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Merge pull request #488 from hapifhir/gg-202105-version-conversion-1 

tidy up and document version conversion advisors
This commit is contained in:
Grahame Grieve 2021-05-05 15:14:13 +10:00 committed by GitHub
parent 64cbdb5bc4 c56b7b67c8
commit 3c28b476f1
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GPG Key ID: 4AEE18F83AFDEB23
31 changed files with 232 additions and 261 deletions
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7
RELEASE_NOTES.md
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@ -1,3 +1,6 @@
* Issue 484 https://github.com/hapifhir/org.hl7.fhir.core/issues/484
* Update core R5 code to v4.6.0 (breaking changes to questionnaire, concept map, and other resources that are less important to core)
* Fix compartment definitions of ListResource.source and subject for R3 and R4
* Snapshot generator: fix problem checking types on logical models
* Do not flag internal references as suspicious
* XMLParser allows passing a schema location
* Issue 484 https://github.com/hapifhir/org.hl7.fhir.core/issues/484

48
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/VersionConvertorAdvisor30.java
View File

@ -33,14 +33,54 @@ package org.hl7.fhir.convertors;
import org.hl7.fhir.exceptions.FHIRException;
/**
* This interface is passed into the version conversion routines when on of the
* converters is producing or converting R3 resources.
*
* The interface allows users of the code to
* 1. manage the life cycle of new resources created (or needed) during the conversion process
* 2. manage how unknown content etc is handled
*
* @author grahame
*
*/
public interface VersionConvertorAdvisor30 {
/**
* when processing a bundle, and converting from R3 to R2 whether to ignore an entry in the bundle.
* typically, return true when it's a resource that isn't handled, and you don't care.
*
* by default, always return false unless you know why not do this
*
* todo: why only R2? generalise this to all targets
*
* @param src
* @return
*/
boolean ignoreEntry(org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent src);
// called ?
org.hl7.fhir.dstu2.model.Resource convert(org.hl7.fhir.dstu3.model.Resource resource) throws FHIRException;
// called when an r2 value set has a codeSystem in it
/**
* In R2, code systems are internal to value sets, but in subsequent versions, they
* exist as separate resources. The convertor will create the code system, and then
* call this routine for the host to decide what to do with it
*
* It can make it a contained resource, or it can put it somewhere else
*
* @param tgtcs
* @param source
* @throws FHIRException
*/
void handleCodeSystem(org.hl7.fhir.dstu3.model.CodeSystem tgtcs, org.hl7.fhir.dstu3.model.ValueSet source) throws FHIRException;
/**
* when converting from R3 to R2, and converting a value set, the convertor will need
* to find the code system a value set is referring to, so it can include it inline.
*
* This routine should find the actual resource
*
* @param src
* @return
* @throws FHIRException
*/
org.hl7.fhir.dstu3.model.CodeSystem getCodeSystem(org.hl7.fhir.dstu3.model.ValueSet src) throws FHIRException;
}

51
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/VersionConvertorAdvisor40.java
View File

