (hasModifierExtension()) {
@ -286,6 +287,119 @@ public abstract class BackboneElement extends Element implements IBaseBackboneEl
}
// end addition
public void addModifierExtension(String url, Type value) {
if (isDisallowExtensions())
throw new Error("Extensions are not allowed in this context");
Extension ex = new Extension();
ex.setUrl(url);
ex.setValue(value);
getModifierExtension().add(ex);
}
@Override
public Extension getExtensionByUrl(String theUrl) {
org.apache.commons.lang3.Validate.notBlank(theUrl, "theUrl must not be blank or null");
ArrayList<Extension> retVal = new ArrayList<Extension>();
Extension res = super.getExtensionByUrl(theUrl);
if (res != null) {
retVal.add(res);
}
for (Extension next : getModifierExtension()) {
if (theUrl.equals(next.getUrl())) {
retVal.add(next);
}
}
if (retVal.size() == 0)
return null;
else {
org.apache.commons.lang3.Validate.isTrue(retVal.size() == 1, "Url "+theUrl+" must have only one match");
return retVal.get(0);
}
}
@Override
public void removeExtension(String theUrl) {
for (int i = getModifierExtension().size()-1; i >= 0; i--) {
if (theUrl.equals(getExtension().get(i).getUrl()))
getExtension().remove(i);
}
super.removeExtension(theUrl);
}
/**
* Returns an unmodifiable list containing all extensions on this element which
* match the given URL.
*
* @param theUrl The URL. Must not be blank or null.
* @return an unmodifiable list containing all extensions on this element which
* match the given URL
*/
@Override
public List<Extension> getExtensionsByUrl(String theUrl) {
org.apache.commons.lang3.Validate.notBlank(theUrl, "theUrl must not be blank or null");
ArrayList<Extension> retVal = new ArrayList<Extension>();
retVal.addAll(super.getExtensionsByUrl(theUrl));
for (Extension next : getModifierExtension()) {
if (theUrl.equals(next.getUrl())) {
retVal.add(next);
}
}
return java.util.Collections.unmodifiableList(retVal);
}
public void copyExtensions(org.hl7.fhir.r4.model.BackboneElement src, String... urls) {
super.copyExtensions(src,urls);
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addModifierExtension(e.copy());
}
}
}
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
retVal.addAll(super.getExtensionsByUrl(theUrls));
return java.util.Collections.unmodifiableList(retVal);
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return super.hasExtension(theUrls);
}
public boolean hasExtension(String theUrl) {
for (Extension ext : getModifierExtension()) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return super.hasExtension(theUrl);
}
public void copyNewExtensions(org.hl7.fhir.r4.model.BackboneElement src, String... urls) {
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
super.copyNewExtensions(src, urls);
}
// end addition
}

75
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/BackboneType.java
View File

@ -3,19 +3,19 @@ package org.hl7.fhir.r4.model;
/*
Copyright (c) 2011+, HL7, Inc.
All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* Redistributions in binary form must reproduce the above copyright notice,
* Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
* Neither the name of HL7 nor the names of its contributors may be used to
* Neither the name of HL7 nor the names of its contributors may be used to
endorse or promote products derived from this software without specific
prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.
@ -26,8 +26,8 @@ package org.hl7.fhir.r4.model;
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
POSSIBILITY OF SUCH DAMAGE.
*/
*/
// Generated on Mon, Mar 5, 2018 18:26+1100 for FHIR v3.2.0
import java.util.ArrayList;
@ -35,6 +35,7 @@ import java.util.List;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.IBaseBackboneElement;
import org.hl7.fhir.utilities.Utilities;
import ca.uhn.fhir.model.api.annotation.Child;
import ca.uhn.fhir.model.api.annotation.DatatypeDef;
@ -193,7 +194,7 @@ public abstract class BackboneType extends Type implements IBaseBackboneElement
this.getModifierExtension().remove(castToExtension(value));
} else
super.removeChild(name, value);
}
@Override
@ -267,15 +268,65 @@ public abstract class BackboneType extends Type implements IBaseBackboneElement
return super.isEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty(modifierExtension);
}
// added from java-adornments.txt:
// added from java-adornments.txt:
public void checkNoModifiers(String noun, String verb) throws FHIRException {
if (hasModifierExtension()) {
throw new FHIRException("Found unknown Modifier Exceptions on " + noun + " doing " + verb);
}
}
// end addition
public void copyExtensions(org.hl7.fhir.r4.model.BackboneElement src, String... urls) {
super.copyExtensions(src,urls);
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addModifierExtension(e.copy());
}
}
}
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
retVal.addAll(super.getExtensionsByUrl(theUrls));
return java.util.Collections.unmodifiableList(retVal);
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return super.hasExtension(theUrls);
}
public boolean hasExtension(String theUrl) {
for (Extension ext : getModifierExtension()) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return super.hasExtension(theUrl);
}
public void copyNewExtensions(org.hl7.fhir.r4.model.BackboneElement src, String... urls) {
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
super.copyNewExtensions(src, urls);
}
// end addition
}

75
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/Element.java
View File

@ -3,19 +3,19 @@ package org.hl7.fhir.r4.model;
/*
Copyright (c) 2011+, HL7, Inc.
All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* Redistributions in binary form must reproduce the above copyright notice,
* Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
* Neither the name of HL7 nor the names of its contributors may be used to
* Neither the name of HL7 nor the names of its contributors may be used to
endorse or promote products derived from this software without specific
prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.
@ -26,8 +26,8 @@ package org.hl7.fhir.r4.model;
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
POSSIBILITY OF SUCH DAMAGE.
*/
*/
// Generated on Tue, May 12, 2020 07:26+1000 for FHIR v4.0.1
import java.util.ArrayList;
@ -36,6 +36,7 @@ import java.util.List;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.IBaseElement;
import org.hl7.fhir.instance.model.api.IBaseHasExtensions;
import org.hl7.fhir.utilities.StandardsStatus;
import org.hl7.fhir.utilities.Utilities;
import ca.uhn.fhir.model.api.annotation.Child;
@ -303,7 +304,7 @@ public abstract class Element extends Base implements IBaseHasExtensions, IBaseE
this.getExtension().remove(castToExtension(value));
} else
super.removeChild(name, value);
}
@Override
@ -393,7 +394,7 @@ public abstract class Element extends Base implements IBaseHasExtensions, IBaseE
setId(value);
}
// added from java-adornments.txt:
// added from java-adornments.txt:
public void addExtension(String url, Type value) {
if (disallowExtensions)
throw new Error("Extensions are not allowed in this context");
@ -446,6 +447,58 @@ public abstract class Element extends Base implements IBaseHasExtensions, IBaseE
return this;
}
// end addition
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
return java.util.Collections.unmodifiableList(retVal);
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return false;
}
public boolean hasExtension(Extension ext) {
if (hasExtension()) {
for (Extension t : getExtension()) {
if (Base.compareDeep(t, ext, false)) {
return true;
}
}
}
return false;
}
public void copyExtensions(org.hl7.fhir.r4.model.Element src, String... urls) {
for (Extension e : src.getExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addExtension(e.copy());
}
}
}
public void copyNewExtensions(org.hl7.fhir.r4.model.Element src, String... urls) {
for (Extension e : src.getExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
}
// end addition
}

7
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/CmdLineApp.java
View File

@ -10,7 +10,7 @@ import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4.context.SimpleWorkerContext;
import org.hl7.fhir.r4.formats.IParser.OutputStyle;
import org.hl7.fhir.r4.formats.JsonParser;
import org.hl7.fhir.r4.formats.XmlParser;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.BooleanType;
import org.hl7.fhir.r4.model.Bundle;
@ -26,6 +26,8 @@ import org.hl7.fhir.r4.model.HumanName;
import org.hl7.fhir.r4.model.Immunization;
import org.hl7.fhir.r4.model.Parameters;
import org.hl7.fhir.r4.model.Parameters.ParametersParameterComponent;
import org.hl7.fhir.r4.model.HumanName;
import org.hl7.fhir.r4.model.Immunization;
import org.hl7.fhir.r4.model.Patient;
import org.hl7.fhir.r4.model.Period;
import org.hl7.fhir.r4.model.Procedure;
@ -118,7 +120,7 @@ public class CmdLineApp {
} else if (p.length > 3 && p[0].equals("tx")) {
tx(p);
} else {
tx(p);
System.out.println("Command unknown or not understood: "+cmd);
}
} catch (Exception e) {
System.out.println("Error executing command "+p[0]+": "+e.getMessage());
@ -170,7 +172,6 @@ public class CmdLineApp {
}
private void getImmunizations() throws IOException {
Bundle bnd = client.search("Immunization", "?patient="+currentId);
System.out.println(""+bnd.getTotal()+" Immunizations found. Printing "+bnd.getEntry().size());

25
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/ToolingExtensions.java
View File

@ -92,6 +92,7 @@ import org.hl7.fhir.r4.model.UriType;
import org.hl7.fhir.r4.model.UrlType;
import org.hl7.fhir.r4.model.ValueSet.ConceptReferenceComponent;
import org.hl7.fhir.r4.model.ValueSet.ConceptSetComponent;
import org.hl7.fhir.r4.model.BackboneElement;
import org.hl7.fhir.utilities.StandardsStatus;
import org.hl7.fhir.utilities.validation.ValidationMessage;
import org.hl7.fhir.utilities.validation.ValidationMessage.IssueSeverity;
@ -550,6 +551,30 @@ public class ToolingExtensions {
else
element.getExtension().add(new Extension(new UriType(uri)).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(DomainResource resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(BackboneElement resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setIntegerExtension(DomainResource resource, String uri, int value) {
Extension ext = getExtension(resource, uri);

52
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/model/BackboneElement.java
View File

@ -34,6 +34,7 @@ import java.util.ArrayList;
import java.util.Date;
import java.util.List;
import org.hl7.fhir.r4b.model.Enumerations.*;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.instance.model.api.IBaseDatatypeElement;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.ICompositeType;
@ -348,7 +349,58 @@ public abstract class BackboneElement extends DataType implements IBaseBackboneE
}
return java.util.Collections.unmodifiableList(retVal);
}
public void copyExtensions(org.hl7.fhir.r4b.model.BackboneElement src, String... urls) {
super.copyExtensions(src,urls);
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addModifierExtension(e.copy());
}
}
}
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
retVal.addAll(super.getExtensionsByUrl(theUrls));
return java.util.Collections.unmodifiableList(retVal);
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return super.hasExtension(theUrls);
}
public boolean hasExtension(String theUrl) {
for (Extension ext : getModifierExtension()) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return super.hasExtension(theUrl);
}
public void copyNewExtensions(org.hl7.fhir.r4b.model.BackboneElement src, String... urls) {
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
super.copyNewExtensions(src, urls);
}
// end addition
}

