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org.hl7.fhir.core
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Merge remote-tracking branch 'origin/master' into do-20231127-package-cache-threadsafe

This commit is contained in:
dotasek 2023-12-11 09:56:39 -05:00
parent c83d156d18 82b4f9875c
commit 27e0fbad16
133 changed files with 1462 additions and 763 deletions
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4
.github/workflows/license-check/license-special-cases.txt vendored
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@ -20,4 +20,6 @@
# Appears to be Apache 2.0: https://github.com/NCIP/lexevs/blob/master/lgSharedLibraries/apache/commons/jakarta-regexp-1.4.license.txt
(Unknown license) jakarta-regexp (jakarta-regexp:jakarta-regexp:1.4 - no url defined)
# License string includes nested brackets, causing parser breakage, but is a valid BSD license.
(BSD 3-Clause "New" or "Revised" License (BSD-3-Clause)) abego TreeLayout Core (org.abego.treelayout:org.abego.treelayout.core:1.0.3 - http://treelayout.sourceforge.net)
(BSD 3-Clause "New" or "Revised" License (BSD-3-Clause)) abego TreeLayout Core (org.abego.treelayout:org.abego.treelayout.core:1.0.3 - http://treelayout.sourceforge.net)
# License name includes brackets (javax.xml.bind)
(The Apache Software License, Version 2.0) Jackson module: Old JAXB Annotations (javax.xml.bind) (com.fasterxml.jackson.module:jackson-module-jaxb-annotations:2.16.0 - https://github.com/FasterXML/jackson-modules-base)

25
RELEASE_NOTES.md
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@ -1,7 +1,28 @@
## Validator Changes
* no changes
* Fix bug where validator doesn't actually validate web sourced input
* Fix narrative link validation and add id/idref validation
* Remove fhir-test-cases from Validator CLI JAR (#1497) (reduce size)
* Fix to CDA xsi:type validation per SD decision
* Apply regex pattern to literal format if defined
* Improvements to vital signs related messages
* Fix R4 con-3 FHIRPath expression
* Fix bug loading packages with partially specified version that doesn't exist
## Other code changes
* Bump commonmark version
* Bump commonmark version
* fix Utilities display of time periods (fixed width hour:min)
* Fix stated path for error when code not in value set
* Fix rendering of trigger definition using tables inside paragraphs
* Update VSAC importer to fix timeout issues
* Refactor FHIRPath java package
* Fix problem with profiled resources being called examples in IG publisher
* Remove dependencies for unused UI experiment (#1465)
* Remove AU connectathon
* Include hamcrest dependency
* Fix breaking ValidationEngineTests
* Give kinder error message for missing param
* Fix commonmark group and bump version (#1500)
* Remove dep used for local testing
* Bump jackson & logback versions

3
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv40_50/resources40_50/ImplementationGuide40_50.java
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@ -338,8 +338,9 @@ public class ImplementationGuide40_50 {
tgt.setDescriptionElement(String40_50.convertString(src.getDescriptionElement()));
if (src.hasIsExample())
tgt.setExample(ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().convertType(src.getIsExampleElement()));
if (src.hasProfile())
if (src.hasProfile() && (!src.hasIsExample() || src.getIsExample())) {
tgt.setExample(ConversionContext40_50.INSTANCE.getVersionConvertor_40_50().convertType(src.getProfile().get(0)));
}
if (src.hasGroupingId())
tgt.setGroupingIdElement(Id40_50.convertId(src.getGroupingIdElement()));
return tgt;

2
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv40_50/resources40_50/StructureMap40_50.java
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@ -18,6 +18,7 @@ import org.hl7.fhir.convertors.conv40_50.datatypes40_50.primitive40_50.Uri40_50;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4.model.StructureMap.StructureMapGroupTypeMode;
import org.hl7.fhir.r4.utils.ToolingExtensions;
import org.hl7.fhir.r5.fhirpath.FHIRPathConstant;
import org.hl7.fhir.r5.model.BooleanType;
import org.hl7.fhir.r5.model.DataType;
import org.hl7.fhir.r5.model.DecimalType;
@ -25,7 +26,6 @@ import org.hl7.fhir.r5.model.IdType;
import org.hl7.fhir.r5.model.IntegerType;
import org.hl7.fhir.r5.model.StringType;
import org.hl7.fhir.r5.model.StructureMap.StructureMapGroupRuleTargetParameterComponent;
import org.hl7.fhir.r5.utils.FHIRPathConstant;
import org.hl7.fhir.utilities.Utilities;
/*

2
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/conv43_50/resources43_50/StructureMap43_50.java
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@ -18,6 +18,7 @@ import org.hl7.fhir.convertors.conv43_50.datatypes43_50.primitive43_50.Uri43_50;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4b.model.StructureMap.StructureMapGroupTypeMode;
import org.hl7.fhir.r4b.utils.ToolingExtensions;
import org.hl7.fhir.r5.fhirpath.FHIRPathConstant;
import org.hl7.fhir.r5.model.BooleanType;
import org.hl7.fhir.r5.model.DataType;
import org.hl7.fhir.r5.model.DecimalType;
@ -25,7 +26,6 @@ import org.hl7.fhir.r5.model.IdType;
import org.hl7.fhir.r5.model.IntegerType;
import org.hl7.fhir.r5.model.StringType;
import org.hl7.fhir.r5.model.StructureMap.StructureMapGroupRuleTargetParameterComponent;
import org.hl7.fhir.r5.utils.FHIRPathConstant;
import org.hl7.fhir.utilities.Utilities;
/*

121
org.hl7.fhir.convertors/src/main/java/org/hl7/fhir/convertors/misc/VSACImporter.java
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@ -7,6 +7,7 @@ import java.io.FileOutputStream;
import java.io.IOException;
import java.net.URISyntaxException;
import java.text.ParseException;
import java.time.Duration;
import java.util.ArrayList;
import java.util.Collections;
import java.util.HashMap;
@ -52,7 +53,8 @@ public class VSACImporter extends OIDBasedValueSetImporter {
FHIRToolingClient fhirToolingClient = new FHIRToolingClient("https://cts.nlm.nih.gov/fhir", "fhir/vsac");
fhirToolingClient.setUsername("apikey");
fhirToolingClient.setPassword(apiKey);
fhirToolingClient.setTimeoutNormal(6000);
fhirToolingClient.setTimeoutNormal(30000);
fhirToolingClient.setTimeoutExpand(30000);
CapabilityStatement cs = fhirToolingClient.getCapabilitiesStatement();
JsonParser json = new JsonParser();
@ -62,18 +64,30 @@ public class VSACImporter extends OIDBasedValueSetImporter {
List<String> oids = new ArrayList<>();
while (csv.line()) {
String oid = csv.cell("OID");
oids.add(oid);
if (!onlyNew || !(new File(Utilities.path(dest, "ValueSet-" + oid + ".json")).exists())) {
oids.add(oid);
}
}
Collections.sort(oids);
System.out.println("Go: "+oids.size()+" oids");
int i = 0;
int j = 0;
long t = System.currentTimeMillis();
long tt = System.currentTimeMillis();
for (String oid : oids) {
try {
j = processOid(dest, onlyNew, errs, fhirToolingClient, j, oid.trim());
long t3 = System.currentTimeMillis();
if (processOid(dest, onlyNew, errs, fhirToolingClient, oid.trim())) {
j++;
}
i++;
System.out.print(":"+((System.currentTimeMillis() - t3) / 1000));
if (i % 100 == 0) {
System.out.println(":"+i+" ("+j+")");
long elapsed = System.currentTimeMillis() - t;
System.out.println("");
System.out.println(i+": "+j+" ("+((j * 100) / i)+"%) @ "+Utilities.describeDuration(elapsed)
+", "+(elapsed/100000)+"sec/vs, estimated "+Utilities.describeDuration(estimate(i, oids.size(), tt))+" remaining");
t = System.currentTimeMillis();
}
} catch (Exception e) {
System.out.println("Unable to fetch OID " + oid + ": " + e.getMessage());
@ -85,63 +99,70 @@ public class VSACImporter extends OIDBasedValueSetImporter {
oo.addIssue().setSeverity(IssueSeverity.ERROR).setCode(IssueType.EXCEPTION).setDiagnostics(errs.get(oid)).addLocation(oid);
}
new JsonParser().setOutputStyle(OutputStyle.PRETTY).compose(new FileOutputStream(Utilities.path(dest, "other", "OperationOutcome-vsac-errors.json")), oo);
System.out.println("Done. " + i + " ValueSets");
System.out.println("Done. " + i + " ValueSets in "+Utilities.describeDuration(System.currentTimeMillis() - tt));
}
private int processOid(String dest, boolean onlyNew, Map<String, String> errs, FHIRToolingClient fhirToolingClient, int j, String oid)
private long estimate(int i, int size, long tt) {
long elapsed = System.currentTimeMillis() - tt;
long average = elapsed / i;
return (size - i) * average;
}
private boolean processOid(String dest, boolean onlyNew, Map<String, String> errs, FHIRToolingClient fhirToolingClient, String oid)
throws IOException, InterruptedException, FileNotFoundException {
if (!onlyNew || !(new File(Utilities.path(dest, "ValueSet-" + oid + ".json")).exists())) {
long t = System.currentTimeMillis();
ValueSet vs = null;
try {
vs = fhirToolingClient.read(ValueSet.class, oid);
} catch (Exception e) {
errs.put(oid, "Read: " +e.getMessage());
System.out.println("Read "+oid+" failed: "+e.getMessage());
System.out.println("Read "+oid+" failed @ "+Utilities.describeDuration(System.currentTimeMillis()-t)+"ms: "+e.getMessage());
return false;
}
if (vs != null) {
t = System.currentTimeMillis();
try {
ValueSet vse = fhirToolingClient.expandValueset(vs.getUrl(), null);
vs.setExpansion(vse.getExpansion());
} catch (Exception e) {
errs.put(oid, "Expansion: " +e.getMessage());
System.out.println("Expand "+oid+" failed @ "+Utilities.describeDuration(System.currentTimeMillis()-t)+"ms: "+e.getMessage());
}
while (isIncomplete(vs.getExpansion())) {
Parameters p = new Parameters();
int offset = vs.getExpansion().getParameter("offset").getValueIntegerType().getValue() + vs.getExpansion().getParameter("count").getValueIntegerType().getValue();
p.addParameter("offset", offset);
t = System.currentTimeMillis();
try {
ValueSet vse = fhirToolingClient.expandValueset(vs.getUrl(), null);
vs.setExpansion(vse.getExpansion());
j++;
} catch (Exception e) {
errs.put(oid, "Expansion: " +e.getMessage());
System.out.println("Expand "+oid+" failed: "+e.getMessage());
}
while (isIncomplete(vs.getExpansion())) {
Parameters p = new Parameters();
int offset = vs.getExpansion().getParameter("offset").getValueIntegerType().getValue() + vs.getExpansion().getParameter("count").getValueIntegerType().getValue();
p.addParameter("offset", offset);
try {
ValueSet vse = fhirToolingClient.expandValueset(vs.getUrl(), p);
vs.getExpansion().getContains().addAll(vse.getExpansion().getContains());
vs.getExpansion().setParameter(vse.getExpansion().getParameter());
} catch (Exception e2) {
errs.put(oid, "Expansion: " +e2.getMessage()+" @ "+offset);
System.out.println("Expand "+oid+" @ "+offset+" failed: "+e2.getMessage());
}
}
vs.getExpansion().setOffsetElement(null);
vs.getExpansion().getParameter().clear();
if (vs.hasTitle()) {
if (vs.getTitle().equals(vs.getDescription())) {
vs.setTitle(vs.getName());
} else {
// System.out.println(oid);
// System.out.println(" name: "+vs.getName());
// System.out.println(" title: "+vs.getTitle());
// System.out.println(" desc: "+vs.getDescription());
}
} else {
vs.setTitle(vs.getName());
}
vs.setName(makeValidName(vs.getName()));
JurisdictionUtilities.setJurisdictionCountry(vs.getJurisdiction(), "US");
new JsonParser().setOutputStyle(OutputStyle.PRETTY).compose(new FileOutputStream(Utilities.path(dest, "ValueSet-" + oid + ".json")), vs);
ValueSet vse = fhirToolingClient.expandValueset(vs.getUrl(), p);
vs.getExpansion().getContains().addAll(vse.getExpansion().getContains());
vs.getExpansion().setParameter(vse.getExpansion().getParameter());
} catch (Exception e2) {
errs.put(oid, "Expansion: " +e2.getMessage()+" @ "+offset);
System.out.println("Expand "+oid+" @ "+offset+" failed @ "+Utilities.describeDuration(System.currentTimeMillis()-t)+"ms: "+e2.getMessage());
}
}
}
return j;
vs.getExpansion().setOffsetElement(null);
vs.getExpansion().getParameter().clear();
if (vs.hasTitle()) {
if (vs.getTitle().equals(vs.getDescription())) {
vs.setTitle(vs.getName());
} else {
// System.out.println(oid);
// System.out.println(" name: "+vs.getName());
// System.out.println(" title: "+vs.getTitle());
// System.out.println(" desc: "+vs.getDescription());
}
} else {
vs.setTitle(vs.getName());
}
vs.setName(makeValidName(vs.getName()));
JurisdictionUtilities.setJurisdictionCountry(vs.getJurisdiction(), "US");
new JsonParser().setOutputStyle(OutputStyle.PRETTY).compose(new FileOutputStream(Utilities.path(dest, "ValueSet-" + oid + ".json")), vs);
return true;
}
private boolean isIncomplete(ValueSetExpansionComponent expansion) {