@ -33,16 +33,55 @@ package org.hl7.fhir.convertors;
import org.hl7.fhir.exceptions.FHIRException;
/**
* This interface is passed into the version conversion routines when on of the
* converters is producing or converting R4 resources.
*
* The interface allows users of the code to
* 1. manage the life cycle of new resources created (or needed) during the conversion process
* 2. manage how unknown content etc is handled
*
* @author grahame
*
*/
public interface VersionConvertorAdvisor40 {
/**
* when processing a bundle, and converting from R4 to R2 whether to ignore an entry in the bundle.
* typically, return true when it's a resource that isn't handled, and you don't care.
*
* by default, always return false unless you know why not do this
*
* todo: why only R2? generalise this to all targets
*
* @param src
* @return
*/
boolean ignoreEntry(org.hl7.fhir.r4.model.Bundle.BundleEntryComponent src);
// called ?
org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r4.model.Resource resource) throws FHIRException;
org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r4.model.Resource resource) throws FHIRException;
org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r4.model.Resource resource) throws FHIRException;
// called when an r2 value set has a codeSystem in it
/**
* In R2, code systems are internal to value sets, but in subsequent versions, they
* exist as separate resources. The convertor will create the code system, and then
* call this routine for the host to decide what to do with it
*
* It can make it a contained resource, or it can put it somewhere else
*
* @param tgtcs
* @param source
* @throws FHIRException
*/
void handleCodeSystem(org.hl7.fhir.r4.model.CodeSystem tgtcs, org.hl7.fhir.r4.model.ValueSet source) throws FHIRException;
/**
* when converting from R4 to R2, and converting a value set, the convertor will need
* to find the code system a value set is referring to, so it can include it inline.
*
* This routine should find the actual resource
*
* @param src
* @return
* @throws FHIRException
*/
org.hl7.fhir.r4.model.CodeSystem getCodeSystem(org.hl7.fhir.r4.model.ValueSet src) throws FHIRException;
}

39
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/VersionConvertorAdvisor50.java
View File

@ -34,16 +34,41 @@ package org.hl7.fhir.convertors;
import org.hl7.fhir.exceptions.FHIRException;
public interface VersionConvertorAdvisor50 {
/**
* when processing a bundle, and converting from R5 to R2 whether to ignore an entry in the bundle.
* typically, return true when it's a resource that isn't handled, and you don't care.
*
* by default, always return false unless you know why not do this
*
* todo: why only R2? generalise this to all targets
*
* @param src
* @return
*/
boolean ignoreEntry(org.hl7.fhir.r5.model.Bundle.BundleEntryComponent src);
// called ?
org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException;
org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException;
org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException;
org.hl7.fhir.r4.model.Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException;
// called when an r2 value set has a codeSystem in it
/**
* In R2, code systems are internal to value sets, but in subsequent versions, they
* exist as separate resources. The convertor will create the code system, and then
* call this routine for the host to decide what to do with it
*
* It can make it a contained resource, or it can put it somewhere else
*
* @param tgtcs
* @param source
* @throws FHIRException
*/
void handleCodeSystem(org.hl7.fhir.r5.model.CodeSystem tgtcs, org.hl7.fhir.r5.model.ValueSet source) throws FHIRException;
/**
* when converting from R5 to R2, and converting a value set, the convertor will need
* to find the code system a value set is referring to, so it can include it inline.
*
* This routine should find the actual resource
*
* @param src
* @return
* @throws FHIRException
*/
org.hl7.fhir.r5.model.CodeSystem getCodeSystem(org.hl7.fhir.r5.model.ValueSet src) throws FHIRException;
}

4
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv10_30/Bundle10_30.java
View File

@ -52,9 +52,7 @@ public class Bundle10_30 {
for (org.hl7.fhir.dstu3.model.Bundle.BundleLinkComponent t : src.getLink()) tgt.addLink(convertBundleLinkComponent(t));
if (src.hasFullUrlElement())
tgt.setFullUrlElement(VersionConvertor_10_30.convertUri(src.getFullUrlElement()));
org.hl7.fhir.dstu2.model.Resource res = advisor.convert(src.getResource());
if (res == null)
res = VersionConvertor_10_30.convertResource(src.getResource());
org.hl7.fhir.dstu2.model.Resource res = VersionConvertor_10_30.convertResource(src.getResource());
tgt.setResource(res);
if (src.hasSearch())
tgt.setSearch(convertBundleEntrySearchComponent(src.getSearch()));

4
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv10_40/Bundle10_40.java
View File