53
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/model/BackboneType.java
View File

@ -34,6 +34,7 @@ import java.util.ArrayList;
import java.util.Date;
import java.util.List;
import org.hl7.fhir.r4b.model.Enumerations.*;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.instance.model.api.IBaseDatatypeElement;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.ICompositeType;
@ -288,6 +289,58 @@ public abstract class BackboneType extends DataType implements IBaseBackboneElem
}
}
public void copyExtensions(org.hl7.fhir.r4b.model.BackboneElement src, String... urls) {
super.copyExtensions(src,urls);
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addModifierExtension(e.copy());
}
}
}
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
retVal.addAll(super.getExtensionsByUrl(theUrls));
return java.util.Collections.unmodifiableList(retVal);
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return super.hasExtension(theUrls);
}
public boolean hasExtension(String theUrl) {
for (Extension ext : getModifierExtension()) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return super.hasExtension(theUrl);
}
public void copyNewExtensions(org.hl7.fhir.r4b.model.BackboneElement src, String... urls) {
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
super.copyNewExtensions(src, urls);
}
// end addition
}

150
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/model/Element.java
View File

@ -438,57 +438,121 @@ public abstract class Element extends Base implements IBaseHasExtensions, IBaseE
return this;
}
/**
* Returns an unmodifiable list containing all extensions on this element which
* match the given URL.
*
* Note: BackbdoneElements override this to add matching Modifier Extensions too
*
* @param theUrl The URL. Must not be blank or null.
* @return an unmodifiable list containing all extensions on this element which
* match the given URL
*/
public List<Extension> getExtensionsByUrl(String theUrl) {
org.apache.commons.lang3.Validate.notBlank(theUrl, "theUrl must not be blank or null");
ArrayList<Extension> retVal = new ArrayList<Extension>();
for (Extension next : getExtension()) {
if (theUrl.equals(next.getUrl())) {
retVal.add(next);
}
}
return java.util.Collections.unmodifiableList(retVal);
}
/**
* Returns an unmodifiable list containing all extensions on this element which
* match the given URL.
*
* Note: BackbdoneElements override this to add matching Modifier Extensions too
*
* @param theUrl The URL. Must not be blank or null.
* @return an unmodifiable list containing all extensions on this element which match the given URL
*/
public List<Extension> getExtensionsByUrl(String theUrl) {
if (theUrl == null) {
throw new NullPointerException("theUrl must not be null");
} else if (theUrl.length() == 0) {
throw new IllegalArgumentException("theUrl must not be empty");
}
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getExtension()) {
if (theUrl.equals(next.getUrl())) {
retVal.add(next);
}
}
return java.util.Collections.unmodifiableList(retVal);
}
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
return java.util.Collections.unmodifiableList(retVal);
}
/**
* Returns an true if this element has an extension that matchs the given URL.
*
* Note: BackbdoneElements override this to check Modifier Extensions too
*
* @param theUrl The URL. Must not be blank or null.
*/
public boolean hasExtension(String theUrl) {
return !getExtensionsByUrl(theUrl).isEmpty();
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return false;
}
/**
* Returns the value as a string if this element has only one extension that
* matches the given URL, and that can be converted to a string.
*
* Note: BackbdoneElements override this to check Modifier Extensions too
*
* @param theUrl The URL. Must not be blank or null.
*/
/**
* Returns an true if this element has an extension that matchs the given URL.
*
* Note: BackbdoneElements override this to check Modifier Extensions too
*
* @param theUrl The URL. Must not be blank or null.
*/
public boolean hasExtension(String theUrl) {
if (extension == null || extension.size() == 0) {
return false;
}
for (Extension ext : extension) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return false;
}
/**
* Returns the value as a string if this element has only one extension that matches the given URL, and that can be converted to a string.
*
* Note: BackbdoneElements override this to check Modifier Extensions too
*
* @param theUrl The URL. Must not be blank or null.
*/
public String getExtensionString(String theUrl) throws FHIRException {
List<Extension> ext = getExtensionsByUrl(theUrl);
if (ext.isEmpty())
List<Extension> ext = getExtensionsByUrl(theUrl);
if (ext.isEmpty())
return null;
if (ext.size() > 1)
throw new FHIRException("Multiple matching extensions found for extension '"+theUrl+"'");
if (!ext.get(0).hasValue())
return null;
if (ext.size() > 1)
throw new FHIRException("Multiple matching extensions found");
if (!ext.get(0).getValue().isPrimitive())
throw new FHIRException("Extension could not be converted to a string");
throw new FHIRException("Extension '"+theUrl+"' could not be converted to a string");
return ext.get(0).getValue().primitiveValue();
}
public boolean hasExtension(Extension ext) {
if (hasExtension()) {
for (Extension t : getExtension()) {
if (Base.compareDeep(t, ext, false)) {
return true;
}
}
}
return false;
}
public void copyExtensions(org.hl7.fhir.r4b.model.Element src, String... urls) {
for (Extension e : src.getExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addExtension(e.copy());
}
}
}
public void copyNewExtensions(org.hl7.fhir.r4b.model.Element src, String... urls) {
for (Extension e : src.getExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
}
// end addition
}

201
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/ToolingExtensions.java
View File