2
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/elementmodel/Property.java
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@ -37,13 +37,13 @@ import java.util.List;
import org.apache.commons.lang3.StringUtils;
import org.hl7.fhir.dstu3.conformance.ProfileUtilities;
import org.hl7.fhir.dstu3.context.IWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.TypeDetails;
import org.hl7.fhir.dstu3.formats.FormatUtilities;
import org.hl7.fhir.dstu3.model.ElementDefinition;
import org.hl7.fhir.dstu3.model.ElementDefinition.PropertyRepresentation;
import org.hl7.fhir.dstu3.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.dstu3.model.StructureDefinition;
import org.hl7.fhir.dstu3.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.dstu3.model.TypeDetails;
import org.hl7.fhir.dstu3.utils.ToolingExtensions;
import org.hl7.fhir.exceptions.DefinitionException;

2
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/model/ExpressionNode.java → org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/fhirpath/ExpressionNode.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.dstu3.model;
package org.hl7.fhir.dstu3.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.

38
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/utils/FHIRLexer.java → org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/fhirpath/FHIRLexer.java
View File

@ -1,38 +1,6 @@
package org.hl7.fhir.dstu3.utils;
package org.hl7.fhir.dstu3.fhirpath;
/*
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
list of conditions and the following disclaimer.
* 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
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.
IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT,
INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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.
*/
import org.hl7.fhir.dstu3.model.ExpressionNode;
import org.hl7.fhir.dstu3.model.ExpressionNode.SourceLocation;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.SourceLocation;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.utilities.Utilities;
@ -366,7 +334,7 @@ public class FHIRLexer {
return b.toString();
}
void skipComments() throws FHIRLexerException {
public void skipComments() throws FHIRLexerException {
while (!done() && hasComment())
next();
}

24
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/utils/FHIRPathEngine.java → org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/fhirpath/FHIRPathEngine.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.dstu3.utils;
package org.hl7.fhir.dstu3.fhirpath;
import java.math.BigDecimal;
import java.util.ArrayList;
@ -13,6 +13,16 @@ import java.util.Set;
import org.fhir.ucum.Decimal;
import org.fhir.ucum.UcumException;
import org.hl7.fhir.dstu3.context.IWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.Function;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.Kind;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.Operation;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.SourceLocation;
import org.hl7.fhir.dstu3.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathUtilityClasses.ExecutionContext;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathUtilityClasses.ExecutionTypeContext;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.dstu3.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.dstu3.model.Base;
import org.hl7.fhir.dstu3.model.BooleanType;
import org.hl7.fhir.dstu3.model.DateTimeType;
@ -20,12 +30,6 @@ import org.hl7.fhir.dstu3.model.DateType;
import org.hl7.fhir.dstu3.model.DecimalType;
import org.hl7.fhir.dstu3.model.ElementDefinition;
import org.hl7.fhir.dstu3.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.dstu3.model.ExpressionNode;
import org.hl7.fhir.dstu3.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.model.ExpressionNode.Function;
import org.hl7.fhir.dstu3.model.ExpressionNode.Kind;
import org.hl7.fhir.dstu3.model.ExpressionNode.Operation;
import org.hl7.fhir.dstu3.model.ExpressionNode.SourceLocation;
import org.hl7.fhir.dstu3.model.IntegerType;
import org.hl7.fhir.dstu3.model.Property;
import org.hl7.fhir.dstu3.model.Resource;
@ -34,12 +38,6 @@ import org.hl7.fhir.dstu3.model.StructureDefinition;
import org.hl7.fhir.dstu3.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.dstu3.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.dstu3.model.TimeType;
import org.hl7.fhir.dstu3.model.TypeDetails;
import org.hl7.fhir.dstu3.model.TypeDetails.ProfiledType;
import org.hl7.fhir.dstu3.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.dstu3.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.dstu3.utils.FHIRPathUtilityClasses.ExecutionContext;
import org.hl7.fhir.dstu3.utils.FHIRPathUtilityClasses.ExecutionTypeContext;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;

3
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/utils/FHIRPathUtilityClasses.java → org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/fhirpath/FHIRPathUtilityClasses.java
View File

@ -1,11 +1,10 @@
package org.hl7.fhir.dstu3.utils;
package org.hl7.fhir.dstu3.fhirpath;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import org.hl7.fhir.dstu3.model.Base;
import org.hl7.fhir.dstu3.model.TypeDetails;
import org.hl7.fhir.exceptions.FHIRException;
public class FHIRPathUtilityClasses {

5
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/model/TypeDetails.java → org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/fhirpath/TypeDetails.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.dstu3.model;
package org.hl7.fhir.dstu3.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -38,8 +38,9 @@ import java.util.List;
import java.util.Set;
import org.hl7.fhir.dstu3.context.IWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.model.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.dstu3.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.model.StructureDefinition;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.utilities.Utilities;

4
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/utils/GraphQLEngine.java
View File

@ -8,7 +8,8 @@ import java.util.List;
import java.util.Map;
import org.hl7.fhir.dstu3.context.IWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine;
/*
Copyright (c) 2011+, HL7, Inc.
All rights reserved.
@ -44,7 +45,6 @@ import org.hl7.fhir.dstu3.model.Bundle.BundleEntryComponent;
import org.hl7.fhir.dstu3.model.Bundle.BundleLinkComponent;
import org.hl7.fhir.dstu3.model.DomainResource;
import org.hl7.fhir.dstu3.model.Element;
import org.hl7.fhir.dstu3.model.ExpressionNode;
import org.hl7.fhir.dstu3.model.IntegerType;
import org.hl7.fhir.dstu3.model.Property;
import org.hl7.fhir.dstu3.model.Reference;

16
org.hl7.fhir.dstu3/src/main/java/org/hl7/fhir/dstu3/utils/StructureMapUtilities.java
View File

@ -50,6 +50,15 @@ import org.hl7.fhir.dstu3.context.IWorkerContext;
import org.hl7.fhir.dstu3.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.dstu3.elementmodel.Element;
import org.hl7.fhir.dstu3.elementmodel.Property;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode;
import org.hl7.fhir.dstu3.fhirpath.FHIRLexer;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine;
import org.hl7.fhir.dstu3.fhirpath.TypeDetails;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.dstu3.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.dstu3.model.Base;
import org.hl7.fhir.dstu3.model.BooleanType;
import org.hl7.fhir.dstu3.model.CodeType;
@ -70,8 +79,6 @@ import org.hl7.fhir.dstu3.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.dstu3.model.Enumeration;
import org.hl7.fhir.dstu3.model.Enumerations.ConceptMapEquivalence;
import org.hl7.fhir.dstu3.model.Enumerations.PublicationStatus;
import org.hl7.fhir.dstu3.model.ExpressionNode;
import org.hl7.fhir.dstu3.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.model.IdType;
import org.hl7.fhir.dstu3.model.IntegerType;
import org.hl7.fhir.dstu3.model.Narrative.NarrativeStatus;
@ -100,15 +107,10 @@ import org.hl7.fhir.dstu3.model.StructureMap.StructureMapStructureComponent;
import org.hl7.fhir.dstu3.model.StructureMap.StructureMapTargetListMode;
import org.hl7.fhir.dstu3.model.StructureMap.StructureMapTransform;
import org.hl7.fhir.dstu3.model.Type;
import org.hl7.fhir.dstu3.model.TypeDetails;
import org.hl7.fhir.dstu3.model.TypeDetails.ProfiledType;
import org.hl7.fhir.dstu3.model.UriType;
import org.hl7.fhir.dstu3.model.ValueSet;
import org.hl7.fhir.dstu3.model.ValueSet.ValueSetExpansionContainsComponent;
import org.hl7.fhir.dstu3.terminologies.ValueSetExpander.ValueSetExpansionOutcome;
import org.hl7.fhir.dstu3.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.dstu3.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.dstu3.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.FHIRFormatError;

4
org.hl7.fhir.dstu3/src/test/java/org/hl7/fhir/dstu3/test/FluentPathTests.java
View File

@ -9,14 +9,14 @@ import java.util.stream.Stream;
import javax.xml.parsers.ParserConfigurationException;
import org.hl7.fhir.dstu3.context.SimpleWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine;
import org.hl7.fhir.dstu3.formats.XmlParser;
import org.hl7.fhir.dstu3.model.Base;
import org.hl7.fhir.dstu3.model.BooleanType;
import org.hl7.fhir.dstu3.model.ExpressionNode;
import org.hl7.fhir.dstu3.model.PrimitiveType;
import org.hl7.fhir.dstu3.model.Resource;
import org.hl7.fhir.dstu3.test.support.TestingUtilities;
import org.hl7.fhir.dstu3.utils.FHIRPathEngine;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.xml.XMLUtil;

10
org.hl7.fhir.dstu3/src/test/java/org/hl7/fhir/dstu3/test/SnapShotGenerationTests.java
View File

@ -14,10 +14,14 @@ import org.apache.commons.codec.Charsets;
import org.apache.commons.io.IOUtils;
import org.hl7.fhir.dstu3.conformance.ProfileUtilities;
import org.hl7.fhir.dstu3.context.SimpleWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine;
import org.hl7.fhir.dstu3.fhirpath.TypeDetails;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.dstu3.formats.IParser.OutputStyle;
import org.hl7.fhir.dstu3.formats.XmlParser;
import org.hl7.fhir.dstu3.model.Base;
import org.hl7.fhir.dstu3.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.dstu3.model.MetadataResource;
import org.hl7.fhir.dstu3.model.Resource;
import org.hl7.fhir.dstu3.model.StructureDefinition;
@ -26,12 +30,8 @@ import org.hl7.fhir.dstu3.model.TestScript.SetupActionAssertComponent;
import org.hl7.fhir.dstu3.model.TestScript.SetupActionOperationComponent;
import org.hl7.fhir.dstu3.model.TestScript.TestScriptFixtureComponent;
import org.hl7.fhir.dstu3.model.TestScript.TestScriptTestComponent;
import org.hl7.fhir.dstu3.model.TypeDetails;
import org.hl7.fhir.dstu3.test.support.TestingUtilities;
import org.hl7.fhir.dstu3.utils.CodingUtilities;
import org.hl7.fhir.dstu3.utils.FHIRPathEngine;
import org.hl7.fhir.dstu3.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.dstu3.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.FHIRFormatError;

3
org.hl7.fhir.dstu3/src/test/java/org/hl7/fhir/dstu3/utils/FhirPathTests.java
View File

@ -8,8 +8,9 @@ import static org.mockito.Mockito.times;
import java.util.List;
import org.hl7.fhir.dstu3.context.IWorkerContext;
import org.hl7.fhir.dstu3.fhirpath.ExpressionNode;
import org.hl7.fhir.dstu3.fhirpath.FHIRPathEngine;
import org.hl7.fhir.dstu3.model.Base;
import org.hl7.fhir.dstu3.model.ExpressionNode;
import org.hl7.fhir.dstu3.model.StringType;
import org.junit.jupiter.api.Test;
import org.junit.jupiter.api.extension.ExtendWith;