@ -71,9 +71,7 @@ public class Bundle10_40 {
for (org.hl7.fhir.r4.model.Bundle.BundleLinkComponent t : src.getLink()) tgt.addLink(convertBundleLinkComponent(t));
if (src.hasFullUrlElement())
tgt.setFullUrlElement(VersionConvertor_10_40.convertUri(src.getFullUrlElement()));
org.hl7.fhir.dstu2.model.Resource res = advisor.convertR2(src.getResource());
if (res == null)
res = VersionConvertor_10_40.convertResource(src.getResource());
org.hl7.fhir.dstu2.model.Resource res = VersionConvertor_10_40.convertResource(src.getResource());
tgt.setResource(res);
if (src.hasSearch())
tgt.setSearch(convertBundleEntrySearchComponent(src.getSearch()));

4
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv10_50/Bundle10_50.java
View File

@ -71,9 +71,7 @@ public class Bundle10_50 {
for (org.hl7.fhir.r5.model.Bundle.BundleLinkComponent t : src.getLink()) tgt.addLink(convertBundleLinkComponent(t));
if (src.hasFullUrlElement())
tgt.setFullUrlElement(VersionConvertor_10_50.convertUri(src.getFullUrlElement()));
org.hl7.fhir.dstu2.model.Resource res = advisor.convertR2(src.getResource());
if (res == null)
res = VersionConvertor_10_50.convertResource(src.getResource());
org.hl7.fhir.dstu2.model.Resource res = VersionConvertor_10_50.convertResource(src.getResource());
tgt.setResource(res);
if (src.hasSearch())
tgt.setSearch(convertBundleEntrySearchComponent(src.getSearch()));

15
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R2016MayToR4Loader.java
View File

@ -116,21 +116,6 @@ public class R2016MayToR4Loader extends BaseLoaderR4 implements IContextResource
return false;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public Resource convertR2016May(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());

21
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R2016MayToR5Loader.java
View File

@ -163,21 +163,6 @@ public class R2016MayToR5Loader extends BaseLoaderR5 implements VersionConvertor
return false;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());
@ -191,11 +176,5 @@ public class R2016MayToR5Loader extends BaseLoaderR5 implements VersionConvertor
return null;
}
@Override
public org.hl7.fhir.r4.model.Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
}

4
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R2ToR3Loader.java
View File

@ -113,10 +113,6 @@ public class R2ToR3Loader extends BaseLoaderR3 implements VersionConvertorAdviso
return false;
}
@Override
public Resource convert(org.hl7.fhir.dstu3.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {

14
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R2ToR4Loader.java
View File

@ -115,20 +115,6 @@ public class R2ToR4Loader extends BaseLoaderR4 implements VersionConvertorAdviso
return false;
}
@Override
public Resource convertR2(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());

19
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R2ToR5Loader.java
View File

@ -163,20 +163,6 @@ public class R2ToR5Loader extends BaseLoaderR5 implements IContextResourceLoader
return false;
}
@Override
public Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());
@ -190,10 +176,5 @@ public class R2ToR5Loader extends BaseLoaderR5 implements IContextResourceLoader
return null;
}
@Override
public org.hl7.fhir.r4.model.Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
}

14
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R3ToR4Loader.java
View File

@ -125,20 +125,6 @@ public class R3ToR4Loader extends BaseLoaderR4 implements IContextResourceLoader
return false;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public Resource convertR3(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {

20
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R3ToR5Loader.java
View File

@ -166,21 +166,6 @@ public class R3ToR5Loader extends BaseLoaderR5 implements IContextResourceLoader
return false;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());
@ -194,9 +179,4 @@ public class R3ToR5Loader extends BaseLoaderR5 implements IContextResourceLoader
return null;
}
@Override
public org.hl7.fhir.r4.model.Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
}

20
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R4ToR5Loader.java
View File

@ -166,21 +166,6 @@ public class R4ToR5Loader extends BaseLoaderR5 implements IContextResourceLoader
return false;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());
@ -194,9 +179,4 @@ public class R4ToR5Loader extends BaseLoaderR5 implements IContextResourceLoader
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
}

20
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/loaders/R5ToR5Loader.java
View File

@ -163,21 +163,6 @@ public class R5ToR5Loader extends BaseLoaderR5 implements VersionConvertorAdviso
return false;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.r4.model.Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());
@ -191,9 +176,4 @@ public class R5ToR5Loader extends BaseLoaderR5 implements VersionConvertorAdviso
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
}