@ -3,19 +3,19 @@ package org.hl7.fhir.r4b.utils;
/*
Copyright (c) 2011+, HL7, Inc.
All rights reserved.
Redistribution and use in source and binary forms, with or without modification,
are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* Redistributions in binary form must reproduce the above copyright notice,
* Redistributions in binary form must reproduce the above copyright notice,
this list of conditions and the following disclaimer in the documentation
and/or other materials provided with the distribution.
* Neither the name of HL7 nor the names of its contributors may be used to
* Neither the name of HL7 nor the names of its contributors may be used to
endorse or promote products derived from this software without specific
prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.
@ -26,7 +26,7 @@ package org.hl7.fhir.r4b.utils;
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
POSSIBILITY OF SUCH DAMAGE.
*/
/*
@ -97,6 +97,7 @@ import org.hl7.fhir.r4b.model.UriType;
import org.hl7.fhir.r4b.model.UrlType;
import org.hl7.fhir.r4b.model.ValueSet.ConceptReferenceComponent;
import org.hl7.fhir.r4b.model.ValueSet.ConceptSetComponent;
import org.hl7.fhir.r4b.model.BackboneElement;
import org.hl7.fhir.utilities.StandardsStatus;
import org.hl7.fhir.utilities.validation.ValidationMessage;
import org.hl7.fhir.utilities.validation.ValidationMessage.IssueSeverity;
@ -106,8 +107,8 @@ import org.hl7.fhir.utilities.validation.ValidationMessage.Source;
public class ToolingExtensions {
// validated
// private static final String EXT_OID = "http://hl7.org/fhir/StructureDefinition/valueset-oid";
// public static final String EXT_DEPRECATED = "http://hl7.org/fhir/StructureDefinition/codesystem-deprecated";
// private static final String EXT_OID = "http://hl7.org/fhir/StructureDefinition/valueset-oid";
// public static final String EXT_DEPRECATED = "http://hl7.org/fhir/StructureDefinition/codesystem-deprecated";
public static final String EXT_DEFINITION = "http://hl7.org/fhir/StructureDefinition/valueset-concept-definition";
public static final String EXT_CS_COMMENT = "http://hl7.org/fhir/StructureDefinition/codesystem-concept-comments";
public static final String EXT_VS_COMMENT = "http://hl7.org/fhir/StructureDefinition/valueset-concept-comments";
@ -134,12 +135,12 @@ public class ToolingExtensions {
public static final String EXT_MAPPING_PREFIX = "http://hl7.org/fhir/tools/StructureDefinition/logical-mapping-prefix";
public static final String EXT_MAPPING_SUFFIX = "http://hl7.org/fhir/tools/StructureDefinition/logical-mapping-suffix";
// public static final String EXT_FLYOVER = "http://hl7.org/fhir/Profile/questionnaire-extensions#flyover";
// public static final String EXT_FLYOVER = "http://hl7.org/fhir/Profile/questionnaire-extensions#flyover";
public static final String EXT_QTYPE = "http://hl7.org/fhir/StructureDefinition/questionnnaire-baseType";
// private static final String EXT_QREF = "http://www.healthintersections.com.au/fhir/Profile/metadata#reference";
// private static final String EXTENSION_FILTER_ONLY = "http://www.healthintersections.com.au/fhir/Profile/metadata#expandNeedsFilter";
// private static final String EXT_TYPE = "http://www.healthintersections.com.au/fhir/Profile/metadata#type";
// private static final String EXT_REFERENCE = "http://www.healthintersections.com.au/fhir/Profile/metadata#reference";
// private static final String EXT_QREF = "http://www.healthintersections.com.au/fhir/Profile/metadata#reference";
// private static final String EXTENSION_FILTER_ONLY = "http://www.healthintersections.com.au/fhir/Profile/metadata#expandNeedsFilter";
// private static final String EXT_TYPE = "http://www.healthintersections.com.au/fhir/Profile/metadata#type";
// private static final String EXT_REFERENCE = "http://www.healthintersections.com.au/fhir/Profile/metadata#reference";
private static final String EXT_FHIRTYPE = "http://hl7.org/fhir/StructureDefinition/questionnaire-fhirType";
private static final String EXT_ALLOWABLE_UNITS = "http://hl7.org/fhir/StructureDefinition/elementdefinition-allowedUnits";
public static final String EXT_CIMI_REFERENCE = "http://hl7.org/fhir/StructureDefinition/cimi-reference";
@ -166,8 +167,8 @@ public class ToolingExtensions {
public static final String EXT_IGP_MAPPING_CSV = "http://hl7.org/fhir/StructureDefinition/igpublisher-mapping-csv";
public static final String EXT_IGP_BUNDLE = "http://hl7.org/fhir/StructureDefinition/igpublisher-bundle";
public static final String EXT_IGP_RESOURCE_INFO = "http://hl7.org/fhir/tools/StructureDefinition/resource-information";
// public static final String EXT_IGP_CONTAINED_RESOURCE_INFO = "http://hl7.org/fhir/tools/StructureDefinition/contained-resource-information";
// public static final String EXT_IGP_LOADVERSION = "http://hl7.org/fhir/StructureDefinition/igpublisher-loadversion";
// public static final String EXT_IGP_CONTAINED_RESOURCE_INFO = "http://hl7.org/fhir/tools/StructureDefinition/contained-resource-information";
// public static final String EXT_IGP_LOADVERSION = "http://hl7.org/fhir/StructureDefinition/igpublisher-loadversion";
public static final String EXT_MAX_VALUESET = "http://hl7.org/fhir/StructureDefinition/elementdefinition-maxValueSet";
public static final String EXT_MIN_VALUESET = "http://hl7.org/fhir/StructureDefinition/elementdefinition-minValueSet";
public static final String EXT_PROFILE_ELEMENT = "http://hl7.org/fhir/StructureDefinition/elementdefinition-profile-element";
@ -182,7 +183,7 @@ public class ToolingExtensions {
public static final String EXT_FHIR_TYPE = "http://hl7.org/fhir/StructureDefinition/structuredefinition-fhir-type";
public static final String EXT_XML_TYPE = "http://hl7.org/fhir/StructureDefinition/structuredefinition-xml-type";
public static final String EXT_RENDERED_VALUE = "http://hl7.org/fhir/StructureDefinition/rendered-value";
public static final String EXT_OLD_CONCEPTMAP_EQUIVALENCE = "http://hl7.org/fhir/1.0/StructureDefinition/extension-ConceptMap.element.target.equivalence";
public static final String EXT_OLD_CONCEPTMAP_EQUIVALENCE = "http://hl7.org/fhir/1.0/StructureDefinition/extension-ConceptMap.group.element.target.equivalence";
public static final String EXT_EXP_TOOCOSTLY = "http://hl7.org/fhir/StructureDefinition/valueset-toocostly";
public static final String EXT_MUST_SUPPORT = "http://hl7.org/fhir/StructureDefinition/elementdefinition-type-must-support";
public static final String EXT_TRANSLATABLE = "http://hl7.org/fhir/StructureDefinition/elementdefinition-translatable";
@ -223,15 +224,15 @@ public class ToolingExtensions {
return getExtension(e, url) != null;
}
// public static void addStringExtension(DomainResource dr, String url, String content) {
// if (!StringUtils.isBlank(content)) {
// Extension ex = getExtension(dr, url);
// if (ex != null)
// ex.setValue(new StringType(content));
// else
// dr.getExtension().add(Factory.newExtension(url, new StringType(content), true));
// }
// }
// public static void addStringExtension(DomainResource dr, String url, String content) {
// if (!StringUtils.isBlank(content)) {
// Extension ex = getExtension(dr, url);
// if (ex != null)
// ex.setValue(new StringType(content));
// else
// dr.getExtension().add(Factory.newExtension(url, new StringType(content), true));
// }
// }
public static void addMarkdownExtension(DomainResource dr, String url, String content) {
if (!StringUtils.isBlank(content)) {
@ -320,10 +321,10 @@ public class ToolingExtensions {
nc.getExtension().add(Factory.newExtension(EXT_CS_COMMENT, Factory.newString_(comment), true));
}
// public static void markDeprecated(Element nc) {
// setDeprecated(nc);
// }
//
// public static void markDeprecated(Element nc) {
// setDeprecated(nc);
// }
//
public static void addDefinition(Element nc, String definition) {
if (!StringUtils.isBlank(definition))
@ -459,18 +460,18 @@ public class ToolingExtensions {
public static String getCSComment(ConceptDefinitionComponent c) {
return readStringExtension(c, EXT_CS_COMMENT);
}
//
// public static Boolean getDeprecated(Element c) {
// return readBooleanExtension(c, EXT_DEPRECATED);
// }
//
// public static Boolean getDeprecated(Element c) {
// return readBooleanExtension(c, EXT_DEPRECATED);
// }
public static boolean hasCSComment(ConceptDefinitionComponent c) {
return findStringExtension(c, EXT_CS_COMMENT);
}
// public static boolean hasDeprecated(Element c) {
// return findBooleanExtension(c, EXT_DEPRECATED);
// }
// public static boolean hasDeprecated(Element c) {
// return findBooleanExtension(c, EXT_DEPRECATED);
// }
public static void addFlyOver(QuestionnaireItemComponent item, String text, String linkId) {
if (!StringUtils.isBlank(text)) {
@ -582,6 +583,28 @@ public class ToolingExtensions {
element.getExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(DomainResource resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(BackboneElement resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setIntegerExtension(DomainResource resource, String uri, int value) {
Extension ext = getExtension(resource, uri);
if (ext != null)
@ -590,34 +613,34 @@ public class ToolingExtensions {
resource.getExtension().add(new Extension(uri).setValue(new IntegerType(value)));
}
// public static String getOID(CodeSystem define) {
// return readStringExtension(define, EXT_OID);
// }
//
// public static String getOID(ValueSet vs) {
// return readStringExtension(vs, EXT_OID);
// }
//
// public static void setOID(CodeSystem define, String oid) throws FHIRFormatError, URISyntaxException {
// if (!oid.startsWith("urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (oid.startsWith("urn:oid:urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (!hasExtension(define, EXT_OID))
// define.getExtension().add(Factory.newExtension(EXT_OID, Factory.newUri(oid), false));
// else if (!oid.equals(readStringExtension(define, EXT_OID)))
// throw new Error("Attempt to assign multiple OIDs to a code system");
// }
// public static void setOID(ValueSet vs, String oid) throws FHIRFormatError, URISyntaxException {
// if (!oid.startsWith("urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (oid.startsWith("urn:oid:urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (!hasExtension(vs, EXT_OID))
// vs.getExtension().add(Factory.newExtension(EXT_OID, Factory.newUri(oid), false));
// else if (!oid.equals(readStringExtension(vs, EXT_OID)))
// throw new Error("Attempt to assign multiple OIDs to value set "+vs.getName()+" ("+vs.getUrl()+"). Has "+readStringExtension(vs, EXT_OID)+", trying to add "+oid);
// }
// public static String getOID(CodeSystem define) {
// return readStringExtension(define, EXT_OID);
// }
//
// public static String getOID(ValueSet vs) {
// return readStringExtension(vs, EXT_OID);
// }
//
// public static void setOID(CodeSystem define, String oid) throws FHIRFormatError, URISyntaxException {
// if (!oid.startsWith("urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (oid.startsWith("urn:oid:urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (!hasExtension(define, EXT_OID))
// define.getExtension().add(Factory.newExtension(EXT_OID, Factory.newUri(oid), false));
// else if (!oid.equals(readStringExtension(define, EXT_OID)))
// throw new Error("Attempt to assign multiple OIDs to a code system");
// }
// public static void setOID(ValueSet vs, String oid) throws FHIRFormatError, URISyntaxException {
// if (!oid.startsWith("urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (oid.startsWith("urn:oid:urn:oid:"))
// throw new FHIRFormatError("Error in OID format");
// if (!hasExtension(vs, EXT_OID))
// vs.getExtension().add(Factory.newExtension(EXT_OID, Factory.newUri(oid), false));
// else if (!oid.equals(readStringExtension(vs, EXT_OID)))
// throw new Error("Attempt to assign multiple OIDs to value set "+vs.getName()+" ("+vs.getUrl()+"). Has "+readStringExtension(vs, EXT_OID)+", trying to add "+oid);
// }
public static boolean hasLanguageTranslation(Element element, String lang) {
for (Extension e : element.getExtension()) {
@ -687,23 +710,23 @@ public class ToolingExtensions {
return results;
}
// public static void addDEReference(DataElement de, String value) {
// for (Extension e : de.getExtension())
// if (e.getUrl().equals(EXT_CIMI_REFERENCE)) {
// e.setValue(new UriType(value));
// return;
// }
// de.getExtension().add(new Extension().setUrl(EXT_CIMI_REFERENCE).setValue(new UriType(value)));
// }
// public static void addDEReference(DataElement de, String value) {
// for (Extension e : de.getExtension())
// if (e.getUrl().equals(EXT_CIMI_REFERENCE)) {
// e.setValue(new UriType(value));
// return;
// }
// de.getExtension().add(new Extension().setUrl(EXT_CIMI_REFERENCE).setValue(new UriType(value)));
// }
// public static void setDeprecated(Element nc) {
// for (Extension e : nc.getExtension())
// if (e.getUrl().equals(EXT_DEPRECATED)) {
// e.setValue(new BooleanType(true));
// return;
// }
// nc.getExtension().add(new Extension().setUrl(EXT_DEPRECATED).setValue(new BooleanType(true)));
// }
// public static void setDeprecated(Element nc) {
// for (Extension e : nc.getExtension())
// if (e.getUrl().equals(EXT_DEPRECATED)) {
// e.setValue(new BooleanType(true));
// return;
// }
// nc.getExtension().add(new Extension().setUrl(EXT_DEPRECATED).setValue(new BooleanType(true)));
// }
public static void setExtension(Element focus, String url, Coding c) {
for (Extension e : focus.getExtension())
@ -908,14 +931,14 @@ public class ToolingExtensions {
return type.primitiveValue();
}
// public static boolean hasOID(ValueSet vs) {
// return hasExtension(vs, EXT_OID);
// }
//
// public static boolean hasOID(CodeSystem cs) {
// return hasExtension(cs, EXT_OID);
// }
//
// public static boolean hasOID(ValueSet vs) {
// return hasExtension(vs, EXT_OID);
// }
//
// public static boolean hasOID(CodeSystem cs) {
// return hasExtension(cs, EXT_OID);
// }
//
public static void addUrlExtension(Element e, String url, String content) {
if (!StringUtils.isBlank(content)) {
Extension ex = getExtension(e, url);

4
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/conformance/StructureDefinitionHacker.java
View File

@ -8,7 +8,7 @@ import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.utilities.VersionUtilities;
/**
* This doesn't do anythign at this time
* This works around known issues in struture definitions
*
* @author graha
*
@ -48,7 +48,7 @@ public class StructureDefinitionHacker {
ed.setComment("e.g. The patient is a pregnant, has congestive heart failure, has an Adenocarcinoma, and is allergic to penicillin.");
}
}
}
}
return sd;
}

25
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/context/BaseWorkerContext.java
View File

@ -2472,7 +2472,30 @@ public abstract class BaseWorkerContext extends I18nBase implements IWorkerConte
return res;
}
}
return typeManager.fetchTypeDefinition(typeName);
StructureDefinition p = typeManager.fetchTypeDefinition(typeName);
if (p != null && !p.isGeneratedSnapshot()) {
if (p.isGeneratingSnapshot()) {
throw new FHIRException("Attempt to fetch the profile "+p.getVersionedUrl()+" while generating the snapshot for it");
}
try {
if (logger.isDebugLogging()) {
System.out.println("Generating snapshot for "+p.getVersionedUrl());
}
p.setGeneratingSnapshot(true);
try {
new ContextUtilities(this).generateSnapshot(p);
} finally {
p.setGeneratingSnapshot(false);
}
} catch (Exception e) {
// not sure what to do in this case?
System.out.println("Unable to generate snapshot @4 for "+p.getVersionedUrl()+": "+e.getMessage());
if (logger.isDebugLogging()) {
e.printStackTrace();
}
}
}
return p;
}
@Override