2
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/elementmodel/Property.java
View File

@ -36,13 +36,13 @@ import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4.conformance.ProfileUtilities;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.fhirpath.TypeDetails;
import org.hl7.fhir.r4.formats.FormatUtilities;
import org.hl7.fhir.r4.model.ElementDefinition;
import org.hl7.fhir.r4.model.ElementDefinition.PropertyRepresentation;
import org.hl7.fhir.r4.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4.model.StructureDefinition;
import org.hl7.fhir.r4.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.utils.ToolingExtensions;
import org.hl7.fhir.r4.utils.TypesUtilities;
import org.hl7.fhir.utilities.Utilities;

5
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/ExpressionNode.java → org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/fhirpath/ExpressionNode.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4.model;
package org.hl7.fhir.r4.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -32,6 +32,9 @@ package org.hl7.fhir.r4.model;
import java.util.ArrayList;
import java.util.List;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.Quantity;
import org.hl7.fhir.r4.model.StringType;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.Utilities;

35
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/FHIRLexer.java → org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/fhirpath/FHIRLexer.java
View File

@ -1,37 +1,6 @@
package org.hl7.fhir.r4.utils;
package org.hl7.fhir.r4.fhirpath;
import org.hl7.fhir.exceptions.FHIRException;
/*
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
list of conditions and the following disclaimer.
* 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
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.
IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT,
INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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.
*/
import org.hl7.fhir.r4.model.ExpressionNode;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.Utilities;
@ -501,7 +470,7 @@ public class FHIRLexer {
return b.toString();
}
void skipComments() throws FHIRLexerException {
public void skipComments() throws FHIRLexerException {
while (!done() && hasComment())
next();
}

2
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/FHIRPathConstant.java → org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/fhirpath/FHIRPathConstant.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4.utils;
package org.hl7.fhir.r4.fhirpath;
import org.hl7.fhir.utilities.Utilities;

28
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/FHIRPathEngine.java → org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/fhirpath/FHIRPathEngine.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4.utils;
package org.hl7.fhir.r4.fhirpath;
import java.math.BigDecimal;
import java.math.RoundingMode;
@ -26,6 +26,17 @@ import org.hl7.fhir.instance.model.api.IIdType;
import org.hl7.fhir.r4.conformance.ProfileUtilities;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.Function;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.Kind;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.Operation;
import org.hl7.fhir.r4.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.ClassTypeInfo;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.FHIRConstant;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.TypedElementDefinition;
import org.hl7.fhir.r4.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.BaseDateTimeType;
import org.hl7.fhir.r4.model.BooleanType;
@ -37,11 +48,6 @@ import org.hl7.fhir.r4.model.DecimalType;
import org.hl7.fhir.r4.model.Element;
import org.hl7.fhir.r4.model.ElementDefinition;
import org.hl7.fhir.r4.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4.model.ExpressionNode;
import org.hl7.fhir.r4.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.model.ExpressionNode.Function;
import org.hl7.fhir.r4.model.ExpressionNode.Kind;
import org.hl7.fhir.r4.model.ExpressionNode.Operation;
import org.hl7.fhir.r4.model.IntegerType;
import org.hl7.fhir.r4.model.Property;
import org.hl7.fhir.r4.model.Property.PropertyMatcher;
@ -52,15 +58,7 @@ import org.hl7.fhir.r4.model.StructureDefinition;
import org.hl7.fhir.r4.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r4.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r4.model.TimeType;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.model.TypeDetails.ProfiledType;
import org.hl7.fhir.r4.model.ValueSet;
import org.hl7.fhir.r4.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.FHIRConstant;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.ClassTypeInfo;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.TypedElementDefinition;
import org.hl7.fhir.r4.utils.FHIRPathEngine;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.FhirPublication;
import org.hl7.fhir.utilities.MergedList;
@ -4532,7 +4530,7 @@ public class FHIRPathEngine {
return false;
}
for (String an : node.getAttributes().keySet()) {
boolean ok = an.startsWith("xmlns") || Utilities.existsInList(an, "title", "style", "class", "id", "lang",
boolean ok = an.startsWith("xmlns") || Utilities.existsInList(an, "title", "style", "class", "id", "idref", "lang",
"xml:lang", "dir", "accesskey", "tabindex",
// tables
"span", "width", "align", "valign", "char", "charoff", "abbr", "axis", "headers", "scope", "rowspan",

9
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/FHIRPathUtilityClasses.java → org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/fhirpath/FHIRPathUtilityClasses.java
View File

@ -1,23 +1,18 @@
package org.hl7.fhir.r4.utils;
package org.hl7.fhir.r4.fhirpath;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.Element;
import org.hl7.fhir.r4.model.ElementDefinition;
import org.hl7.fhir.r4.model.IntegerType;
import org.hl7.fhir.r4.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4.model.Property;
import org.hl7.fhir.r4.model.Resource;
import org.hl7.fhir.r4.model.StringType;
import org.hl7.fhir.r4.model.StructureDefinition;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.i18n.I18nConstants;
public class FHIRPathUtilityClasses {

7
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/TypeDetails.java → org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/fhirpath/TypeDetails.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4.model;
package org.hl7.fhir.r4.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -38,8 +38,11 @@ import java.util.Set;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.model.CanonicalType;
import org.hl7.fhir.r4.model.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.r4.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.model.StructureDefinition;
import org.hl7.fhir.r4.model.UriType;
import org.hl7.fhir.utilities.Utilities;
public class TypeDetails {

100
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/ips/IPSRenderer.java Normal file
View File

@ -0,0 +1,100 @@
package org.hl7.fhir.r4.ips;
import java.io.IOException;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import org.hl7.fhir.r4.ips.IPSRenderer.InternalTemplateEngine;
import org.hl7.fhir.r4.model.Bundle;
import org.hl7.fhir.r4.model.Composition;
import org.hl7.fhir.r4.model.Composition.SectionComponent;
import org.hl7.fhir.r4.model.DomainResource;
import org.hl7.fhir.r4.model.Reference;
import org.hl7.fhir.r4.terminologies.TerminologyClient;
import org.hl7.fhir.utilities.xhtml.NodeType;
import org.hl7.fhir.utilities.xhtml.XhtmlComposer;
import org.hl7.fhir.utilities.xhtml.XhtmlNode;
public class IPSRenderer {
public class InternalTemplateEngine implements ITemplateImplementer {
@Override
public String buildPage(Map<String, String> headers, String content) {
// TODO Auto-generated method stub
return null;
}
}
private interface ITemplateImplementer {
public String buildPage(Map<String, String> headers, String content);
}
private TerminologyClient tx;
private String folder; // for images etc
private Map<String, byte[]> binaries; // from the pubpack
private ITemplateImplementer templater;
private Map<String, String> headers;
public IPSRenderer(TerminologyClient tx, String folder, Map<String, byte[]> binaries, ITemplateImplementer templater) {
super();
this.tx = tx;
this.folder = folder;
this.binaries = binaries;
this.templater = templater;
}
public IPSRenderer(TerminologyClient tx, String folder, Map<String, byte[]> binaries) {
super();
this.tx = tx;
this.folder = folder;
this.binaries = binaries;
this.templater = new InternalTemplateEngine();
}
public String render(Bundle document) throws IOException {
headers = new HashMap<>();
XhtmlNode x = new XhtmlNode(NodeType.Element, "div");
generate(x, document);
return templater.buildPage(headers, new XhtmlComposer(false, true).compose(x));
}
private void generate(XhtmlNode x, Bundle document) {
Composition cmp = (Composition) document.getEntryFirstRep().getResource();
int sectionDepth = findSectionDepth(cmp.getSection());
XhtmlNode table = x.table("grid");
// row 1: header
XhtmlNode tr = table.tr();
XhtmlNode td = tr.td().colspan(1+sectionDepth);
td.b().tx("Provided");
td = tr.td().colspan(1+sectionDepth);
td.b().tx("Generated");
// row 2: Subject
DomainResource subject = findResource(document, cmp.getSubject());
tr = table.tr();
td = tr.td().colspan(1+sectionDepth);
// genNarrative("subject", subject, td);
td = tr.td().colspan(1+sectionDepth);
td.b().tx("Generated");
}
private DomainResource findResource(Bundle document, Reference subject) {
// TODO Auto-generated method stub
return null;
}
private int findSectionDepth(List<SectionComponent> list) {
int i = 1;
for (SectionComponent sect : list) {
i = Integer.max(i, 1+findSectionDepth(sect.getSection()));
}
return i;
}
}

3
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/model/ProfilingWrapper.java
View File

@ -31,7 +31,8 @@ package org.hl7.fhir.r4.model;
import java.util.Map;
import org.hl7.fhir.r4.utils.FHIRPathEngine;
import org.hl7.fhir.r4.fhirpath.ExpressionNode;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
/**
* This class is the base class for Profile classes - whether generated or

2
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/profilemodel/PEBuilder.java
View File

@ -35,6 +35,7 @@ import org.apache.commons.lang3.NotImplementedException;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.r4.conformance.ProfileUtilities;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.CanonicalType;
import org.hl7.fhir.r4.model.ElementDefinition;
@ -47,7 +48,6 @@ import org.hl7.fhir.r4.model.Resource;
import org.hl7.fhir.r4.model.ResourceFactory;
import org.hl7.fhir.r4.model.StructureDefinition;
import org.hl7.fhir.r4.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r4.utils.FHIRPathEngine;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.Utilities;

1
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/CmdLineApp.java
View File

@ -8,6 +8,7 @@ import java.util.List;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4.context.SimpleWorkerContext;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.formats.IParser.OutputStyle;
import org.hl7.fhir.r4.formats.JsonParser;
import org.hl7.fhir.r4.formats.XmlParser;

3
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/GraphQLEngine.java
View File

@ -39,6 +39,8 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.IBaseResource;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.fhirpath.ExpressionNode;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.model.BackboneElement;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.Bundle;
@ -47,7 +49,6 @@ import org.hl7.fhir.r4.model.Bundle.BundleLinkComponent;
import org.hl7.fhir.r4.model.CanonicalType;
import org.hl7.fhir.r4.model.DomainResource;
import org.hl7.fhir.r4.model.Element;
import org.hl7.fhir.r4.model.ExpressionNode;
import org.hl7.fhir.r4.model.IntegerType;
import org.hl7.fhir.r4.model.Property;
import org.hl7.fhir.r4.model.Reference;

11
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/LiquidEngine.java
View File

@ -38,15 +38,16 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.fhirpath.ExpressionNode;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.fhirpath.TypeDetails;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine.ExpressionNodeWithOffset;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.ExpressionNode;
import org.hl7.fhir.r4.model.Resource;
import org.hl7.fhir.r4.model.Tuple;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.model.ValueSet;
import org.hl7.fhir.r4.utils.FHIRPathEngine.ExpressionNodeWithOffset;
import org.hl7.fhir.r4.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.Utilities;
public class LiquidEngine implements IEvaluationContext {

2
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/NarrativeGenerator.java
View File

@ -54,6 +54,7 @@ import org.hl7.fhir.r4.conformance.ProfileUtilities;
import org.hl7.fhir.r4.conformance.ProfileUtilities.ProfileKnowledgeProvider;
import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.formats.FormatUtilities;
import org.hl7.fhir.r4.formats.IParser.OutputStyle;
import org.hl7.fhir.r4.formats.XmlParser;
@ -154,7 +155,6 @@ import org.hl7.fhir.r4.model.ValueSet.ValueSetExpansionContainsComponent;
import org.hl7.fhir.r4.model.ValueSet.ValueSetExpansionParameterComponent;
import org.hl7.fhir.r4.terminologies.CodeSystemUtilities;
import org.hl7.fhir.r4.terminologies.ValueSetExpander.ValueSetExpansionOutcome;
import org.hl7.fhir.r4.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.utils.LiquidEngine.LiquidDocument;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.FhirPublication;

16
org.hl7.fhir.r4/src/main/java/org/hl7/fhir/r4/utils/StructureMapUtilities.java
View File