4
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/misc/IGPackConverter102.java
View File

@ -89,10 +89,6 @@ public class IGPackConverter102 implements VersionConvertorAdvisor30 {
return false;
}
@Override
public Resource convert(org.hl7.fhir.dstu3.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem tgtcs, ValueSet vs) {

13
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/misc/IGR2ConvertorAdvisor.java
View File

@ -46,20 +46,7 @@ public class IGR2ConvertorAdvisor implements VersionConvertorAdvisor40 {
return false;
}
@Override
public Resource convertR2(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {

20
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/misc/IGR2ConvertorAdvisor5.java
View File

@ -46,21 +46,6 @@ public class IGR2ConvertorAdvisor5 implements VersionConvertorAdvisor50 {
return false;
}
@Override
public Resource convertR2(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem cs, ValueSet vs) {
cs.setId(vs.getId());
@ -71,9 +56,4 @@ public class IGR2ConvertorAdvisor5 implements VersionConvertorAdvisor50 {
return null;
}
@Override
public org.hl7.fhir.r4.model.Resource convertR4(org.hl7.fhir.r5.model.Resource resource) throws FHIRException {
return null;
}
}

14
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/misc/NpmPackageVersionConverter.java
View File

@ -50,20 +50,6 @@ public class NpmPackageVersionConverter {
return false;
}
@Override
public Resource convertR2(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
throw new Error("Not done yet");
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
throw new Error("Not done yet");
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(org.hl7.fhir.r4.model.Resource resource) throws FHIRException {
throw new Error("Not done yet");
}
@Override
public void handleCodeSystem(CodeSystem tgtcs, ValueSet source) throws FHIRException {

4
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/model/ListResource.java
View File

@ -1755,7 +1755,7 @@ public class ListResource extends DomainResource {
* Path: <b>List.subject</b><br>
* </p>
*/
@SearchParamDefinition(name="subject", path="List.subject", description="If all resources have the same subject", type="reference", target={Device.class, Group.class, Location.class, Patient.class } )
@SearchParamDefinition(name="subject", path="List.subject", description="If all resources have the same subject", type="reference", providesMembershipIn={ @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Device"), @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Patient") }, target={Device.class, Group.class, Location.class, Patient.class } )
public static final String SP_SUBJECT = "subject";
/**
* <b>Fluent Client</b> search parameter constant for <b>subject</b>
@ -1807,7 +1807,7 @@ public class ListResource extends DomainResource {
* Path: <b>List.source</b><br>
* </p>
*/
@SearchParamDefinition(name="source", path="List.source", description="Who and/or what defined the list contents (aka Author)", type="reference", target={Device.class, Patient.class, Practitioner.class } )
@SearchParamDefinition(name="source", path="List.source", description="Who and/or what defined the list contents (aka Author)", type="reference", providesMembershipIn={ @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Device"), @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Patient"), @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Practitioner") }, target={Device.class, Patient.class, Practitioner.class } )
public static final String SP_SOURCE = "source";
/**
* <b>Fluent Client</b> search parameter constant for <b>source</b>

4
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/ListResource.java
View File