3
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/Manager.java
View File

@ -95,6 +95,9 @@ public class Manager {
return null;
}
public static FhirFormat readFromMimeType(String mt) {
if (mt == null) {
return null;
}
if (mt.contains("/xml") || mt.contains("+xml")) {
return FhirFormat.XML;
}

10
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/ParserBase.java
View File

@ -49,6 +49,7 @@ import org.hl7.fhir.r5.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r5.utils.ToolingExtensions;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.i18n.I18nConstants;
import org.hl7.fhir.utilities.validation.IDigitalSignatureServices;
import org.hl7.fhir.utilities.validation.ValidationMessage;
import org.hl7.fhir.utilities.validation.ValidationMessage.IssueSeverity;
import org.hl7.fhir.utilities.validation.ValidationMessage.IssueType;
@ -86,6 +87,7 @@ public abstract class ParserBase {
protected boolean showDecorations;
protected IdRenderingPolicy idPolicy = IdRenderingPolicy.All;
protected StructureDefinition logical;
protected IDigitalSignatureServices signatureServices;
public ParserBase(IWorkerContext context) {
super();
@ -281,4 +283,12 @@ public abstract class ParserBase {
return this;
}
public IDigitalSignatureServices getSignatureServices() {
return signatureServices;
}
public void setSignatureServices(IDigitalSignatureServices signatureServices) {
this.signatureServices = signatureServices;
}
}

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/SHCParser.java
View File

@ -329,7 +329,7 @@ public class SHCParser extends ParserBase {
String url = Utilities.pathURL(iss, "/.well-known/jwks.json");
JsonObject jwks = null;
try {
jwks = org.hl7.fhir.utilities.json.parser.JsonParser.parseObjectFromUrl(url);
jwks = signatureServices != null ? signatureServices.fetchJWKS(url) : org.hl7.fhir.utilities.json.parser.JsonParser.parseObjectFromUrl(url);
} catch (Exception e) {
logError(errors, "2023-09-08", 1, 1, name, IssueType.NOTFOUND, "Unable to verify the signature, because unable to retrieve JWKS from "+url+": "+
e.getMessage().replace("Connection refused (Connection refused)", "Connection refused"), IssueSeverity.ERROR);

3
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/XmlParser.java
View File

@ -326,8 +326,7 @@ public class XmlParser extends ParserBase {
n.setPath(element.getPath()+"."+property.getName());
element.getChildren().add(n);
}
}
else {
} else {
Node n = node.getFirstChild();
while (n != null) {
if (n.getNodeType() == Node.TEXT_NODE && !Utilities.noString(n.getTextContent().trim())) {

41
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/model/BackboneElement.java
View File

@ -323,8 +323,49 @@ Modifier extensions SHALL NOT change the meaning of any elements on Resource or
}
}
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
retVal.addAll(super.getExtensionsByUrl(theUrls));
return java.util.Collections.unmodifiableList(retVal);
}
public boolean hasExtension(String... theUrls) {
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
}
return super.hasExtension(theUrls);
}
public boolean hasExtension(String theUrl) {
for (Extension ext : getModifierExtension()) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return super.hasExtension(theUrl);
}
public void copyNewExtensions(org.hl7.fhir.r5.model.BackboneElement src, String... urls) {
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
super.copyNewExtensions(src, urls);
}
// end addition
}

378
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/model/BackboneType.java
View File

@ -4,19 +4,19 @@ package org.hl7.fhir.r5.model;
/*
Copyright (c) 2011+, HL7, Inc.
All rights reserved.
Redistribution and use in source and binary forms, with or without modification, \
are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this \
* Redistributions of source code must retain the above copyright notice, this \
list of conditions and the following disclaimer.
* Redistributions in binary form must reproduce the above copyright notice, \
* Redistributions in binary form must reproduce the above copyright notice, \
this list of conditions and the following disclaimer in the documentation \
and/or other materials provided with the distribution.
* Neither the name of HL7 nor the names of its contributors may be used to
* Neither the name of HL7 nor the names of its contributors may be used to
endorse or promote products derived from this software without specific
prior written permission.
THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS \"AS IS\" AND \
ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED \
WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. \
@ -27,7 +27,7 @@ package org.hl7.fhir.r5.model;
WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) \
ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE \
POSSIBILITY OF SUCH DAMAGE.
*/
*/
// Generated on Thu, Mar 23, 2023 19:59+1100 for FHIR v5.0.0
@ -35,6 +35,7 @@ import java.util.ArrayList;
import java.util.Date;
import java.util.List;
import org.hl7.fhir.r5.model.Enumerations.*;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.instance.model.api.IBaseDatatypeElement;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.ICompositeType;
@ -51,206 +52,259 @@ import ca.uhn.fhir.model.api.annotation.Block;
@DatatypeDef(name="BackboneType")
public abstract class BackboneType extends DataType implements IBaseBackboneElement {
/**
* May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.
/**
* May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.
Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).
*/
@Child(name = "modifierExtension", type = {Extension.class}, order=0, min=0, max=Child.MAX_UNLIMITED, modifier=true, summary=true)
@Description(shortDefinition="Extensions that cannot be ignored even if unrecognized", formalDefinition="May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.\n\nModifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself)." )
protected List<Extension> modifierExtension;
*/
@Child(name = "modifierExtension", type = {Extension.class}, order=0, min=0, max=Child.MAX_UNLIMITED, modifier=true, summary=true)
@Description(shortDefinition="Extensions that cannot be ignored even if unrecognized", formalDefinition="May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.\n\nModifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself)." )
protected List<Extension> modifierExtension;
private static final long serialVersionUID = -1431673179L;
private static final long serialVersionUID = -1431673179L;
/**
* Constructor
*/
public BackboneType() {
super();
}
public BackboneType() {
super();
}
/**
* @return {@link #modifierExtension} (May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.
/**
* @return {@link #modifierExtension} (May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.
Modifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).)
*/
public List<Extension> getModifierExtension() {
if (this.modifierExtension == null)
this.modifierExtension = new ArrayList<Extension>();
return this.modifierExtension;
}
*/
public List<Extension> getModifierExtension() {
if (this.modifierExtension == null)
this.modifierExtension = new ArrayList<Extension>();
return this.modifierExtension;
}
/**
* @return Returns a reference to <code>this</code> for easy method chaining
*/
public BackboneType setModifierExtension(List<Extension> theModifierExtension) {
this.modifierExtension = theModifierExtension;
return this;
}
/**
* @return Returns a reference to <code>this</code> for easy method chaining
*/
public BackboneType setModifierExtension(List<Extension> theModifierExtension) {
this.modifierExtension = theModifierExtension;
return this;
}
public boolean hasModifierExtension() {
if (this.modifierExtension == null)
return false;
for (Extension item : this.modifierExtension)
if (!item.isEmpty())
return true;
public boolean hasModifierExtension() {
if (this.modifierExtension == null)
return false;
}
for (Extension item : this.modifierExtension)
if (!item.isEmpty())
return true;
return false;
}
public Extension addModifierExtension() { //3
Extension t = new Extension();
if (this.modifierExtension == null)
this.modifierExtension = new ArrayList<Extension>();
this.modifierExtension.add(t);
return t;
}
public Extension addModifierExtension() { //3
Extension t = new Extension();
if (this.modifierExtension == null)
this.modifierExtension = new ArrayList<Extension>();
this.modifierExtension.add(t);
return t;
}
public BackboneType addModifierExtension(Extension t) { //3
if (t == null)
return this;
if (this.modifierExtension == null)
this.modifierExtension = new ArrayList<Extension>();
this.modifierExtension.add(t);
public BackboneType addModifierExtension(Extension t) { //3
if (t == null)
return this;
if (this.modifierExtension == null)
this.modifierExtension = new ArrayList<Extension>();
this.modifierExtension.add(t);
return this;
}
/**
* @return The first repetition of repeating field {@link #modifierExtension}, creating it if it does not already exist {3}
*/
public Extension getModifierExtensionFirstRep() {
if (getModifierExtension().isEmpty()) {
addModifierExtension();
}
return getModifierExtension().get(0);
}
protected void listChildren(List<Property> children) {
super.listChildren(children);
children.add(new Property("modifierExtension", "Extension", "May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.\n\nModifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).", 0, java.lang.Integer.MAX_VALUE, modifierExtension));
}
@Override
public Property getNamedProperty(int _hash, String _name, boolean _checkValid) throws FHIRException {
switch (_hash) {
case -298878168: /*modifierExtension*/ return new Property("modifierExtension", "Extension", "May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.\n\nModifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).", 0, java.lang.Integer.MAX_VALUE, modifierExtension);
default: return super.getNamedProperty(_hash, _name, _checkValid);
}
/**
* @return The first repetition of repeating field {@link #modifierExtension}, creating it if it does not already exist {3}
*/
public Extension getModifierExtensionFirstRep() {
if (getModifierExtension().isEmpty()) {
addModifierExtension();
}
return getModifierExtension().get(0);
}
@Override
public Base[] getProperty(int hash, String name, boolean checkValid) throws FHIRException {
switch (hash) {
case -298878168: /*modifierExtension*/ return this.modifierExtension == null ? new Base[0] : this.modifierExtension.toArray(new Base[this.modifierExtension.size()]); // Extension
default: return super.getProperty(hash, name, checkValid);
}
protected void listChildren(List<Property> children) {
super.listChildren(children);
children.add(new Property("modifierExtension", "Extension", "May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.\n\nModifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).", 0, java.lang.Integer.MAX_VALUE, modifierExtension));
}
}
@Override
public Property getNamedProperty(int _hash, String _name, boolean _checkValid) throws FHIRException {
switch (_hash) {
case -298878168: /*modifierExtension*/ return new Property("modifierExtension", "Extension", "May be used to represent additional information that is not part of the basic definition of the element and that modifies the understanding of the element in which it is contained and/or the understanding of the containing element's descendants. Usually modifier elements provide negation or qualification. To make the use of extensions safe and managable, there is a strict set of governance applied to the definition and use of extensions. Though any implementer can define an extension, there is a set of requirements that SHALL be met as part of the definition of the extension. Applications processing a resource are required to check for modifier extensions.\n\nModifier extensions SHALL NOT change the meaning of any elements on Resource or DomainResource (including cannot change the meaning of modifierExtension itself).", 0, java.lang.Integer.MAX_VALUE, modifierExtension);
default: return super.getNamedProperty(_hash, _name, _checkValid);
}
@Override
public Base setProperty(int hash, String name, Base value) throws FHIRException {
switch (hash) {
case -298878168: // modifierExtension
this.getModifierExtension().add(TypeConvertor.castToExtension(value)); // Extension
return value;
default: return super.setProperty(hash, name, value);
}
}
}
@Override
public Base[] getProperty(int hash, String name, boolean checkValid) throws FHIRException {
switch (hash) {
case -298878168: /*modifierExtension*/ return this.modifierExtension == null ? new Base[0] : this.modifierExtension.toArray(new Base[this.modifierExtension.size()]); // Extension
default: return super.getProperty(hash, name, checkValid);
}
}
@Override
public Base setProperty(int hash, String name, Base value) throws FHIRException {
switch (hash) {
case -298878168: // modifierExtension
this.getModifierExtension().add(TypeConvertor.castToExtension(value)); // Extension
return value;
default: return super.setProperty(hash, name, value);
}
}
@Override
public Base setProperty(String name, Base value) throws FHIRException {
if (name.equals("modifierExtension")) {
this.getModifierExtension().add(TypeConvertor.castToExtension(value));
} else
return super.setProperty(name, value);
return value;
}
@Override
public Base setProperty(String name, Base value) throws FHIRException {
if (name.equals("modifierExtension")) {
this.getModifierExtension().add(TypeConvertor.castToExtension(value));
} else
return super.setProperty(name, value);
return value;
}
@Override
public void removeChild(String name, Base value) throws FHIRException {
if (name.equals("modifierExtension")) {
this.getModifierExtension().remove(value);
} else
super.removeChild(name, value);
}
if (name.equals("modifierExtension")) {
this.getModifierExtension().remove(value);
} else
super.removeChild(name, value);
@Override
public Base makeProperty(int hash, String name) throws FHIRException {
switch (hash) {
case -298878168: return addModifierExtension();
default: return super.makeProperty(hash, name);
}
}
}
@Override
public Base makeProperty(int hash, String name) throws FHIRException {
switch (hash) {
case -298878168: return addModifierExtension();
default: return super.makeProperty(hash, name);
}
@Override
public String[] getTypesForProperty(int hash, String name) throws FHIRException {
switch (hash) {
case -298878168: /*modifierExtension*/ return new String[] {"Extension"};
default: return super.getTypesForProperty(hash, name);
}
}
}
@Override
public String[] getTypesForProperty(int hash, String name) throws FHIRException {
switch (hash) {
case -298878168: /*modifierExtension*/ return new String[] {"Extension"};
default: return super.getTypesForProperty(hash, name);
}
@Override
public Base addChild(String name) throws FHIRException {
if (name.equals("modifierExtension")) {
return addModifierExtension();
}
else
return super.addChild(name);
}
}
@Override
public Base addChild(String name) throws FHIRException {
if (name.equals("modifierExtension")) {
return addModifierExtension();
}
else
return super.addChild(name);
}
public String fhirType() {
return "BackboneType";
}
public abstract BackboneType copy();
public abstract BackboneType copy();
public void copyValues(BackboneType dst) {
super.copyValues(dst);
if (modifierExtension != null) {
dst.modifierExtension = new ArrayList<Extension>();
for (Extension i : modifierExtension)
dst.modifierExtension.add(i.copy());
};
public void copyValues(BackboneType dst) {
super.copyValues(dst);
if (modifierExtension != null) {
dst.modifierExtension = new ArrayList<Extension>();
for (Extension i : modifierExtension)
dst.modifierExtension.add(i.copy());
};
}
@Override
public boolean equalsDeep(Base other_) {
if (!super.equalsDeep(other_))
return false;
if (!(other_ instanceof BackboneType))
return false;
BackboneType o = (BackboneType) other_;
return compareDeep(modifierExtension, o.modifierExtension, true);
}
@Override
public boolean equalsShallow(Base other_) {
if (!super.equalsShallow(other_))
return false;
if (!(other_ instanceof BackboneType))
return false;
BackboneType o = (BackboneType) other_;
return true;
}
public boolean isEmpty() {
return super.isEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty(modifierExtension);
}
// Manual code (from Configuration.txt):
public void checkNoModifiers(String noun, String verb) throws FHIRException {
if (hasModifierExtension()) {
throw new FHIRException("Found unknown Modifier Exceptions on "+noun+" doing "+verb);
}
}
public void copyExtensions(org.hl7.fhir.r5.model.BackboneElement src, String... urls) {
super.copyExtensions(src,urls);
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls)) {
addModifierExtension(e.copy());
}
}
}
@Override
public boolean equalsDeep(Base other_) {
if (!super.equalsDeep(other_))
return false;
if (!(other_ instanceof BackboneType))
return false;
BackboneType o = (BackboneType) other_;
return compareDeep(modifierExtension, o.modifierExtension, true);
public List<Extension> getExtensionsByUrl(String... theUrls) {
ArrayList<Extension> retVal = new ArrayList<>();
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
retVal.add(next);
}
}
retVal.addAll(super.getExtensionsByUrl(theUrls));
return java.util.Collections.unmodifiableList(retVal);
}
@Override
public boolean equalsShallow(Base other_) {
if (!super.equalsShallow(other_))
return false;
if (!(other_ instanceof BackboneType))
return false;
BackboneType o = (BackboneType) other_;
public boolean hasExtension(String... theUrls) {
for (Extension next : getModifierExtension()) {
if (Utilities.existsInList(next.getUrl(), theUrls)) {
return true;
}
public boolean isEmpty() {
return super.isEmpty() && ca.uhn.fhir.util.ElementUtil.isEmpty(modifierExtension);
}
// Manual code (from Configuration.txt):
public void checkNoModifiers(String noun, String verb) throws FHIRException {
if (hasModifierExtension()) {
throw new FHIRException("Found unknown Modifier Exceptions on "+noun+" doing "+verb);
}
}
return super.hasExtension(theUrls);
}
// end addition
public boolean hasExtension(String theUrl) {
for (Extension ext : getModifierExtension()) {
if (theUrl.equals(ext.getUrl())) {
return true;
}
}
return super.hasExtension(theUrl);
}
public void copyNewExtensions(org.hl7.fhir.r5.model.BackboneElement src, String... urls) {
for (Extension e : src.getModifierExtension()) {
if (Utilities.existsInList(e.getUrl(), urls) && !!hasExtension(e.getUrl())) {
addExtension(e.copy());
}
}
super.copyNewExtensions(src, urls);
}
// end addition
}