@ -53,6 +53,15 @@ import org.hl7.fhir.r4.context.IWorkerContext;
import org.hl7.fhir.r4.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.r4.elementmodel.Element;
import org.hl7.fhir.r4.elementmodel.Property;
import org.hl7.fhir.r4.fhirpath.ExpressionNode;
import org.hl7.fhir.r4.fhirpath.FHIRLexer;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.fhirpath.TypeDetails;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.r4.model.Base;
import org.hl7.fhir.r4.model.BooleanType;
import org.hl7.fhir.r4.model.CanonicalType;
@ -75,8 +84,6 @@ import org.hl7.fhir.r4.model.Enumeration;
import org.hl7.fhir.r4.model.Enumerations.ConceptMapEquivalence;
import org.hl7.fhir.r4.model.Enumerations.FHIRVersion;
import org.hl7.fhir.r4.model.Enumerations.PublicationStatus;
import org.hl7.fhir.r4.model.ExpressionNode;
import org.hl7.fhir.r4.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.model.IdType;
import org.hl7.fhir.r4.model.IntegerType;
import org.hl7.fhir.r4.model.Narrative;
@ -106,15 +113,10 @@ import org.hl7.fhir.r4.model.StructureMap.StructureMapStructureComponent;
import org.hl7.fhir.r4.model.StructureMap.StructureMapTargetListMode;
import org.hl7.fhir.r4.model.StructureMap.StructureMapTransform;
import org.hl7.fhir.r4.model.Type;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.model.TypeDetails.ProfiledType;
import org.hl7.fhir.r4.model.UriType;
import org.hl7.fhir.r4.model.ValueSet;
import org.hl7.fhir.r4.model.ValueSet.ValueSetExpansionContainsComponent;
import org.hl7.fhir.r4.terminologies.ValueSetExpander.ValueSetExpansionOutcome;
import org.hl7.fhir.r4.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4.utils.validation.IResourceValidator;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.FhirPublication;

3
org.hl7.fhir.r4/src/test/java/org/hl7/fhir/r4/ips/IpsBuilderTest.java
View File

@ -11,12 +11,15 @@ import org.hl7.fhir.r4.model.Base64BinaryType;
import org.hl7.fhir.r4.model.Bundle;
import org.hl7.fhir.r4.utils.client.FHIRToolingClient;
import org.hl7.fhir.utilities.Utilities;
import org.junit.jupiter.api.Disabled;
import org.junit.jupiter.api.DisplayName;
import org.junit.jupiter.api.Tag;
import org.junit.jupiter.api.Test;
public class IpsBuilderTest {
@Test
@Tag("excludedInSurefire")
@DisplayName("Test IPS Generation")
void testIpsGeneration() throws URISyntaxException, FileNotFoundException, IOException {
FHIRToolingClient server = new FHIRToolingClient("https://hl7auconnectathon.salessbx.smiledigitalhealth.com/fhir-request", "FHIR-Validator");

10
org.hl7.fhir.r4/src/test/java/org/hl7/fhir/r4/test/FHIRPathTests.java
View File

@ -18,23 +18,23 @@ import org.apache.commons.lang3.NotImplementedException;
import org.fhir.ucum.UcumException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4.fhirpath.ExpressionNode;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.fhirpath.TypeDetails;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
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.ExpressionNode;
import org.hl7.fhir.r4.model.IdType;
import org.hl7.fhir.r4.model.Patient;
import org.hl7.fhir.r4.model.PrimitiveType;
import org.hl7.fhir.r4.model.Quantity;
import org.hl7.fhir.r4.model.Resource;
import org.hl7.fhir.r4.model.StringType;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.model.ValueSet;
import org.hl7.fhir.r4.test.utils.TestingUtilities;
import org.hl7.fhir.r4.utils.FHIRPathEngine;
import org.hl7.fhir.r4.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.xml.XMLUtil;
import org.junit.jupiter.api.Assertions;

10
org.hl7.fhir.r4/src/test/java/org/hl7/fhir/r4/test/SnapShotGenerationTests.java
View File

@ -18,22 +18,22 @@ import org.hl7.fhir.exceptions.FHIRFormatError;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4.conformance.ProfileUtilities;
import org.hl7.fhir.r4.conformance.ProfileUtilities.ProfileKnowledgeProvider;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4.fhirpath.TypeDetails;
import org.hl7.fhir.r4.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
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.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.r4.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4.model.Resource;
import org.hl7.fhir.r4.model.StructureDefinition;
import org.hl7.fhir.r4.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r4.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r4.model.TypeDetails;
import org.hl7.fhir.r4.model.ValueSet;
import org.hl7.fhir.r4.test.utils.TestingUtilities;
import org.hl7.fhir.r4.utils.FHIRPathEngine;
import org.hl7.fhir.r4.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4.utils.NarrativeGenerator;
import org.hl7.fhir.r4.utils.validation.IResourceValidator;
import org.hl7.fhir.utilities.Utilities;

4
org.hl7.fhir.r4b/pom.xml
View File

@ -149,12 +149,12 @@
<scope>test</scope>
</dependency>
<dependency>
<groupId>com.atlassian.commonmark</groupId>
<groupId>org.commonmark</groupId>
<artifactId>commonmark</artifactId>
<scope>test</scope>
</dependency>
<dependency>
<groupId>com.atlassian.commonmark</groupId>
<groupId>org.commonmark</groupId>
<artifactId>commonmark-ext-gfm-tables</artifactId>
<scope>test</scope>
</dependency>

11
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/comparison/ComparisonRenderer.java
View File

@ -14,7 +14,6 @@ import java.util.Set;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.comparison.CodeSystemComparer.CodeSystemComparison;
import org.hl7.fhir.r4b.comparison.ProfileComparer.ProfileComparison;
import org.hl7.fhir.r4b.comparison.ResourceComparer.PlaceHolderComparison;
@ -23,16 +22,16 @@ import org.hl7.fhir.r4b.comparison.ValueSetComparer.ValueSetComparison;
import org.hl7.fhir.r4b.conformance.ProfileUtilities;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.formats.IParser.OutputStyle;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.model.StringType;
import org.hl7.fhir.r4b.model.Tuple;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.model.ValueSet;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.utils.LiquidEngine;
import org.hl7.fhir.r4b.utils.LiquidEngine.LiquidDocument;
import org.hl7.fhir.utilities.TextFile;

10
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/conformance/ProfileUtilities.java
View File

@ -55,6 +55,11 @@ import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.r4b.elementmodel.ObjectConverter;
import org.hl7.fhir.r4b.elementmodel.Property;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRLexer;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.Kind;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.Operation;
import org.hl7.fhir.r4b.formats.IParser;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.BooleanType;
@ -81,9 +86,6 @@ import org.hl7.fhir.r4b.model.Enumeration;
import org.hl7.fhir.r4b.model.Enumerations.BindingStrength;
import org.hl7.fhir.r4b.model.Enumerations.FHIRVersion;
import org.hl7.fhir.r4b.model.Enumerations.PublicationStatus;
import org.hl7.fhir.r4b.model.ExpressionNode;
import org.hl7.fhir.r4b.model.ExpressionNode.Kind;
import org.hl7.fhir.r4b.model.ExpressionNode.Operation;
import org.hl7.fhir.r4b.model.Extension;
import org.hl7.fhir.r4b.model.IdType;
import org.hl7.fhir.r4b.model.IntegerType;
@ -107,8 +109,6 @@ import org.hl7.fhir.r4b.renderers.TerminologyRenderer;
import org.hl7.fhir.r4b.renderers.spreadsheets.SpreadsheetGenerator;
import org.hl7.fhir.r4b.renderers.utils.RenderingContext;
import org.hl7.fhir.r4b.terminologies.ValueSetExpander.ValueSetExpansionOutcome;
import org.hl7.fhir.r4b.utils.FHIRLexer;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.utils.PublicationHacker;
import org.hl7.fhir.r4b.utils.ToolingExtensions;
import org.hl7.fhir.r4b.utils.TranslatingUtilities;

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/elementmodel/JsonParser.java
View File

@ -47,12 +47,12 @@ import org.hl7.fhir.exceptions.FHIRFormatError;
import org.hl7.fhir.r4b.conformance.ProfileUtilities;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.elementmodel.Element.SpecialElement;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.formats.IParser.OutputStyle;
import org.hl7.fhir.r4b.formats.JsonCreator;
import org.hl7.fhir.r4b.formats.JsonCreatorCanonical;
import org.hl7.fhir.r4b.formats.JsonCreatorGson;
import org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.model.StructureDefinition;
import org.hl7.fhir.utilities.StringPair;
import org.hl7.fhir.utilities.TextFile;

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/elementmodel/Property.java
View File

@ -36,13 +36,13 @@ import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4b.conformance.ProfileUtilities;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.formats.FormatUtilities;
import org.hl7.fhir.r4b.model.ElementDefinition;
import org.hl7.fhir.r4b.model.ElementDefinition.PropertyRepresentation;
import org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4b.model.StructureDefinition;
import org.hl7.fhir.r4b.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.utils.ToolingExtensions;
import org.hl7.fhir.r4b.utils.TypesUtilities;
import org.hl7.fhir.utilities.Utilities;

5
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/model/ExpressionNode.java → org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/fhirpath/ExpressionNode.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4b.model;
package org.hl7.fhir.r4b.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -32,6 +32,9 @@ package org.hl7.fhir.r4b.model;
import java.util.ArrayList;
import java.util.List;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.Quantity;
import org.hl7.fhir.r4b.model.StringType;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.Utilities;

35
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/FHIRLexer.java → org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/fhirpath/FHIRLexer.java
View File

@ -1,42 +1,9 @@
package org.hl7.fhir.r4b.utils;
package org.hl7.fhir.r4b.fhirpath;
import java.util.ArrayList;
import java.util.List;
import java.util.StringJoiner;
import org.apache.poi.xssf.model.Comments;
import org.hl7.fhir.exceptions.FHIRException;
/*
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
list of conditions and the following disclaimer.
* 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
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.
IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT,
INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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.
*/
import org.hl7.fhir.r4b.model.ExpressionNode;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.Utilities;

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/FHIRPathConstant.java → org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/fhirpath/FHIRPathConstant.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r5.utils;
package org.hl7.fhir.r4b.fhirpath;
import org.hl7.fhir.utilities.Utilities;

28
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/FHIRPathEngine.java → org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/fhirpath/FHIRPathEngine.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4b.utils;
package org.hl7.fhir.r4b.fhirpath;
import java.math.BigDecimal;
import java.math.RoundingMode;
@ -26,6 +26,16 @@ import org.hl7.fhir.instance.model.api.IIdType;
import org.hl7.fhir.r4b.conformance.ProfileUtilities;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.Function;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.Kind;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.Operation;
import org.hl7.fhir.r4b.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.ClassTypeInfo;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FHIRConstant;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.TypedElementDefinition;
import org.hl7.fhir.r4b.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.BaseDateTimeType;
import org.hl7.fhir.r4b.model.BooleanType;
@ -37,14 +47,9 @@ import org.hl7.fhir.r4b.model.DecimalType;
import org.hl7.fhir.r4b.model.Element;
import org.hl7.fhir.r4b.model.ElementDefinition;
import org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4b.model.ExpressionNode;
import org.hl7.fhir.r4b.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.model.ExpressionNode.Function;
import org.hl7.fhir.r4b.model.ExpressionNode.Kind;
import org.hl7.fhir.r4b.model.ExpressionNode.Operation;
import org.hl7.fhir.r4b.model.Property.PropertyMatcher;
import org.hl7.fhir.r4b.model.IntegerType;
import org.hl7.fhir.r4b.model.Property;
import org.hl7.fhir.r4b.model.Property.PropertyMatcher;
import org.hl7.fhir.r4b.model.Quantity;
import org.hl7.fhir.r4b.model.Resource;
import org.hl7.fhir.r4b.model.StringType;
@ -53,14 +58,7 @@ import org.hl7.fhir.r4b.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r4b.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r4b.model.TimeType;
import org.hl7.fhir.r4b.model.TypeConvertor;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.model.TypeDetails.ProfiledType;
import org.hl7.fhir.r4b.model.ValueSet;
import org.hl7.fhir.r4b.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FHIRConstant;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.ClassTypeInfo;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.TypedElementDefinition;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.FhirPublication;
import org.hl7.fhir.utilities.MergedList;
@ -4534,7 +4532,7 @@ public class FHIRPathEngine {
return false;
}
for (String an : node.getAttributes().keySet()) {
boolean ok = an.startsWith("xmlns") || Utilities.existsInList(an, "title", "style", "class", "id", "lang",
boolean ok = an.startsWith("xmlns") || Utilities.existsInList(an, "title", "style", "class", "id", "idref", "lang",
"xml:lang", "dir", "accesskey", "tabindex",
// tables
"span", "width", "align", "valign", "char", "charoff", "abbr", "axis", "headers", "scope", "rowspan",