@ -1763,7 +1763,7 @@ public class ListResource extends DomainResource {
* Path: <b>List.subject</b><br>
* </p>
*/
@SearchParamDefinition(name="subject", path="List.subject", description="If all resources have the same subject", type="reference", target={Device.class, Group.class, Location.class, Patient.class } )
@SearchParamDefinition(name="subject", path="List.subject", description="If all resources have the same subject", type="reference", providesMembershipIn={ @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Device"), @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Patient") }, target={Device.class, Group.class, Location.class, Patient.class } )
public static final String SP_SUBJECT = "subject";
/**
* <b>Fluent Client</b> search parameter constant for <b>subject</b>
@ -1815,7 +1815,7 @@ public class ListResource extends DomainResource {
* Path: <b>List.source</b><br>
* </p>
*/
@SearchParamDefinition(name="source", path="List.source", description="Who and/or what defined the list contents (aka Author)", type="reference", target={Device.class, Patient.class, Practitioner.class, PractitionerRole.class } )
@SearchParamDefinition(name="source", path="List.source", description="Who and/or what defined the list contents (aka Author)", type="reference", providesMembershipIn={ @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Device"), @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Patient"), @ca.uhn.fhir.model.api.annotation.Compartment(name="Base FHIR compartment definition for Practitioner") }, target={Device.class, Patient.class, Practitioner.class, PractitionerRole.class } )
public static final String SP_SOURCE = "source";
/**
* <b>Fluent Client</b> search parameter constant for <b>source</b>

35
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/conformance/ProfileUtilities.java
View File

@ -329,6 +329,7 @@ public class ProfileUtilities extends TranslatingUtilities {
private String defWebRoot;
private boolean autoFixSliceNames;
private XVerExtensionManager xver;
private boolean wantFixDifferentialFirstElementType;
public ProfileUtilities(IWorkerContext context, List<ValidationMessage> messages, ProfileKnowledgeProvider pkp, FHIRPathEngine fpe) {
super();
@ -364,7 +365,13 @@ public class ProfileUtilities extends TranslatingUtilities {
this.igmode = igmode;
}
public boolean isWantFixDifferentialFirstElementType() {
return wantFixDifferentialFirstElementType;
}
public void setWantFixDifferentialFirstElementType(boolean wantFixDifferentialFirstElementType) {
this.wantFixDifferentialFirstElementType = wantFixDifferentialFirstElementType;
}
public boolean isAutoFixSliceNames() {
return autoFixSliceNames;
@ -609,7 +616,8 @@ public class ProfileUtilities extends TranslatingUtilities {
derived.setSnapshot(new StructureDefinitionSnapshotComponent());
try {
checkDifferential(derived.getDifferential().getElement(), derived.getType(), derived.getUrl());
checkDifferential(derived.getDifferential().getElement(), typeName(derived.getType()), derived.getUrl());
checkDifferentialBaseType(derived);
// so we have two lists - the base list, and the differential list
// the differential list is only allowed to include things that are in the base list, but
@ -620,8 +628,6 @@ public class ProfileUtilities extends TranslatingUtilities {
int baseCursor = 0;
int diffCursor = 0; // we need a diff cursor because we can only look ahead, in the bound scoped by longer paths
if (derived.hasDifferential() && !derived.getDifferential().getElementFirstRep().getPath().contains(".") && !derived.getDifferential().getElementFirstRep().getType().isEmpty())
throw new Error(context.formatMessage(I18nConstants.TYPE_ON_FIRST_DIFFERENTIAL_ELEMENT));
for (ElementDefinition e : derived.getDifferential().getElement())
e.clearUserData(GENERATED_IN_SNAPSHOT);
@ -771,6 +777,29 @@ public class ProfileUtilities extends TranslatingUtilities {
derived.clearUserData("profileutils.snapshot.generating");
}
public void checkDifferentialBaseType(StructureDefinition derived) throws Error {
if (derived.hasDifferential() && !derived.getDifferential().getElementFirstRep().getPath().contains(".") && !derived.getDifferential().getElementFirstRep().getType().isEmpty()) {
if (wantFixDifferentialFirstElementType && typeMatchesAncestor(derived.getDifferential().getElementFirstRep().getType(), derived.getBaseDefinition())) {
derived.getDifferential().getElementFirstRep().getType().clear();
} else {
throw new Error(context.formatMessage(I18nConstants.TYPE_ON_FIRST_DIFFERENTIAL_ELEMENT));
}
}
}
private boolean typeMatchesAncestor(List<TypeRefComponent> type, String baseDefinition) {
StructureDefinition sd = context.fetchResource(StructureDefinition.class, baseDefinition);
return sd != null && type.size() == 1 && sd.getType().equals(type.get(0).getCode());
}
private String typeName(String type) {
if (Utilities.isAbsoluteUrl(type)) {
return type.substring(type.lastIndexOf("/")+1);
} else {
return type;
}
}
private void checkGroupConstraints(StructureDefinition derived) {
List<ElementDefinition> toRemove = new ArrayList<>();
// List<ElementDefinition> processed = new ArrayList<>();