12
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/model/TypeDetails.java
View File

@ -132,6 +132,7 @@ public class TypeDetails {
private List<ProfiledType> types = new ArrayList<ProfiledType>();
private CollectionStatus collectionStatus;
private Set<String> targets; // or, not and, canonical urls
private boolean choice;
public TypeDetails(CollectionStatus collectionStatus, String... names) {
super();
@ -308,6 +309,9 @@ public class TypeDetails {
}
targets.addAll(source.targets);
}
if (source.isChoice()) {
choice = true;
}
}
public TypeDetails union(TypeDetails right) {
@ -537,4 +541,12 @@ public class TypeDetails {
return collectionStatus != null && collectionStatus.isList();
}
// for SQL-on-FHIR: warnings when .ofType() is not paired with a choice element
public void setChoice(boolean b) {
choice = true;
}
public boolean isChoice() {
return choice;
}
}

4
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/renderers/ConceptMapRenderer.java
View File

@ -169,8 +169,8 @@ public class ConceptMapRenderer extends TerminologyRenderer {
if (!ccm.hasRelationship())
tr.td().tx(":"+"("+ConceptMapRelationship.EQUIVALENT.toCode()+")");
else {
if (ccm.getRelationshipElement().hasExtension(ToolingExtensions.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
String code = ToolingExtensions.readStringExtension(ccm.getRelationshipElement(), ToolingExtensions.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
if (ccm.hasExtension(ToolingExtensions.EXT_OLD_CONCEPTMAP_EQUIVALENCE)) {
String code = ToolingExtensions.readStringExtension(ccm, ToolingExtensions.EXT_OLD_CONCEPTMAP_EQUIVALENCE);
tr.td().ah(eqpath+"#"+code, code).tx(presentEquivalenceCode(code));
} else {
tr.td().ah(eqpath+"#"+ccm.getRelationship().toCode(), ccm.getRelationship().toCode()).tx(presentRelationshipCode(ccm.getRelationship().toCode()));

12
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/renderers/StructureDefinitionRenderer.java
View File

@ -848,8 +848,16 @@ public class StructureDefinitionRenderer extends ResourceRenderer {
if (element.hasSliceName())
sName = sName +":"+element.getSliceName();
used.used = true;
if (logicalModel && element.hasRepresentation(PropertyRepresentation.XMLATTR))
sName = "@"+sName;
if (logicalModel) {
if (element.hasRepresentation(PropertyRepresentation.XMLATTR)) {
sName = "@"+sName;
} else if (element.hasUserData("derived.pointer")) {
ElementDefinition drv = (ElementDefinition) element.getUserData("derived.pointer");
if (drv.hasRepresentation(PropertyRepresentation.XMLATTR)) {
sName = "@"+sName;
}
}
}
Cell nc = genElementNameCell(gen, element, profileBaseFileName, snapshot, corePath, imagePath, root, logicalModel, allInvariants, profile, typesRow, row, hasDef, ext, used, ref, sName, all);
switch (context.getStructureMode()) {
case BINDINGS:

77
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/FHIRPathEngine.java
View File