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/FHIRPathUtilityClasses.java → org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/fhirpath/FHIRPathUtilityClasses.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4b.utils;
package org.hl7.fhir.r4b.fhirpath;
import java.util.ArrayList;
import java.util.List;

7
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/model/TypeDetails.java → org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/fhirpath/TypeDetails.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4b.model;
package org.hl7.fhir.r4b.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -38,8 +38,11 @@ import java.util.Set;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.model.CanonicalType;
import org.hl7.fhir.r4b.model.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.r4b.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.model.StructureDefinition;
import org.hl7.fhir.r4b.model.UriType;
import org.hl7.fhir.utilities.Utilities;
public class TypeDetails {

3
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/model/ProfilingWrapper.java
View File

@ -31,7 +31,8 @@ package org.hl7.fhir.r4b.model;
import java.util.Map;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
/**
* This class is the base class for Profile classes - whether generated or

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/renderers/utils/RenderingContext.java
View File

@ -15,12 +15,12 @@ import org.hl7.fhir.exceptions.FHIRFormatError;
import org.hl7.fhir.r4b.conformance.ProfileUtilities;
import org.hl7.fhir.r4b.conformance.ProfileUtilities.ProfileKnowledgeProvider;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.DomainResource;
import org.hl7.fhir.r4b.model.Enumerations.FHIRVersion;
import org.hl7.fhir.r4b.renderers.utils.Resolver.IReferenceResolver;
import org.hl7.fhir.r4b.renderers.utils.Resolver.ResourceContext;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.utilities.FhirPublication;
import org.hl7.fhir.utilities.MarkDownProcessor;
import org.hl7.fhir.utilities.MarkDownProcessor.Dialect;

3
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/GraphDefinitionEngine.java
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@ -10,10 +10,11 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.Bundle;
import org.hl7.fhir.r4b.model.Expression;
import org.hl7.fhir.r4b.model.ExpressionNode;
import org.hl7.fhir.r4b.model.Bundle.BundleEntryComponent;
import org.hl7.fhir.r4b.model.GraphDefinition;
import org.hl7.fhir.r4b.model.GraphDefinition.GraphDefinitionLinkComponent;

3
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/GraphQLEngine.java
View File

@ -39,6 +39,8 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.IBaseResource;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.model.BackboneElement;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.Bundle;
@ -47,7 +49,6 @@ import org.hl7.fhir.r4b.model.Bundle.BundleLinkComponent;
import org.hl7.fhir.r4b.model.CanonicalType;
import org.hl7.fhir.r4b.model.DomainResource;
import org.hl7.fhir.r4b.model.Element;
import org.hl7.fhir.r4b.model.ExpressionNode;
import org.hl7.fhir.r4b.model.IntegerType;
import org.hl7.fhir.r4b.model.Property;
import org.hl7.fhir.r4b.model.Reference;

12
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/LiquidEngine.java
View File

@ -41,15 +41,17 @@ import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.FHIRFormatError;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRLexer;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.ExpressionNodeWithOffset;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.ExpressionNode;
import org.hl7.fhir.r4b.model.Resource;
import org.hl7.fhir.r4b.model.Tuple;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.model.ValueSet;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.ExpressionNodeWithOffset;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.i18n.I18nConstants;
import org.hl7.fhir.utilities.xhtml.NodeType;

6
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/structuremap/FHIRPathHostServices.java
View File

@ -4,12 +4,12 @@ import org.apache.commons.lang3.NotImplementedException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4b.elementmodel.Element;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.Resource;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.model.ValueSet;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.utils.validation.IResourceValidator;
import org.hl7.fhir.utilities.validation.ValidationMessage;

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/structuremap/PropertyWithType.java
View File

@ -1,7 +1,7 @@
package org.hl7.fhir.r4b.utils.structuremap;
import org.hl7.fhir.r4b.elementmodel.Property;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
public class PropertyWithType {
private String path;

16
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/structuremap/StructureMapUtilities.java
View File

@ -44,6 +44,15 @@ import org.hl7.fhir.r4b.context.IWorkerContext;
import org.hl7.fhir.r4b.context.IWorkerContext.ValidationResult;
import org.hl7.fhir.r4b.elementmodel.Element;
import org.hl7.fhir.r4b.elementmodel.Property;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRLexer;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.r4b.model.*;
import org.hl7.fhir.r4b.model.ConceptMap.ConceptMapEquivalence;
import org.hl7.fhir.r4b.model.ConceptMap.ConceptMapGroupComponent;
@ -55,20 +64,13 @@ import org.hl7.fhir.r4b.model.Enumeration;
import org.hl7.fhir.r4b.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r4b.model.Enumerations.FHIRVersion;
import org.hl7.fhir.r4b.model.Enumerations.PublicationStatus;
import org.hl7.fhir.r4b.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.model.Narrative.NarrativeStatus;
import org.hl7.fhir.r4b.model.StructureDefinition.StructureDefinitionMappingComponent;
import org.hl7.fhir.r4b.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r4b.model.StructureMap.*;
import org.hl7.fhir.r4b.model.TypeDetails.ProfiledType;
import org.hl7.fhir.r4b.model.ValueSet.ValueSetExpansionContainsComponent;
import org.hl7.fhir.r4b.renderers.TerminologyRenderer;
import org.hl7.fhir.r4b.terminologies.ValueSetExpander.ValueSetExpansionOutcome;
import org.hl7.fhir.r4b.utils.FHIRLexer;
import org.hl7.fhir.r4b.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.utils.ToolingExtensions;
import org.hl7.fhir.r4b.utils.validation.IResourceValidator;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/structuremap/VariablesForProfiling.java
View File

@ -1,7 +1,7 @@
package org.hl7.fhir.r4b.utils.structuremap;
import org.hl7.fhir.r4b.elementmodel.Property;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import java.util.ArrayList;

8
org.hl7.fhir.r4b/src/test/java/org/hl7/fhir/r4b/test/FHIRPathTests.java
View File

@ -11,14 +11,16 @@ import org.apache.commons.lang3.NotImplementedException;
import org.fhir.ucum.UcumException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.formats.JsonParser;
import org.hl7.fhir.r4b.formats.XmlParser;
import org.hl7.fhir.r4b.model.*;
import org.hl7.fhir.r4b.test.FHIRPathTests.TestResultType;
import org.hl7.fhir.r4b.test.utils.TestingUtilities;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.xml.XMLUtil;
import org.junit.jupiter.api.Assertions;

10
org.hl7.fhir.r4b/src/test/java/org/hl7/fhir/r4b/test/SnapShotGenerationTests.java
View File

@ -20,13 +20,17 @@ import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r4b.conformance.ProfileUtilities;
import org.hl7.fhir.r4b.conformance.ProfileUtilities.ProfileKnowledgeProvider;
import org.hl7.fhir.r4b.context.IWorkerContext.IContextResourceLoader;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.fhirpath.TypeDetails;
import org.hl7.fhir.r4b.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.formats.IParser.OutputStyle;
import org.hl7.fhir.r4b.formats.JsonParser;
import org.hl7.fhir.r4b.formats.XmlParser;
import org.hl7.fhir.r4b.model.Base;
import org.hl7.fhir.r4b.model.Bundle;
import org.hl7.fhir.r4b.model.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.r4b.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r4b.model.Resource;
import org.hl7.fhir.r4b.model.StructureDefinition;
import org.hl7.fhir.r4b.model.StructureDefinition.StructureDefinitionKind;
@ -34,12 +38,8 @@ import org.hl7.fhir.r4b.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r4b.renderers.RendererFactory;
import org.hl7.fhir.r4b.renderers.utils.RenderingContext;
import org.hl7.fhir.r4b.renderers.utils.RenderingContext.ResourceRendererMode;
import org.hl7.fhir.r4b.model.TypeDetails;
import org.hl7.fhir.r4b.model.ValueSet;
import org.hl7.fhir.r4b.test.utils.TestingUtilities;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.r4b.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r4b.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r4b.utils.validation.IResourceValidator;
import org.hl7.fhir.r4b.utils.XVerExtensionManager;
import org.hl7.fhir.utilities.Utilities;

2
org.hl7.fhir.r4b/src/test/java/org/hl7/fhir/r4b/test/XmlParserTests.java
View File

@ -7,10 +7,10 @@ import org.hl7.fhir.r4b.context.SimpleWorkerContext;
import org.hl7.fhir.r4b.elementmodel.Element;
import org.hl7.fhir.r4b.elementmodel.Manager;
import org.hl7.fhir.r4b.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r4b.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r4b.formats.IParser.OutputStyle;
import org.hl7.fhir.r4b.model.StructureDefinition;
import org.hl7.fhir.r4b.test.utils.TestingUtilities;
import org.hl7.fhir.r4b.utils.FHIRPathEngine;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager;
import org.hl7.fhir.utilities.npm.ToolsVersion;
import org.junit.jupiter.api.Assertions;

2
org.hl7.fhir.r4b/src/test/java/org/hl7/fhir/r4b/utils/FHIRLexerTest.java
View File

@ -6,6 +6,8 @@ import org.junit.jupiter.api.Test;
import static org.junit.jupiter.api.Assertions.*;
import org.hl7.fhir.r4b.fhirpath.FHIRLexer;
class FHIRLexerTest {
@Test
@DisplayName("Test that a 'null' current value returns 'false' when FHIRLexer.isConstant() is called, and not NPE.")

4
org.hl7.fhir.r5/pom.xml
View File

@ -145,12 +145,12 @@
</dependency>
<dependency>
<groupId>com.atlassian.commonmark</groupId>
<groupId>org.commonmark</groupId>
<artifactId>commonmark</artifactId>
<scope>test</scope>
</dependency>
<dependency>
<groupId>com.atlassian.commonmark</groupId>
<groupId>org.commonmark</groupId>
<artifactId>commonmark-ext-gfm-tables</artifactId>
<scope>test</scope>
</dependency>

10
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/comparison/ComparisonRenderer.java
View File

@ -14,7 +14,6 @@ import java.util.Set;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.comparison.CapabilityStatementComparer.CapabilityStatementComparison;
import org.hl7.fhir.r5.comparison.CodeSystemComparer.CodeSystemComparison;
import org.hl7.fhir.r5.comparison.ResourceComparer.PlaceHolderComparison;
@ -23,15 +22,16 @@ import org.hl7.fhir.r5.comparison.StructureDefinitionComparer.ProfileComparison;
import org.hl7.fhir.r5.comparison.ValueSetComparer.ValueSetComparison;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.StringType;
import org.hl7.fhir.r5.model.Tuple;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.ValueSet;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.utils.LiquidEngine;
import org.hl7.fhir.r5.utils.LiquidEngine.LiquidDocument;
import org.hl7.fhir.utilities.FhirPublication;

3
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/conformance/ShExGenerator.java
View File

@ -40,9 +40,10 @@ import org.apache.commons.lang3.tuple.ImmutablePair;
import org.apache.commons.lang3.tuple.Pair;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.model.*;
import org.hl7.fhir.r5.terminologies.expansion.ValueSetExpansionOutcome;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.stringtemplate.v4.ST;
public class ShExGenerator {

8
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/conformance/profile/ProfileUtilities.java
View File

@ -53,6 +53,10 @@ import org.hl7.fhir.r5.conformance.profile.ProfileUtilities.ElementDefinitionCou
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.elementmodel.ObjectConverter;
import org.hl7.fhir.r5.elementmodel.Property;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.Kind;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.Operation;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.BooleanType;
import org.hl7.fhir.r5.model.CanonicalType;
@ -74,9 +78,6 @@ import org.hl7.fhir.r5.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r5.model.Enumerations.BindingStrength;
import org.hl7.fhir.r5.model.Enumerations.FHIRVersion;
import org.hl7.fhir.r5.model.Enumerations.PublicationStatus;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.ExpressionNode.Kind;
import org.hl7.fhir.r5.model.ExpressionNode.Operation;
import org.hl7.fhir.r5.model.Extension;
import org.hl7.fhir.r5.model.IdType;
import org.hl7.fhir.r5.model.MarkdownType;
@ -97,7 +98,6 @@ import org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionComponent;
import org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionContainsComponent;
import org.hl7.fhir.r5.terminologies.expansion.ValueSetExpansionOutcome;
import org.hl7.fhir.r5.terminologies.utilities.ValidationResult;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.ToolingExtensions;
import org.hl7.fhir.r5.utils.TranslatingUtilities;
import org.hl7.fhir.r5.utils.XVerExtensionManager;