13
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/XmlParser.java
View File

@ -87,6 +87,16 @@ public class XmlParser extends ParserBase {
super(context);
}
private String schemaPath;
public String getSchemaPath() {
return schemaPath;
}
public void setSchemaPath(String schemaPath) {
this.schemaPath = schemaPath;
}
public boolean isAllowXsiLocation() {
return allowXsiLocation;
@ -597,6 +607,9 @@ public class XmlParser extends ParserBase {
public void compose(Element e, IXMLWriter xml) throws Exception {
xml.start();
xml.setDefaultNamespace(e.getProperty().getXmlNamespace());
if (schemaPath != null) {
xml.setSchemaLocation(FormatUtilities.FHIR_NS, Utilities.pathURL(schemaPath, e.fhirType()+".xsd"));
}
composeElement(xml, e, e.getType(), true);
xml.end();
}

14
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/formats/XmlParserBase.java
View File

@ -100,9 +100,10 @@ public abstract class XmlParserBase extends ParserBase implements IParser {
return ParserType.XML;
}
// -- in descendent generated code --------------------------------------
abstract protected Resource parseResource(XmlPullParser xpp) throws XmlPullParserException, IOException, FHIRFormatError ;
abstract protected Resource parseResource(XmlPullParser xpp) throws XmlPullParserException, IOException, FHIRFormatError ;
abstract protected DataType parseType(XmlPullParser xml, String type) throws XmlPullParserException, IOException, FHIRFormatError ;
abstract protected DataType parseAnyType(XmlPullParser xml, String type) throws XmlPullParserException, IOException, FHIRFormatError ;
abstract protected void composeType(String prefix, DataType type) throws IOException ;
@ -268,6 +269,14 @@ public abstract class XmlParserBase extends ParserBase implements IParser {
protected IXMLWriter xml;
protected boolean htmlPretty;
private String schemaPath;
public String getSchemaPath() {
return schemaPath;
}
public void setSchemaPath(String schemaPath) {
this.schemaPath = schemaPath;
}
@ -382,6 +391,9 @@ public abstract class XmlParserBase extends ParserBase implements IParser {
this.htmlPretty = htmlPretty;
xml = writer;
xml.setDefaultNamespace(FHIR_NS);
if (schemaPath != null) {
xml.setSchemaLocation(FHIR_NS, Utilities.pathURL(schemaPath, resource.fhirType()+".xsd"));
}
composeResource(resource);
}

28
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/test/ResourceTests.java
View File

@ -2,6 +2,10 @@ package org.hl7.fhir.r5.test;
import static org.junit.jupiter.api.Assertions.*;
import java.io.IOException;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.formats.XmlParser;
import org.hl7.fhir.r5.model.CapabilityStatement;
import org.hl7.fhir.r5.model.CodeSystem;
import org.hl7.fhir.r5.model.CompartmentDefinition;
@ -12,6 +16,7 @@ import org.hl7.fhir.r5.model.ImplementationGuide;
import org.hl7.fhir.r5.model.MessageDefinition;
import org.hl7.fhir.r5.model.NamingSystem;
import org.hl7.fhir.r5.model.OperationDefinition;
import org.hl7.fhir.r5.model.Resource;
import org.hl7.fhir.r5.model.SearchParameter;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.model.StructureMap;
@ -40,4 +45,27 @@ class ResourceTests {
assertFalse(new GraphDefinition().supportsCopyright());
}
private String SRC = "<?xml version=\"1.0\" encoding=\"UTF-8\"?>\r\n\r\n"+
"<Patient xmlns=\"http://hl7.org/fhir\">\r\n"+
" <name>\r\n"+
" <text value=\"Job Bloggs\"/>\r\n"+
" </name>\r\n"+
"</Patient>\r\n";
private String TGT = "<?xml version=\"1.0\" encoding=\"UTF-8\"?>"+
"<Patient xmlns=\"http://hl7.org/fhir\" xmlns:xsi=\"http://www.w3.org/2001/XMLSchema-instance\" xsi:schemaLocation=\"http://hl7.org/fhir http://test.org/Patient.xsd\">"+
"<name>"+
"<text value=\"Job Bloggs\"/>"+
"</name>"+
"</Patient>";
@Test
void testSchemaLocation() throws IOException {
XmlParser xml = new XmlParser();
xml.setSchemaPath("http://test.org");
xml.setOutputStyle(OutputStyle.NORMAL);
Resource res = xml.parse(SRC);
String output = xml.composeString(res);
assertEquals(TGT, output);
}
}