@ -135,6 +135,7 @@ public class FHIRPathEngine {
private boolean doNotEnforceAsCaseSensitive;
private boolean allowDoubleQuotes;
private List<String> typeWarnings = new ArrayList<>();
private boolean emitSQLonFHIRWarning;
// if the fhir path expressions are allowed to use constants beyond those defined in the specification
// the application can implement them by providing a constant resolver
@ -474,7 +475,7 @@ public class FHIRPathEngine {
}
}
return executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, elementDependencies, true, false);
return executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, elementDependencies, true, false, expr);
}
/**
@ -531,14 +532,14 @@ public class FHIRPathEngine {
}
}
}
TypeDetails res = executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, null, true, false);
TypeDetails res = executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, null, true, false, expr);
warnings.addAll(typeWarnings);
return res;
}
public TypeDetails checkOnTypes(Object appContext, String resourceType, TypeDetails types, ExpressionNode expr, List<String> warnings) throws FHIRLexerException, PathEngineException, DefinitionException {
typeWarnings.clear();
TypeDetails res = executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, null, true, false);
TypeDetails res = executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, null, true, false, expr);
warnings.addAll(typeWarnings);
return res;
}
@ -566,7 +567,7 @@ public class FHIRPathEngine {
}
}
return executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, elementDependencies, true, false);
return executeType(new ExecutionTypeContext(appContext, resourceType, types, types), types, expr, elementDependencies, true, false, expr);
}
private FHIRException makeExceptionPlural(Integer num, ExpressionNode holder, String constName, Object... args) {
@ -615,13 +616,13 @@ public class FHIRPathEngine {
}
}
return executeType(new ExecutionTypeContext(appContext, sd.getUrl(), types, types), types, expr, null, true, false);
return executeType(new ExecutionTypeContext(appContext, sd.getUrl(), types, types), types, expr, null, true, false, expr);
}
public TypeDetails check(Object appContext, StructureDefinition sd, ExpressionNode expr) throws FHIRLexerException, PathEngineException, DefinitionException {
// if context is a path that refers to a type, do that conversion now
TypeDetails types = null; // this is a special case; the first path reference will have to resolve to something in the context
return executeType(new ExecutionTypeContext(appContext, sd == null ? null : sd.getUrl(), null, types), types, expr, null, true, false);
return executeType(new ExecutionTypeContext(appContext, sd == null ? null : sd.getUrl(), null, types), types, expr, null, true, false, expr);
}
public TypeDetails check(Object appContext, String resourceType, String context, String expr) throws FHIRLexerException, PathEngineException, DefinitionException {
@ -1515,7 +1516,8 @@ public class FHIRPathEngine {
return new TypeDetails(CollectionStatus.SINGLETON, exp.getName());
}
private TypeDetails executeType(ExecutionTypeContext context, TypeDetails focus, ExpressionNode exp, Set<ElementDefinition> elementDependencies, boolean atEntry, boolean canBeNone) throws PathEngineException, DefinitionException {
private TypeDetails executeType(ExecutionTypeContext context, TypeDetails focus, ExpressionNode exp, Set<ElementDefinition> elementDependencies, boolean atEntry, boolean canBeNone, ExpressionNode container) throws PathEngineException, DefinitionException {
TypeDetails result = new TypeDetails(null);
switch (exp.getKind()) {
case Name:
@ -1539,9 +1541,10 @@ public class FHIRPathEngine {
}
}
}
doSQLOnFHIRCheck(result, exp);
break;
case Function:
result.update(evaluateFunctionType(context, focus, exp, elementDependencies));
result.update(evaluateFunctionType(context, focus, exp, elementDependencies, container));
break;
case Unary:
result.addType(TypeDetails.FP_Integer);
@ -1552,12 +1555,12 @@ public class FHIRPathEngine {
result.update(resolveConstantType(context, exp.getConstant(), exp));
break;
case Group:
result.update(executeType(context, focus, exp.getGroup(), elementDependencies, atEntry, canBeNone));
result.update(executeType(context, focus, exp.getGroup(), elementDependencies, atEntry, canBeNone, exp));
}
exp.setTypes(result);
if (exp.getInner() != null) {
result = executeType(context, result, exp.getInner(), elementDependencies, false, false);
result = executeType(context, result, exp.getInner(), elementDependencies, false, false, exp);
}
if (exp.isProximal() && exp.getOperation() != null) {
@ -1568,7 +1571,7 @@ public class FHIRPathEngine {
if (last.getOperation() == Operation.Is || last.getOperation() == Operation.As) {
work = executeTypeName(context, focus, next, atEntry);
} else {
work = executeType(context, focus, next, elementDependencies, atEntry, canBeNone);
work = executeType(context, focus, next, elementDependencies, atEntry, canBeNone, exp);
}
result = operateTypes(result, last.getOperation(), work, last);
last = next;
@ -1579,6 +1582,19 @@ public class FHIRPathEngine {
return result;
}
private void doSQLOnFHIRCheck(TypeDetails focus, ExpressionNode expr) {
if (emitSQLonFHIRWarning) {
// special Logic for SQL-on-FHIR:
if (focus.isChoice()) {
if (expr.getInner() == null || expr.getInner().getFunction() != Function.OfType) {
typeWarnings.add(worker.formatMessage(I18nConstants.FHIRPATH_CHOICE_NO_TYPE_SPECIFIER, expr.toString()));
}
} else if (expr.getInner() != null && expr.getInner().getFunction() == Function.OfType) {
typeWarnings.add(worker.formatMessage(I18nConstants.FHIRPATH_CHOICE_SPURIOUS_TYPE_SPECIFIER, expr.toString()));
}
}
}
private List<Base> resolveConstant(ExecutionContext context, Base constant, boolean beforeContext, ExpressionNode expr) throws PathEngineException {
if (constant == null) {
return new ArrayList<Base>();
@ -3129,16 +3145,16 @@ public class FHIRPathEngine {
int i = 0;
for (ExpressionNode expr : exp.getParameters()) {
if (isExpressionParameter(exp, i)) {
paramTypes.add(executeType(changeThis(context, focus), focus, expr, elementDependencies, true, canBeNone));
paramTypes.add(executeType(changeThis(context, focus), focus, expr, elementDependencies, true, canBeNone, expr));
} else {
paramTypes.add(executeType(context, context.thisItem, expr, elementDependencies, true, canBeNone));
paramTypes.add(executeType(context, context.thisItem, expr, elementDependencies, true, canBeNone, expr));
}
i++;
}
}
@SuppressWarnings("unchecked")
private TypeDetails evaluateFunctionType(ExecutionTypeContext context, TypeDetails focus, ExpressionNode exp, Set<ElementDefinition> elementDependencies) throws PathEngineException, DefinitionException {
private TypeDetails evaluateFunctionType(ExecutionTypeContext context, TypeDetails focus, ExpressionNode exp, Set<ElementDefinition> elementDependencies, ExpressionNode container) throws PathEngineException, DefinitionException {
List<TypeDetails> paramTypes = new ArrayList<TypeDetails>();
if (exp.getFunction() == Function.Is || exp.getFunction() == Function.As || exp.getFunction() == Function.OfType) {
paramTypes.add(new TypeDetails(CollectionStatus.SINGLETON, TypeDetails.FP_String));
@ -3164,6 +3180,12 @@ public class FHIRPathEngine {
} else {
evaluateParameters(context, focus, exp, elementDependencies, paramTypes, false);
}
if (exp.getFunction() == Function.First || exp.getFunction() == Function.Last || exp.getFunction() == Function.Tail || exp.getFunction() == Function.Skip || exp.getFunction() == Function.Take) {
if (focus.getCollectionStatus() == CollectionStatus.SINGLETON) {
typeWarnings.add(worker.formatMessage(I18nConstants.FHIRPATH_NOT_A_COLLECTION, container.toString()));
}
}
switch (exp.getFunction()) {
case Empty :
return new TypeDetails(CollectionStatus.SINGLETON, TypeDetails.FP_Boolean);
@ -5926,6 +5948,9 @@ public class FHIRPathEngine {
ElementDefinitionMatch ed = getElementDefinition(sdi, path, isAllowPolymorphicNames(), expr);
if (ed != null) {
if (ed.getDefinition().isChoice()) {
result.setChoice(true);
}
if (!Utilities.noString(ed.getFixedType())) {
if (elementDependencies != null) {
elementDependencies.add(ed.definition);
@ -6024,7 +6049,11 @@ public class FHIRPathEngine {
if (ed.getPath().equals(path)) {
if (ed.hasContentReference()) {
ElementDefinitionMatch res = getElementDefinitionById(sd, ed.getContentReference());
res.sourceDefinition = ed;
if (res == null) {
throw new Error("Unable to find "+ed.getContentReference());
} else {
res.sourceDefinition = ed;
}
return res;
} else {
return new ElementDefinitionMatch(ed, null);
@ -6055,7 +6084,11 @@ public class FHIRPathEngine {
if (ed.hasContentReference() && path.startsWith(ed.getPath()+".")) {
ElementDefinitionMatch m = getElementDefinitionById(sd, ed.getContentReference());
ElementDefinitionMatch res = getElementDefinition(sd, m.definition.getPath()+path.substring(ed.getPath().length()), allowTypedName, expr);
res.sourceDefinition = ed;
if (res == null) {
throw new Error("Unable to find "+ed.getContentReference());
} else {
res.sourceDefinition = ed;
}
return res;
}
}
@ -6090,6 +6123,9 @@ public class FHIRPathEngine {
}
private ElementDefinitionMatch getElementDefinitionById(StructureDefinition sd, String ref) {
if (ref.startsWith(sd.getUrl()+"#")) {
ref = ref.replace(sd.getUrl()+"#", "#");
}
for (ElementDefinition ed : sd.getSnapshot().getElement()) {
if (ref.equals("#"+ed.getId())) {
return new ElementDefinitionMatch(ed, null);
@ -6411,4 +6447,13 @@ public class FHIRPathEngine {
public void setAllowDoubleQuotes(boolean allowDoubleQuotes) {
this.allowDoubleQuotes = allowDoubleQuotes;
}
public boolean isEmitSQLonFHIRWarning() {
return emitSQLonFHIRWarning;
}
public void setEmitSQLonFHIRWarning(boolean emitSQLonFHIRWarning) {
this.emitSQLonFHIRWarning = emitSQLonFHIRWarning;
}
}

3
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/NPMPackageGenerator.java
View File

@ -73,7 +73,7 @@ import org.hl7.fhir.utilities.npm.ToolsVersion;
public class NPMPackageGenerator {
public enum Category {
RESOURCE, EXAMPLE, OPENAPI, SCHEMATRON, RDF, OTHER, TOOL, TEMPLATE, JEKYLL;
RESOURCE, EXAMPLE, OPENAPI, SCHEMATRON, RDF, OTHER, TOOL, TEMPLATE, JEKYLL, TEST;
private String getDirectory() {
switch (this) {
@ -85,6 +85,7 @@ public class NPMPackageGenerator {
case OTHER: return "package/other/";
case TEMPLATE: return "package/other/";
case JEKYLL: return "package/jekyll/";
case TEST: return "package/tests/";
case TOOL: return "package/bin/";
}
return "/";

25
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/ToolingExtensions.java
View File