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/context/BaseWorkerContext.java
View File

@ -1333,7 +1333,7 @@ public abstract class BaseWorkerContext extends I18nBase implements IWorkerConte
}
String csumm =cachingAllowed && txCache != null ? txCache.summary(code) : null;
if (cachingAllowed && txCache != null) {
txLog("$validate "+csumm+" for "+ txCache.summary(vs));
txLog("$validate "+csumm+(vs == null ? "" : " for "+ txCache.summary(vs)));
} else {
txLog("$validate "+csumm+" before cache exists");
}

8
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/FmlParser.java
View File

@ -14,17 +14,17 @@ import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.FHIRFormatError;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element.SpecialElement;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRLexer;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.model.ConceptMap.ConceptMapGroupUnmappedMode;
import org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship;
import org.hl7.fhir.r5.model.Enumerations.PublicationStatus;
import org.hl7.fhir.r5.model.StructureMap.StructureMapGroupTypeMode;
import org.hl7.fhir.r5.model.StructureMap.StructureMapTransform;
import org.hl7.fhir.r5.utils.FHIRLexer;
import org.hl7.fhir.r5.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.structuremap.StructureMapUtilities;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.TextFile;

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

@ -54,6 +54,7 @@ import org.hl7.fhir.r5.context.ContextUtilities;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element.SpecialElement;
import org.hl7.fhir.r5.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.formats.JsonCreator;
import org.hl7.fhir.r5.formats.JsonCreatorCanonical;
@ -61,7 +62,6 @@ import org.hl7.fhir.r5.formats.JsonCreatorDirect;
import org.hl7.fhir.r5.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r5.model.ElementDefinition;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.StringPair;
import org.hl7.fhir.utilities.TextFile;

46
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/Property.java
View File

@ -39,14 +39,15 @@ import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities.SourcedChildDefinitions;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.formats.FormatUtilities;
import org.hl7.fhir.r5.model.Constants;
import org.hl7.fhir.r5.model.ElementDefinition;
import org.hl7.fhir.r5.model.ElementDefinition.PropertyRepresentation;
import org.hl7.fhir.r5.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r5.model.Extension;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.utils.ToolingExtensions;
import org.hl7.fhir.r5.utils.TypesUtilities;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
@ -345,12 +346,13 @@ public class Property {
}
ElementDefinition ed = definition;
StructureDefinition sd = structure;
boolean isCDA = isCDAElement(structure);
SourcedChildDefinitions children = profileUtilities.getChildMap(sd, ed);
String url = null;
if (children.getList().isEmpty() || isElementWithOnlyExtension(ed, children.getList())) {
// ok, find the right definitions
String t = null;
if (ed.getType().size() == 1)
if (ed.getType().size() == 1 && (statedType == null || !isCDA))
t = ed.getType().get(0).getWorkingCode();
else if (ed.getType().size() == 0)
throw new Error("types == 0, and no children found on "+getDefinition().getPath());
@ -363,9 +365,9 @@ public class Property {
break;
}
}
if (!all) {
if (!all || (isCDA && statedType != null)) {
// ok, it's polymorphic
if (ed.hasRepresentation(PropertyRepresentation.TYPEATTR)) {
if (ed.hasRepresentation(PropertyRepresentation.TYPEATTR) || isCDA) {
t = statedType;
if (t == null && ToolingExtensions.hasExtension(ed, "http://hl7.org/fhir/StructureDefinition/elementdefinition-defaulttype"))
t = ToolingExtensions.readStringExtension(ed, "http://hl7.org/fhir/StructureDefinition/elementdefinition-defaulttype");
@ -379,13 +381,21 @@ public class Property {
url = tr.getWorkingCode();
ok = true;
}
if (!ok) {
sdt = findAncestor(t, sdt);
if (sdt != null) {
url = sdt.getUrl();
ok = true;
}
}
}
if (ok)
if (ok) {
break;
}
}
if (!ok) {
throw new DefinitionException("Type '"+t+"' is not an acceptable type for '"+elementName+"' on property "+definition.getPath());
}
if (!ok)
throw new DefinitionException("Type '"+t+"' is not an acceptable type for '"+elementName+"' on property "+definition.getPath());
} else {
t = elementName.substring(tail(ed.getPath()).length() - 3);
if (isPrimitive(lowFirst(t)))
@ -421,6 +431,26 @@ public class Property {
return properties;
}
private StructureDefinition findAncestor(String type, StructureDefinition sdt) {
if (sdt != null) {
StructureDefinition sd = context.fetchTypeDefinition(type);
StructureDefinition t = sd;
while (t != null) {
if (t == sdt) {
return sd;
}
t = context.fetchResource(StructureDefinition.class, t.getBaseDefinition());
}
}
return null;
}
private boolean isCDAElement(StructureDefinition sd) {
return sd.hasUrl() && sd.getUrl().startsWith(Constants.NS_CDA_ROOT);
}
protected List<Property> getChildProperties(TypeDetails type) throws DefinitionException {
ElementDefinition ed = definition;
StructureDefinition sd = structure;

42
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/elementmodel/XmlParser.java
View File

@ -60,6 +60,7 @@ import org.hl7.fhir.r5.elementmodel.Element.SpecialElement;
import org.hl7.fhir.r5.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r5.formats.FormatUtilities;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.model.Constants;
import org.hl7.fhir.r5.model.DateTimeType;
import org.hl7.fhir.r5.model.ElementDefinition;
import org.hl7.fhir.r5.model.ElementDefinition.PropertyRepresentation;
@ -232,7 +233,7 @@ public class XmlParser extends ParserBase {
Element result = new Element(element.getLocalName(), new Property(context, sd.getSnapshot().getElement().get(0), sd)).setFormat(FhirFormat.XML);
result.setPath(element.getLocalName());
checkElement(errors, element, path, result.getProperty(), false);
checkElement(errors, element, result, path, result.getProperty(), false);
result.markLocation(line(element, false), col(element, false));
result.setType(element.getLocalName());
parseChildren(errors, path, element, result);
@ -274,7 +275,7 @@ public class XmlParser extends ParserBase {
return true;
}
private void checkElement(List<ValidationMessage> errors, org.w3c.dom.Element element, String path, Property prop, boolean xsiTypeChecked) throws FHIRFormatError {
private void checkElement(List<ValidationMessage> errors, org.w3c.dom.Element element, Element e, String path, Property prop, boolean xsiTypeChecked) throws FHIRFormatError {
if (policy == ValidationPolicy.EVERYTHING) {
if (empty(element) && FormatUtilities.FHIR_NS.equals(element.getNamespaceURI())) // this rule only applies to FHIR Content
logError(errors, ValidationMessage.NO_RULE_DATE, line(element, false), col(element, false), path, IssueType.INVALID, context.formatMessage(I18nConstants.ELEMENT_MUST_HAVE_SOME_CONTENT), IssueSeverity.ERROR);
@ -290,22 +291,40 @@ public class XmlParser extends ParserBase {
String xsiType = element.getAttributeNS(FormatUtilities.NS_XSI, "type");
if (!Utilities.noString(xsiType)) {
String actualType = prop.getXmlTypeName();
if (!xsiType.equals(actualType)) {
logError(errors, "2023-10-12", line(element, false), col(element, false), path, IssueType.INVALID, context.formatMessage(I18nConstants.XSI_TYPE_WRONG, xsiType, actualType), IssueSeverity.ERROR);
} else {
if (xsiType.equals(actualType)) {
logError(errors, "2023-10-12", line(element, false), col(element, false), path, IssueType.INVALID, context.formatMessage(I18nConstants.XSI_TYPE_UNNECESSARY), IssueSeverity.INFORMATION);
}
} else {
StructureDefinition sd = findLegalConstraint(xsiType, actualType);
if (sd != null) {
e.setType(sd.getType());
e.setExplicitType(xsiType);
} else {
logError(errors, "2023-10-12", line(element, false), col(element, false), path, IssueType.INVALID, context.formatMessage(I18nConstants.XSI_TYPE_WRONG, xsiType, actualType), IssueSeverity.ERROR);
}
}
}
}
}
}
private StructureDefinition findLegalConstraint(String xsiType, String actualType) {
StructureDefinition sdA = context.fetchTypeDefinition(actualType);
StructureDefinition sd = context.fetchTypeDefinition(xsiType);
while (sd != null) {
if (sd == sdA) {
return sd;
}
sd = context.fetchResource(StructureDefinition.class, sd.getBaseDefinition());
}
return null;
}
public Element parse(List<ValidationMessage> errors, org.w3c.dom.Element base, String type) throws Exception {
StructureDefinition sd = getDefinition(errors, 0, 0, FormatUtilities.FHIR_NS, type);
Element result = new Element(base.getLocalName(), new Property(context, sd.getSnapshot().getElement().get(0), sd)).setFormat(FhirFormat.XML).setNativeObject(base);
result.setPath(base.getLocalName());
String path = "/"+pathPrefix(base.getNamespaceURI())+base.getLocalName();
checkElement(errors, base, path, result.getProperty(), false);
checkElement(errors, base, result, path, result.getProperty(), false);
result.setType(base.getLocalName());
parseChildren(errors, path, base, result);
result.numberChildren();
@ -469,7 +488,7 @@ public class XmlParser extends ParserBase {
} else
n.setType(n.getType());
}
checkElement(errors, (org.w3c.dom.Element) child, npath, n.getProperty(), xsiTypeChecked);
checkElement(errors, (org.w3c.dom.Element) child, n, npath, n.getProperty(), xsiTypeChecked);
element.getChildren().add(n);
if (ok) {
if (property.isResource())
@ -500,7 +519,7 @@ public class XmlParser extends ParserBase {
Element n = new Element(name, property).markLocation(line(child, false), col(child, false)).setFormat(FhirFormat.XML).setNativeObject(child);
cgn.getChildren().add(n);
n.setPath(element.getPath()+"."+property.getName());
checkElement(errors, (org.w3c.dom.Element) child, npath, n.getProperty(), false);
checkElement(errors, (org.w3c.dom.Element) child, n, npath, n.getProperty(), false);
parseChildren(errors, npath, (org.w3c.dom.Element) child, n);
}
}
@ -749,6 +768,11 @@ public class XmlParser extends ParserBase {
if (hasTypeAttr(c))
return true;
}
// xsi_type is always allowed on CDA elements. right now, I'm not sure where to indicate this in the model,
// so it's just hardcoded here
if (e.getType() != null && e.getType().startsWith(Constants.NS_CDA_ROOT)) {
return true;
}
return false;
}

5
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/model/ExpressionNode.java → org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/fhirpath/ExpressionNode.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r5.model;
package org.hl7.fhir.r5.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -34,6 +34,9 @@ package org.hl7.fhir.r5.model;
import java.util.ArrayList;
import java.util.List;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.Quantity;
import org.hl7.fhir.r5.model.StringType;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.Utilities;

35
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/FHIRLexer.java → org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/fhirpath/FHIRLexer.java
View File

@ -1,42 +1,9 @@
package org.hl7.fhir.r5.utils;
package org.hl7.fhir.r5.fhirpath;
import java.util.ArrayList;
import java.util.List;
import org.hl7.fhir.exceptions.FHIRException;
/*
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
list of conditions and the following disclaimer.
* 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
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.
IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT,
INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT
NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
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.
*/
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.SourceLocation;
import org.hl7.fhir.utilities.Utilities;

2
org.hl7.fhir.r4b/src/main/java/org/hl7/fhir/r4b/utils/FHIRPathConstant.java → org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/fhirpath/FHIRPathConstant.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r4b.utils;
package org.hl7.fhir.r5.fhirpath;
import org.hl7.fhir.utilities.Utilities;