1
org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/xml/IXMLWriter.java
View File

@ -60,6 +60,7 @@ public interface IXMLWriter {
public abstract void comment(String comment, boolean doPretty) throws IOException;
public abstract void decorate(ElementDecoration decoration) throws IOException;
public abstract void setSchemaLocation(String ns, String loc) throws IOException;
public abstract void enter(String name) throws IOException;
public abstract void enter(String namespace, String name) throws IOException;

6
org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/xml/XMLWriter.java
View File

@ -900,6 +900,12 @@ public class XMLWriter extends OutputStreamWriter implements IXMLWriter {
public void decorate(ElementDecoration element) throws IOException {
// nothing...
}
@Override
public void setSchemaLocation(String ns, String loc) throws IOException {
namespace("http://www.w3.org/2001/XMLSchema-instance", "xsi");
attribute("http://www.w3.org/2001/XMLSchema-instance", "schemaLocation", ns+" "+loc);
}
}

21
org.hl7.fhir.validation/src/main/java/org/hl7/fhir/validation/NativeHostServices.java
View File

@ -108,21 +108,6 @@ public class NativeHostServices {
return false;
}
@Override
public org.hl7.fhir.dstu2016may.model.Resource convertR2016May(Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu2.model.Resource convertR2(Resource resource) throws FHIRException {
return null;
}
@Override
public org.hl7.fhir.dstu3.model.Resource convertR3(Resource resource) throws FHIRException {
return null;
}
@Override
public void handleCodeSystem(CodeSystem tgtcs, ValueSet source) throws FHIRException {
}
@ -132,12 +117,6 @@ public class NativeHostServices {
throw new FHIRException("Code systems cannot be handled at this time"); // what to do? need thread local storage?
}
@Override
public org.hl7.fhir.r4.model.Resource convertR4(Resource resource) throws FHIRException {
// still to do
return null;
}
}
private ValidationEngine validator;

4
org.hl7.fhir.validation/src/main/java/org/hl7/fhir/validation/ValidationEngine.java
View File

@ -485,9 +485,9 @@ public class ValidationEngine implements IValidatorResourceFetcher, IPackageInst
makeSnapshot(sd);
} catch (Exception e) {
System.out.println("Process Note: Unable to generate snapshot for " + sd.present() + ": " + e.getMessage());
if (debug) {
// if (debug) {
e.printStackTrace();
}
// }
}
}
}

2
org.hl7.fhir.validation/src/main/java/org/hl7/fhir/validation/instance/InstanceValidator.java
View File

@ -2757,7 +2757,7 @@ public class InstanceValidator extends BaseValidator implements IResourceValidat
}
private boolean isSuspiciousReference(String url) {
if (!assumeValidRestReferences || url == null || Utilities.isAbsoluteUrl(url)) {
if (!assumeValidRestReferences || url == null || Utilities.isAbsoluteUrl(url) || url.startsWith("#")) {
return false;
}
String[] parts = url.split("\\/");