@ -74,6 +74,7 @@ import java.util.HashSet;
import org.apache.commons.lang3.StringUtils;
import org.fhir.ucum.Utilities;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r5.model.BackboneElement;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.BooleanType;
import org.hl7.fhir.r5.model.CanonicalType;
@ -205,7 +206,7 @@ public class ToolingExtensions {
public static final String EXT_VS_KEYWORD = "http://hl7.org/fhir/StructureDefinition/valueset-keyWord";
public static final String EXT_WORKGROUP = "http://hl7.org/fhir/StructureDefinition/structuredefinition-wg";
public static final String EXT_XML_NAMESPACE = "http://hl7.org/fhir/StructureDefinition/elementdefinition-namespace";
public static final String EXT_OLD_CONCEPTMAP_EQUIVALENCE = "http://hl7.org/fhir/1.0/StructureDefinition/extension-ConceptMap.element.target.equivalence";
public static final String EXT_OLD_CONCEPTMAP_EQUIVALENCE = "http://hl7.org/fhir/1.0/StructureDefinition/extension-ConceptMap.group.element.target.equivalence";
public static final String EXT_Q_IS_SUBJ = "http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-isSubject";
public static final String EXT_Q_HIDDEN = "http://hl7.org/fhir/StructureDefinition/questionnaire-hidden";
public static final String EXT_Q_OTP_DISP = "http://hl7.org/fhir/uv/sdc/StructureDefinition/sdc-questionnaire-optionalDisplay";
@ -674,6 +675,28 @@ public class ToolingExtensions {
resource.getExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(DomainResource resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtensionMod(BackboneElement resource, String uri, String value) {
if (Utilities.noString(value))
return;
Extension ext = getExtension(resource, uri);
if (ext != null)
ext.setValue(new CodeType(value));
else
resource.getModifierExtension().add(new Extension(uri).setValue(new CodeType(value)));
}
public static void setCodeExtension(Element element, String uri, String value) {
if (Utilities.noString(value))
return;

1
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/sql/Runner.java
View File

@ -74,6 +74,7 @@ public class Runner implements IEvaluationContext {
}
fpe = new FHIRPathEngine(context);
fpe.setHostServices(this);
fpe.setEmitSQLonFHIRWarning(true);
if (viewDefinition == null) {
throw new FHIRException("No viewDefinition provided");
}

20
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/structuremap/StructureMapUtilities.java
View File

@ -1256,7 +1256,7 @@ public class StructureMapUtilities {
vars.add(VariableMode.OUTPUT, getInputName(g, StructureMapInputMode.TARGET, "target"), target);
else if (getInputName(g, StructureMapInputMode.TARGET, null) != null) {
String type = getInputType(g, StructureMapInputMode.TARGET);
throw new Error("not handled yet: creating a type of " + type);
throw new FHIRException("not handled yet: creating a type of " + type);
}
executeGroup("", context, map, vars, g, true);
@ -1424,7 +1424,7 @@ public class StructureMapUtilities {
Set<String> check = new HashSet<String>();
for (StructureMap sm : res) {
if (check.contains(sm.getUrl()))
throw new Error("duplicate");
throw new FHIRException("duplicate");
else
check.add(sm.getUrl());
}
@ -1753,7 +1753,7 @@ public class StructureMapUtilities {
else if (srcVar != null) {
tn = determineTypeFromSourceType(map, group, vars.get(VariableMode.INPUT, srcVar), types);
} else
throw new Error("Cannot determine type implicitly because there is no single input variable");
throw new FHIRException("Cannot determine type implicitly because there is no single input variable");
} else {
tn = getParamStringNoNull(vars, tgt.getParameter().get(0), tgt.toString());
// ok, now we resolve the type name against the import statements
@ -1799,7 +1799,7 @@ public class StructureMapUtilities {
}
return new StringType(src);
case ESCAPE:
throw new Error("Rule \"" + rulePath + "\": Transform " + tgt.getTransform().toCode() + " not supported yet");
throw new FHIRException("Rule \"" + rulePath + "\": Transform " + tgt.getTransform().toCode() + " not supported yet");
case CAST:
src = getParamString(vars, tgt.getParameter().get(0));
if (tgt.getParameter().size() == 1)
@ -1870,7 +1870,7 @@ public class StructureMapUtilities {
return new StringType(b.fhirType() + "/" + id);
}
case DATEOP:
throw new Error("Rule \"" + rulePath + "\": Transform " + tgt.getTransform().toCode() + " not supported yet");
throw new FHIRException("Rule \"" + rulePath + "\": Transform " + tgt.getTransform().toCode() + " not supported yet");
case UUID:
return new IdType(UUID.randomUUID().toString());
case POINTER:
@ -1887,7 +1887,7 @@ public class StructureMapUtilities {
Coding c = buildCoding(getParamStringNoNull(vars, tgt.getParameter().get(0), tgt.toString()), getParamStringNoNull(vars, tgt.getParameter().get(1), tgt.toString()));
return c;
default:
throw new Error("Rule \"" + rulePath + "\": Transform Unknown: " + tgt.getTransform().toCode());
throw new FHIRException("Rule \"" + rulePath + "\": Transform Unknown: " + tgt.getTransform().toCode());
}
} catch (Exception e) {
throw new FHIRException("Exception executing transform " + tgt.toString() + " on Rule \"" + rulePath + "\": " + e.getMessage(), e);
@ -2214,7 +2214,7 @@ public class StructureMapUtilities {
TypeDetails type = new TypeDetails(CollectionStatus.SINGLETON);
for (TypeRefComponent tr : element.getDefinition().getType()) {
if (!tr.hasCode())
throw new Error("Rule \"" + ruleId + "\": Element has no type");
throw new FHIRException("Rule \"" + ruleId + "\": Element has no type");
ProfiledType pt = new ProfiledType(tr.getWorkingCode());
if (tr.hasProfile())
pt.addProfiles(tr.getProfile());
@ -2268,7 +2268,7 @@ public class StructureMapUtilities {
}
if (mapsSrc) {
if (var == null)
throw new Error("Rule \"" + ruleId + "\": Attempt to assign with no context");
throw new FHIRException("Rule \"" + ruleId + "\": Attempt to assign with no context");
tw.valueAssignment(tgt.getContext(), var.getProperty().getPath() + "." + tgt.getElement() + getTransformSuffix(tgt.getTransform()));
} else if (tgt.hasContext()) {
if (isSignificantElement(var.getProperty(), tgt.getElement())) {
@ -2531,8 +2531,10 @@ public class StructureMapUtilities {
TypeDetails td = new TypeDetails(CollectionStatus.SINGLETON);
td.addType("Reference", profile);
return td;
case UUID:
return new TypeDetails(CollectionStatus.SINGLETON, "id");
default:
throw new Error("Transform Unknown or not handled yet: " + tgt.getTransform().toCode());
throw new FHIRException("Transform Unknown or not handled yet: " + tgt.getTransform().toCode());
}
}

3
org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/i18n/I18nConstants.java
View File

@ -1003,6 +1003,9 @@ public class I18nConstants {
public static final String CONCEPTMAP_VS_CONCEPT_CODE_UNKNOWN_SYSTEM = "CONCEPTMAP_VS_CONCEPT_CODE_UNKNOWN_SYSTEM";
public static final String LOGICAL_MODEL_NAME_MISMATCH = "LOGICAL_MODEL_NAME_MISMATCH";
public static final String LOGICAL_MODEL_QNAME_MISMATCH = "LOGICAL_MODEL_QNAME_MISMATCH";
public static final String FHIRPATH_CHOICE_NO_TYPE_SPECIFIER = "FHIRPATH_CHOICE_NO_TYPE_SPECIFIER";
public static final String FHIRPATH_CHOICE_SPURIOUS_TYPE_SPECIFIER = "FHIRPATH_CHOICE_SPURIOUS_TYPE_SPECIFIER";
public static final String FHIRPATH_NOT_A_COLLECTION = "FHIRPATH_NOT_A_COLLECTION";
}

11
org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/validation/IDigitalSignatureServices.java Normal file
View File

@ -0,0 +1,11 @@
package org.hl7.fhir.utilities.validation;
import java.io.IOException;
import org.hl7.fhir.utilities.json.JsonException;
import org.hl7.fhir.utilities.json.model.JsonObject;
public interface IDigitalSignatureServices {
JsonObject fetchJWKS(String address) throws JsonException, IOException;
}

8
org.hl7.fhir.utilities/src/main/resources/Messages.properties
View File

@ -736,8 +736,8 @@ BUNDLE_SEARCH_ENTRY_WRONG_RESOURCE_TYPE_MODE = This is not a matching resource t
BUNDLE_SEARCH_ENTRY_WRONG_RESOURCE_TYPE_OUTCOME = This is not an OperationOutcome ({0})
BUNDLE_SEARCH_ENTRY_WRONG_RESOURCE_TYPE_NO_MODE = This is not a matching resource type for the specified search (is a search mode needed?) ({0} expecting {1})
BUNDLE_SEARCH_NO_MODE = SearchSet bundles should have search modes on the entries
INV_FAILED = Rule {0} Failed
INV_FAILED_SOURCE = Rule {0} Failed (defined in {1})
INV_FAILED = Constraint failed: {0}
INV_FAILED_SOURCE = Constraint failed: {0} (defined in {1})
PATTERN_CHECK_STRING = The pattern [{0}] defined in the profile {1} not found. Issues: {2}
TYPE_SPECIFIC_CHECKS_DT_URL_EXAMPLE = Example URLs are not allowed in this context ({0})
UNICODE_BIDI_CONTROLS_CHARS_DISALLOWED = The Unicode sequence has bi-di control characters which are not allowed in this context: {0}
@ -1060,3 +1060,7 @@ TYPE_SPECIFIC_CHECKS_DT_QTY_UCUM_ANNOTATIONS_NOT_IN_UNIT = UCUM Codes that conta
TYPE_SPECIFIC_CHECKS_DT_QTY_UCUM_ANNOTATIONS = UCUM Codes that contain human readable annotations like {0} can be misleading (e.g. they are ignored when comparing units). Best Practice is not to depend on annotations in the UCUM code, so this usage should be checked
LOGICAL_MODEL_NAME_MISMATCH = The name ''{0}'' does not match the expected name ''{1}''
LOGICAL_MODEL_QNAME_MISMATCH = The QName ''{0}'' does not match the expected QName ''{1}''
FHIRPATH_CHOICE_NO_TYPE_SPECIFIER = The expression ''{0}'' refers to an element that is a choice, but doesn''t have an .ofType() so that SQL view runners can pre-determine the full element name
FHIRPATH_CHOICE_SPURIOUS_TYPE_SPECIFIER = The expression ''{0}'' refers to an element that is not a choice, but has an .ofType(). SQL view runners are likely to pre-determine an incorrect full element name
FHIRPATH_NOT_A_COLLECTION = Found a use of a collection operator on something that is not a collection at ''{0}'' - check that there's no mistakes in the expression syntax

46
org.hl7.fhir.validation/src/main/java/org/hl7/fhir/validation/instance/InstanceValidator.java
View File