31
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/FHIRPathEngine.java → org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/fhirpath/FHIRPathEngine.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r5.utils;
package org.hl7.fhir.r5.fhirpath;
import java.math.BigDecimal;
import java.math.RoundingMode;
@ -16,7 +16,6 @@ import java.util.Set;
import java.util.regex.Matcher;
import java.util.regex.Pattern;
import org.apache.commons.lang3.StringUtils;
import org.fhir.ucum.Decimal;
import org.fhir.ucum.Pair;
import org.fhir.ucum.UcumException;
@ -28,6 +27,16 @@ import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities.SourcedChildDefinitions;
import org.hl7.fhir.r5.context.ContextUtilities;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.Function;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.Kind;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.Operation;
import org.hl7.fhir.r5.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.ClassTypeInfo;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FHIRConstant;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.TypedElementDefinition;
import org.hl7.fhir.r5.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.BaseDateTimeType;
import org.hl7.fhir.r5.model.BooleanType;
@ -41,11 +50,6 @@ import org.hl7.fhir.r5.model.DecimalType;
import org.hl7.fhir.r5.model.Element;
import org.hl7.fhir.r5.model.ElementDefinition;
import org.hl7.fhir.r5.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.ExpressionNode.Function;
import org.hl7.fhir.r5.model.ExpressionNode.Kind;
import org.hl7.fhir.r5.model.ExpressionNode.Operation;
import org.hl7.fhir.r5.model.Identifier;
import org.hl7.fhir.r5.model.IntegerType;
import org.hl7.fhir.r5.model.Property;
@ -58,16 +62,8 @@ import org.hl7.fhir.r5.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r5.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r5.model.TimeType;
import org.hl7.fhir.r5.model.TypeConvertor;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.TypeDetails.ProfiledType;
import org.hl7.fhir.r5.terminologies.utilities.ValidationResult;
import org.hl7.fhir.r5.model.ValueSet;
import org.hl7.fhir.r5.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IssueMessage;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FHIRConstant;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.ClassTypeInfo;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.TypedElementDefinition;
import org.hl7.fhir.r5.terminologies.utilities.ValidationResult;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.FhirPublication;
import org.hl7.fhir.utilities.MarkDownProcessor;
@ -81,7 +77,6 @@ import org.hl7.fhir.utilities.validation.ValidationOptions;
import org.hl7.fhir.utilities.xhtml.NodeType;
import org.hl7.fhir.utilities.xhtml.XhtmlNode;
import ca.uhn.fhir.fhirpath.FhirPathExecutionException;
import ca.uhn.fhir.model.api.TemporalPrecisionEnum;
import ca.uhn.fhir.util.ElementUtil;
@ -4540,7 +4535,7 @@ public class FHIRPathEngine {
}
for (String an : node.getAttributes().keySet()) {
boolean ok = an.startsWith("xmlns") || Utilities.existsInList(an,
"title", "style", "class", "id", "lang", "xml:lang", "dir", "accesskey", "tabindex",
"title", "style", "class", "id", "idref", "lang", "xml:lang", "dir", "accesskey", "tabindex",
// tables
"span", "width", "align", "valign", "char", "charoff", "abbr", "axis", "headers", "scope", "rowspan", "colspan") ||

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/FHIRPathUtilityClasses.java → org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/fhirpath/FHIRPathUtilityClasses.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r5.utils;
package org.hl7.fhir.r5.fhirpath;
import java.util.ArrayList;
import java.util.List;

8
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/model/TypeDetails.java → org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/fhirpath/TypeDetails.java
View File

@ -1,4 +1,4 @@
package org.hl7.fhir.r5.model;
package org.hl7.fhir.r5.fhirpath;
/*
Copyright (c) 2011+, HL7, Inc.
@ -42,10 +42,12 @@ import java.util.Set;
import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.CanonicalType;
import org.hl7.fhir.r5.model.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r5.model.TypeDetails.ProfiledTypeSorter;
import org.hl7.fhir.r5.model.UriType;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.Utilities;

3
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/model/ProfilingWrapper.java
View File

@ -32,7 +32,8 @@ package org.hl7.fhir.r5.model;
import java.util.Map;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
/**
* This class is the base class for Profile classes - whether generated or manual

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/profilemodel/PEBuilder.java
View File

@ -36,6 +36,7 @@ import org.hl7.fhir.exceptions.DefinitionException;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.context.ContextUtilities;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.CanonicalType;
import org.hl7.fhir.r5.model.ElementDefinition;
@ -48,7 +49,6 @@ import org.hl7.fhir.r5.model.Resource;
import org.hl7.fhir.r5.model.ResourceFactory;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.Utilities;

75
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/renderers/DataRenderer.java
View File

@ -1580,32 +1580,63 @@ public class DataRenderer extends Renderer implements CodeResolver {
public void renderTriggerDefinition(XhtmlNode x, TriggerDefinition td) throws FHIRFormatError, DefinitionException, IOException {
XhtmlNode tbl = x.table("grid");
if (x.isPara()) {
x.b().tx("Type");
x.tx(": ");
x.tx(td.getType().getDisplay());
XhtmlNode tr = tbl.tr();
tr.td().b().tx("Type");
tr.td().tx(td.getType().getDisplay());
if (td.hasName()) {
x.tx(", ");
x.b().tx("Name");
x.tx(": ");
x.tx(td.getType().getDisplay());
}
if (td.hasCode()) {
x.tx(", ");
x.b().tx("Code");
x.tx(": ");
renderCodeableConcept(x, td.getCode());
}
if (td.hasTiming()) {
x.tx(", ");
x.b().tx("Timing");
x.tx(": ");
render(x, td.getTiming());
}
if (td.hasCondition()) {
x.tx(", ");
x.b().tx("Condition");
x.tx(": ");
renderExpression(x, td.getCondition());
}
} else {
XhtmlNode tbl = x.table("grid");
if (td.hasName()) {
tr = tbl.tr();
tr.td().b().tx("Name");
XhtmlNode tr = tbl.tr();
tr.td().b().tx("Type");
tr.td().tx(td.getType().getDisplay());
if (td.hasName()) {
tr = tbl.tr();
tr.td().b().tx("Name");
tr.td().tx(td.getType().getDisplay());
}
if (td.hasCode()) {
tr = tbl.tr();
tr.td().b().tx("Code");
renderCodeableConcept(tr.td(), td.getCode());
}
if (td.hasTiming()) {
tr = tbl.tr();
tr.td().b().tx("Timing");
render(tr.td(), td.getTiming());
}
if (td.hasCondition()) {
tr = tbl.tr();
tr.td().b().tx("Condition");
renderExpression(tr.td(), td.getCondition());
}
}
if (td.hasCode()) {
tr = tbl.tr();
tr.td().b().tx("Code");
renderCodeableConcept(tr.td(), td.getCode());
}
if (td.hasTiming()) {
tr = tbl.tr();
tr.td().b().tx("Timing");
render(tr.td(), td.getTiming());
}
if (td.hasCondition()) {
tr = tbl.tr();
tr.td().b().tx("Condition");
renderExpression(tr.td(), td.getCondition());
}
}
public void renderDataRequirement(XhtmlNode x, DataRequirement dr) throws FHIRFormatError, DefinitionException, IOException {

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/renderers/ValueSetRenderer.java
View File

@ -1229,7 +1229,7 @@ public class ValueSetRenderer extends TerminologyRenderer {
} else if ("concept".equals(f.getProperty()) && inc.hasSystem()) {
wli.addText(f.getValue());
ValidationResult vr = getContext().getWorker().validateCode(getContext().getTerminologyServiceOptions(), inc.getSystem(), inc.getVersion(), f.getValue(), null);
if (vr.isOk()) {
if (vr.isOk() && vr.getDisplay() != null) {
wli.tx(" ("+vr.getDisplay()+")");
}
}

5
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/renderers/utils/RenderingContext.java
View File

@ -15,10 +15,10 @@ import org.hl7.fhir.r5.conformance.profile.ProfileKnowledgeProvider;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.DomainResource;
import org.hl7.fhir.r5.renderers.utils.Resolver.IReferenceResolver;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.utilities.FhirPublication;
import org.hl7.fhir.utilities.MarkDownProcessor;
import org.hl7.fhir.utilities.MarkDownProcessor.Dialect;
@ -701,8 +701,9 @@ public class RenderingContext {
public GenerationRules getRules() {
return rules;
}
public void setRules(GenerationRules rules) {
public RenderingContext setRules(GenerationRules rules) {
this.rules = rules;
return this;
}
public StandardsStatus getDefaultStandardsStatus() {
return defaultStandardsStatus;

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/terminologies/utilities/TerminologyCache.java
View File

@ -750,7 +750,7 @@ public class TerminologyCache {
}
public String summary(Coding code) {
return code.getSystem()+"#"+code.getCode()+": \""+code.getDisplay()+"\"";
return code.getSystem()+"#"+code.getCode()+(code.hasDisplay() ? ": \""+code.getDisplay()+"\"" : "");
}
public String summary(CodeableConcept code) {

6
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/terminologies/validation/ValueSetValidator.java
View File

@ -260,7 +260,7 @@ public class ValueSetValidator extends ValueSetProcessBase {
info.getIssues().addAll(makeIssue(IssueSeverity.WARNING, unknownSystems.isEmpty() ? IssueType.CODEINVALID : IssueType.NOTFOUND, path, msg));
} else if (!result) {
msg = context.formatMessagePlural(code.getCoding().size(), I18nConstants.NONE_OF_THE_PROVIDED_CODES_ARE_IN_THE_VALUE_SET_, valueset.getVersionedUrl(), b.toString());
info.getIssues().addAll(makeIssue(IssueSeverity.ERROR, IssueType.CODEINVALID, path, msg));
info.getIssues().addAll(makeIssue(IssueSeverity.ERROR, IssueType.CODEINVALID, code.getCoding().size() == 1 ? path+".coding[0].code" : path, msg));
}
}
if (vcc.hasCoding() && code.hasText()) {
@ -520,7 +520,7 @@ public class ValueSetValidator extends ValueSetProcessBase {
// {
String msg = context.formatMessagePlural(1, I18nConstants.NONE_OF_THE_PROVIDED_CODES_ARE_IN_THE_VALUE_SET_, valueset.getVersionedUrl(), "'"+code.toString()+"'");
res.addToMessage(msg).setSeverity(IssueSeverity.ERROR);
res.getIssues().addAll(makeIssue(IssueSeverity.ERROR, IssueType.CODEINVALID, path, msg));
res.getIssues().addAll(makeIssue(IssueSeverity.ERROR, IssueType.CODEINVALID, path+".code", msg));
res.setDefinition(null);
res.setSystem(null);
res.setDisplay(null);
@ -542,7 +542,7 @@ public class ValueSetValidator extends ValueSetProcessBase {
} else if ((res != null && !res.isOk())) {
String msg = context.formatMessagePlural(1, I18nConstants.NONE_OF_THE_PROVIDED_CODES_ARE_IN_THE_VALUE_SET_, valueset.getVersionedUrl(), "'"+code.toString()+"'");
res.setMessage(res.getMessage()+"; "+msg);
res.getIssues().addAll(makeIssue(IssueSeverity.ERROR, IssueType.CODEINVALID, path, msg));
res.getIssues().addAll(makeIssue(IssueSeverity.ERROR, IssueType.CODEINVALID, path+".code", msg));
}
}
if (res != null && res.getSeverity() == IssueSeverity.INFORMATION) {

157
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/CanonicalResourceUtilities.java Normal file
View File