@ -185,6 +185,7 @@ import org.hl7.fhir.utilities.VersionUtilities;
import org.hl7.fhir.utilities.VersionUtilities.VersionURLInfo;
import org.hl7.fhir.utilities.i18n.I18nConstants;
import org.hl7.fhir.utilities.json.model.JsonObject;
import org.hl7.fhir.utilities.validation.IDigitalSignatureServices;
import org.hl7.fhir.utilities.validation.ValidationMessage;
import org.hl7.fhir.utilities.validation.ValidationMessage.IssueSeverity;
import org.hl7.fhir.utilities.validation.ValidationMessage.IssueType;
@ -493,6 +494,7 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
public List<ValidatedFragment> validatedContent;
public boolean testMode;
private boolean example ;
private IDigitalSignatureServices signatureServices;
public InstanceValidator(@Nonnull IWorkerContext theContext, @Nonnull IEvaluationContext hostServices, @Nonnull XVerExtensionManager xverManager) {
super(theContext, xverManager, false);
@ -710,6 +712,8 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
if (parser instanceof JsonParser) {
((JsonParser) parser).setAllowComments(allowComments);
}
parser.setSignatureServices(signatureServices);
long t = System.nanoTime();
validatedContent = null;
try {
@ -5586,9 +5590,9 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
long t = System.nanoTime();
StructureDefinition profile = this.context.fetchResource(StructureDefinition.class, typeForResource.getProfile().get(0).asStringValue(), parentProfile);
timeTracker.sd(t);
trackUsage(profile, valContext, element);
if (rule(errors, NO_RULE_DATE, IssueType.INVALID, element.line(), element.col(), stack.getLiteralPath(),
profile != null, I18nConstants.BUNDLE_BUNDLE_ENTRY_NOPROFILE_EXPL, special.toHuman(), resourceName, typeForResource.getProfile().get(0).asStringValue())) {
profile != null, I18nConstants.BUNDLE_BUNDLE_ENTRY_NOPROFILE_EXPL, special == null ? "??" : special.toHuman(), resourceName, typeForResource.getProfile().get(0).asStringValue())) {
trackUsage(profile, valContext, element);
ok = validateResource(hc, errors, resource, element, profile, idstatus, stack, pct, mode) && ok;
} else {
ok = false;
@ -5841,6 +5845,7 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
boolean ok = true;
List<String> profiles = new ArrayList<String>();
String type = null;
String typeName = null;
ElementDefinition typeDefn = null;
checkMustSupport(profile, ei);
long s = System.currentTimeMillis();
@ -5848,21 +5853,29 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
if (checkDefn.getType().size() == 1 && !"*".equals(checkDefn.getType().get(0).getWorkingCode()) && !"Element".equals(checkDefn.getType().get(0).getWorkingCode())
&& !"BackboneElement".equals(checkDefn.getType().get(0).getWorkingCode())) {
type = checkDefn.getType().get(0).getWorkingCode();
typeName = type;
if (Utilities.isAbsoluteUrl(type)) {
StructureDefinition sdt = context.fetchTypeDefinition(type);
if (sdt != null) {
typeName = sdt.getTypeName();
}
}
String stype = ei.getElement().fhirType();
if (!stype.equals(type)) {
if (checkDefn.isChoice()) {
if (extensionUrl != null && !isAbsolute(extensionUrl)) {
ok = rule(errors, NO_RULE_DATE, IssueType.STRUCTURE, element.line(), element.col(), ei.getPath(), false, I18nConstants.EXTENSION_PROF_TYPE, profile.getVersionedUrl(), type, stype) && ok;
} else if (!isAbstractType(type) && !"Extension".equals(profile.getType())) {
ok = rule(errors, NO_RULE_DATE, IssueType.STRUCTURE, element.line(), element.col(), ei.getPath(), stype.equals(type), I18nConstants.EXTENSION_PROF_TYPE, profile.getVersionedUrl(), type, stype) && ok;
ok = rule(errors, NO_RULE_DATE, IssueType.STRUCTURE, element.line(), element.col(), ei.getPath(), stype.equals(typeName), I18nConstants.EXTENSION_PROF_TYPE, profile.getVersionedUrl(), type, stype) && ok;
}
} else if (!isAbstractType(type)) {
ok = rule(errors, NO_RULE_DATE, IssueType.STRUCTURE, element.line(), element.col(), ei.getPath(), stype.equals(type) ||
ok = rule(errors, NO_RULE_DATE, IssueType.STRUCTURE, element.line(), element.col(), ei.getPath(), stype.equals(typeName) ||
(Utilities.existsInList(type, "string", "id") && Utilities.existsInList(stype, "string", "id")), // work around a r4 problem with id/string
I18nConstants.EXTENSION_PROF_TYPE, profile.getVersionedUrl(), type, stype) && ok;
} else if (!isResource(type)) {
// System.out.println("update type "+type+" to "+stype+"?");
type = stype;
typeName = type;
} else {
// this will be sorted out in contains ... System.out.println("update type "+type+" to "+stype+"?");
}
@ -5878,8 +5891,11 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
String prefix = tail(checkDefn.getPath());
assert prefix.endsWith("[x]");
type = ei.getName().substring(prefix.length() - 3);
if (isPrimitiveType(type))
typeName = type;
if (isPrimitiveType(type)) {
type = Utilities.uncapitalize(type);
typeName = type;
}
if (checkDefn.getType().get(0).hasProfile()) {
for (CanonicalType p : checkDefn.getType().get(0).getProfile()) {
profiles.add(p.getValue());
@ -5892,13 +5908,16 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
if (checkDefn.hasRepresentation(PropertyRepresentation.TYPEATTR)) {
type = ei.getElement().getType();
typeName = type;
} else if (ei.getElement().isResource()) {
type = ei.getElement().fhirType();
type = ei.getElement().fhirType();
typeName = type;
} else {
prefix = prefix.substring(0, prefix.length() - 3);
for (TypeRefComponent t : checkDefn.getType())
if ((prefix + Utilities.capitalize(t.getWorkingCode())).equals(ei.getName())) {
type = t.getWorkingCode();
typeName = type;
// Excluding reference is a kludge to get around versioning issues
if (t.hasProfile() && !type.equals("Reference"))
profiles.add(t.getProfile().get(0).getValue());
@ -5906,9 +5925,10 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
}
if (type == null) {
TypeRefComponent trc = checkDefn.getType().get(0);
if (trc.getWorkingCode().equals("Reference"))
if (trc.getWorkingCode().equals("Reference")) {
type = "Reference";
else
typeName = type;
} else
ok = rule(errors, NO_RULE_DATE, IssueType.STRUCTURE, ei.line(), ei.col(), stack.getLiteralPath(), false, I18nConstants.VALIDATION_VAL_PROFILE_NOTYPE, ei.getName(), describeTypes(checkDefn.getType())) && ok;
}
} else if (checkDefn.getContentReference() != null) {
@ -5933,6 +5953,7 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
ei.definition = ei.definition;
}
type = null;
typeName = type;
}
}
NodeStack localStack = stack.push(ei.getElement(), "*".equals(ei.getDefinition().getBase().getMax()) && ei.count == -1 ? 0 : ei.count, checkDefn, type == null ? typeDefn : resolveType(type, checkDefn.getType()));
@ -7115,4 +7136,13 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
this.example = example;
return this;
}
public IDigitalSignatureServices getSignatureServices() {
return signatureServices;
}
public void setSignatureServices(IDigitalSignatureServices signatureServices) {
this.signatureServices = signatureServices;
}
}

14
org.hl7.fhir.validation/src/test/java/org/hl7/fhir/validation/tests/ValidationTests.java
View File

@ -70,11 +70,13 @@ import org.hl7.fhir.utilities.SimpleHTTPClient.HTTPResult;
import org.hl7.fhir.utilities.TextFile;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.VersionUtilities;
import org.hl7.fhir.utilities.json.JsonException;
import org.hl7.fhir.utilities.json.JsonTrackingParser;
import org.hl7.fhir.utilities.json.JsonUtilities;
import org.hl7.fhir.utilities.npm.NpmPackage;
import org.hl7.fhir.utilities.settings.FhirSettings;
import org.hl7.fhir.utilities.tests.CacheVerificationLogger;
import org.hl7.fhir.utilities.validation.IDigitalSignatureServices;
import org.hl7.fhir.utilities.validation.ValidationMessage;
import org.hl7.fhir.validation.IgLoader;
import org.hl7.fhir.validation.ValidationEngine;
@ -98,7 +100,7 @@ import com.google.gson.JsonObject;
@RunWith(Parameterized.class)
public class ValidationTests implements IEvaluationContext, IValidatorResourceFetcher, IValidationPolicyAdvisor {
public class ValidationTests implements IEvaluationContext, IValidatorResourceFetcher, IValidationPolicyAdvisor, IDigitalSignatureServices {
public class TestSorter implements Comparator<Object> {
@ -319,6 +321,7 @@ public class ValidationTests implements IEvaluationContext, IValidatorResourceFe
if (content.has("noHtmlInMarkdown")) {
val.setHtmlInMarkdownCheck(HtmlInMarkdownCheck.ERROR);
}
val.setSignatureServices(this);
if (content.has("logical")==false) {
val.setAssumeValidRestReferences(content.has("assumeValidRestReferences") ? content.get("assumeValidRestReferences").getAsBoolean() : false);
logOutput(String.format("Start Validating (%d to set up)", (System.nanoTime() - setup) / 1000000));
@ -792,4 +795,13 @@ public class ValidationTests implements IEvaluationContext, IValidatorResourceFe
return false;
}
@Override
public org.hl7.fhir.utilities.json.model.JsonObject fetchJWKS(String address) throws JsonException, IOException {
if ("https://test.fhir.org/icao/.well-known/jwks.json".equals(address)) {
return org.hl7.fhir.utilities.json.parser.JsonParser.parseObject(TestingUtilities.loadTestResourceBytes("validator", "test.fhir.org-jwks.json"));
} else {
return org.hl7.fhir.utilities.json.parser.JsonParser.parseObjectFromUrl(address);
}
}
}

2
pom.xml
View File

@ -20,7 +20,7 @@
<properties>
<guava_version>32.0.1-jre</guava_version>
<hapi_fhir_version>6.4.1</hapi_fhir_version>
<validator_test_case_version>1.4.8</validator_test_case_version>
<validator_test_case_version>1.4.9-SNAPSHOT</validator_test_case_version>
<jackson_version>2.15.2</jackson_version>
<junit_jupiter_version>5.9.2</junit_jupiter_version>
<junit_platform_launcher_version>1.8.2</junit_platform_launcher_version>