@ -0,0 +1,157 @@
package org.hl7.fhir.r5.utils;
import java.util.List;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.model.CanonicalResource;
import org.hl7.fhir.r5.model.CompartmentDefinition;
import org.hl7.fhir.r5.model.Constants;
import org.hl7.fhir.r5.model.ContactPoint.ContactPointSystem;
import org.hl7.fhir.utilities.HL7WorkGroups;
import org.hl7.fhir.utilities.VersionUtilities;
import org.hl7.fhir.utilities.xml.XMLUtil;
public class CanonicalResourceUtilities {
public static void setHl7WG(CanonicalResource cr, String wgc) {
var wg = HL7WorkGroups.find(wgc);
if (wg == null) {
throw new Error("Unknown WG "+wgc);
}
ToolingExtensions.setCodeExtension(cr, ToolingExtensions.EXT_WORKGROUP, wg.getCode());
cr.setPublisher("HL7 International / "+wg.getName());
cr.getContact().clear();
cr.addContact().addTelecom().setSystem(ContactPointSystem.URL).setValue(wg.getLink());
}
public static void setHl7WG(CanonicalResource cr) {
String wgc = ToolingExtensions.readStringExtension(cr, ToolingExtensions.EXT_WORKGROUP);
if (wgc == null) {
wgc = "fhir";
}
var wg = HL7WorkGroups.find(wgc);
if (wg == null) {
throw new Error("Unknown WG '"+wgc+"' in "+cr.fhirType()+"/"+cr.getIdBase());
}
ToolingExtensions.setCodeExtension(cr, ToolingExtensions.EXT_WORKGROUP, wg.getCode());
cr.setPublisher("HL7 International / "+wg.getName());
cr.getContact().clear();
cr.addContact().addTelecom().setSystem(ContactPointSystem.URL).setValue(wg.getLink());
}
public static void setHl7WG(Element res, String code) {
if (VersionUtilities.getExtendedCanonicalResourceNames(res.getFHIRPublicationVersion().toCode()).contains(res.fhirType())) {
var wg = HL7WorkGroups.find(code);
if (wg == null) {
throw new Error("Unknown WG "+code);
}
Element ext = res.getExtension(ToolingExtensions.EXT_WORKGROUP);
if (ext == null) {
ext = res.addElement("extension");
ext.setChildValue("url", ToolingExtensions.EXT_WORKGROUP);
}
ext.setChildValue("valueCode", code);
res.setChildValue("publisher", "HL7 International / "+wg.getName());
while (res.hasChild("contact")) {
res.removeChild("contact");
}
Element c = res.addElement("contact");
Element t = c.addElement("telecom");
t.setChildValue("system", "url");
t.setChildValue("value", wg.getLink());
}
}
/**
* for use in the core build where the context is not fully populated. Only known safe for R6 resources
*
* @param res
* @param code
*/
public static void setHl7WG(org.w3c.dom.Element res, String code) {
String rt = res.getNodeName();
if (VersionUtilities.getExtendedCanonicalResourceNames("5.0.0").contains(rt)) {
var wg = HL7WorkGroups.find(code);
if (wg == null) {
throw new Error("Unknown WG "+code);
}
List<org.w3c.dom.Element> extensions = XMLUtil.getNamedChildren(res, "extension");
org.w3c.dom.Element wgext = null;
for (org.w3c.dom.Element ext : extensions) {
String url = ext.getAttribute("url");
if (ToolingExtensions.EXT_WORKGROUP.equals(url)) {
wgext = ext;
}
}
if (wgext == null) {
wgext = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "extension");
wgext.setAttribute("url", ToolingExtensions.EXT_WORKGROUP);
org.w3c.dom.Element after = XMLUtil.getLastChild(res, "id", "meta", "text", "implicitRules", "language", "text", "contained");
if (after != null) {
after = XMLUtil.getNextSibling(after);
}
res.insertBefore(wgext, after);
res.insertBefore(res.getOwnerDocument().createTextNode("\n "), after);
}
XMLUtil.clearChildren(wgext);
org.w3c.dom.Element valueCode = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "valueCode");
wgext.appendChild(valueCode);
valueCode.setAttribute("value", code);
org.w3c.dom.Element pub = XMLUtil.getNamedChild(res, "publisher");
if (pub == null) {
pub = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "publisher");
org.w3c.dom.Element after = XMLUtil.getLastChild(res, "id", "meta", "text", "implicitRules", "language", "text", "contained", "extension", "modifierExtension",
"url", "identifier", "version", "versionAlgorithmString", "versionAlgorithmCoding", "name", "title", "status", "experimental", "date", ("EvidenceReport".equals(rt) ? "subject" : "xx"));
if (after != null) {
after = XMLUtil.getNextSibling(after);
}
res.insertBefore(pub, after);
res.insertBefore(res.getOwnerDocument().createTextNode("\n "), after);
}
pub.setAttribute("value", "HL7 International / "+wg.getName());
org.w3c.dom.Element contact = XMLUtil.getNamedChild(res, "contact");
if (contact == null) {
contact = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "contact");
res.insertBefore(contact, XMLUtil.getNextSibling(pub));
res.insertBefore(res.getOwnerDocument().createTextNode("\n "), contact.getNextSibling());
}
org.w3c.dom.Element telecom = XMLUtil.getNamedChild(contact, "telecom");
if (telecom == null) {
contact.appendChild(res.getOwnerDocument().createTextNode("\n "));
telecom = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "telecom");
contact.appendChild(telecom);
contact.appendChild(res.getOwnerDocument().createTextNode("\n "));
}
org.w3c.dom.Element system = XMLUtil.getNamedChild(telecom, "system");
if (system == null) {
system = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "system");
org.w3c.dom.Element after = XMLUtil.getLastChild(telecom, "id", "extension");
if (after != null) {
after = XMLUtil.getNextSibling(after);
}
telecom.insertBefore(system, after);
telecom.insertBefore(res.getOwnerDocument().createTextNode("\n "), after);
}
system.setAttribute("value", "url");
org.w3c.dom.Element value = XMLUtil.getNamedChild(telecom, "value");
if (value == null) {
value = res.getOwnerDocument().createElementNS(Constants.NS_FHIR_ROOT, "value");
org.w3c.dom.Element after = XMLUtil.getLastChild(telecom, "id", "extension", "system");
if (after != null) {
after = XMLUtil.getNextSibling(after);
}
telecom.insertBefore(system, after);
telecom.insertBefore(res.getOwnerDocument().createTextNode("\n "), after);
}
value.setAttribute("value", wg.getLink());
}
}
}

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

@ -9,10 +9,11 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.Bundle;
import org.hl7.fhir.r5.model.Bundle.BundleEntryComponent;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.GraphDefinition;
import org.hl7.fhir.r5.model.GraphDefinition.GraphDefinitionLinkComponent;
import org.hl7.fhir.r5.model.Resource;

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

@ -41,6 +41,8 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.instance.model.api.IBaseResource;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.model.BackboneElement;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.Bundle;
@ -50,7 +52,6 @@ import org.hl7.fhir.r5.model.Bundle.LinkRelationTypes;
import org.hl7.fhir.r5.model.CanonicalType;
import org.hl7.fhir.r5.model.DomainResource;
import org.hl7.fhir.r5.model.Element;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.IdType;
import org.hl7.fhir.r5.model.IntegerType;
import org.hl7.fhir.r5.model.Property;

12
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/LiquidEngine.java
View File

@ -39,14 +39,16 @@ import java.util.Map;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRLexer;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.ExpressionNodeWithOffset;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.Tuple;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.ValueSet;
import org.hl7.fhir.r5.utils.FHIRPathEngine.ExpressionNodeWithOffset;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.i18n.I18nConstants;
import org.hl7.fhir.utilities.xhtml.NodeType;

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/ToolingExtensions.java
View File

@ -875,7 +875,7 @@ public class ToolingExtensions {
Iterator<Extension> i = focus.getExtension().iterator();
while (i.hasNext()) {
Extension e = i.next(); // must be called before you can call i.remove()
if (e.getUrl().equals(url)) {
if (url.equals(e.getUrl())) {
i.remove();
}
}

12
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/sql/Runner.java
View File

@ -8,21 +8,21 @@ import org.apache.commons.net.util.Base64;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.Base64BinaryType;
import org.hl7.fhir.r5.model.BaseDateTimeType;
import org.hl7.fhir.r5.model.BooleanType;
import org.hl7.fhir.r5.model.DecimalType;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.IntegerType;
import org.hl7.fhir.r5.model.Property;
import org.hl7.fhir.r5.model.StringType;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.ValueSet;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.json.model.JsonObject;
import org.hl7.fhir.utilities.validation.ValidationMessage;

10
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/sql/Validator.java
View File

@ -8,11 +8,11 @@ import java.util.Set;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.ExpressionNode;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IssueMessage;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IssueMessage;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.json.model.JsonArray;
import org.hl7.fhir.utilities.json.model.JsonBoolean;

6
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/structuremap/FHIRPathHostServices.java
View File

@ -4,12 +4,12 @@ import org.apache.commons.lang3.NotImplementedException;
import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.Resource;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.ValueSet;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.utils.validation.IResourceValidator;
import org.hl7.fhir.utilities.validation.ValidationMessage;

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/structuremap/PropertyWithType.java
View File

@ -1,7 +1,7 @@
package org.hl7.fhir.r5.utils.structuremap;
import org.hl7.fhir.r5.elementmodel.Property;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
public class PropertyWithType {
private String path;

12
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/structuremap/StructureMapUtilities.java
View File

@ -43,6 +43,13 @@ import org.hl7.fhir.r5.context.IWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.elementmodel.Manager;
import org.hl7.fhir.r5.elementmodel.Property;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRLexer;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.fhirpath.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r5.fhirpath.TypeDetails.ProfiledType;
import org.hl7.fhir.r5.model.*;
import org.hl7.fhir.r5.model.ConceptMap.ConceptMapGroupComponent;
import org.hl7.fhir.r5.model.ConceptMap.ConceptMapGroupUnmappedMode;
@ -54,19 +61,14 @@ import org.hl7.fhir.r5.model.ElementDefinition.TypeRefComponent;
import org.hl7.fhir.r5.model.Enumerations.ConceptMapRelationship;
import org.hl7.fhir.r5.model.Enumerations.FHIRVersion;
import org.hl7.fhir.r5.model.Enumerations.PublicationStatus;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.Narrative.NarrativeStatus;
import org.hl7.fhir.r5.model.StructureDefinition.StructureDefinitionMappingComponent;
import org.hl7.fhir.r5.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r5.model.StructureMap.*;
import org.hl7.fhir.r5.model.TypeDetails.ProfiledType;
import org.hl7.fhir.r5.model.ValueSet.ValueSetExpansionContainsComponent;
import org.hl7.fhir.r5.renderers.TerminologyRenderer;
import org.hl7.fhir.r5.terminologies.expansion.ValueSetExpansionOutcome;
import org.hl7.fhir.r5.terminologies.utilities.ValidationResult;
import org.hl7.fhir.r5.utils.FHIRLexer;
import org.hl7.fhir.r5.utils.FHIRLexer.FHIRLexerException;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.ToolingExtensions;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import org.hl7.fhir.utilities.FhirPublication;

2
org.hl7.fhir.r5/src/main/java/org/hl7/fhir/r5/utils/structuremap/VariablesForProfiling.java
View File

@ -1,7 +1,7 @@
package org.hl7.fhir.r5.utils.structuremap;
import org.hl7.fhir.r5.elementmodel.Property;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.utilities.CommaSeparatedStringBuilder;
import java.util.ArrayList;

2
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/test/CDARoundTripTests.java
View File

@ -10,10 +10,10 @@ import org.hl7.fhir.r5.context.SimpleWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.elementmodel.Manager;
import org.hl7.fhir.r5.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.test.utils.TestingUtilities;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager.FilesystemPackageCacheMode;

8
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/test/FHIRPathTests.java
View File

@ -13,14 +13,16 @@ import org.hl7.fhir.exceptions.FHIRException;
import org.hl7.fhir.exceptions.PathEngineException;
import org.hl7.fhir.r5.elementmodel.Manager;
import org.hl7.fhir.r5.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r5.fhirpath.ExpressionNode;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.elementmodel.ValidatedFragment;
import org.hl7.fhir.r5.formats.JsonParser;
import org.hl7.fhir.r5.formats.XmlParser;
import org.hl7.fhir.r5.model.*;
import org.hl7.fhir.r5.test.utils.TestingUtilities;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.utilities.Utilities;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager;
import org.hl7.fhir.utilities.npm.NpmPackage;

10
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/test/SnapShotGenerationTests.java
View File

@ -20,27 +20,27 @@ import org.hl7.fhir.r5.conformance.profile.BindingResolution;
import org.hl7.fhir.r5.conformance.profile.ProfileKnowledgeProvider;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities;
import org.hl7.fhir.r5.conformance.profile.ProfileUtilities.AllowUnknownProfile;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.fhirpath.TypeDetails;
import org.hl7.fhir.r5.fhirpath.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.fhirpath.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.test.utils.TestPackageLoader;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.formats.JsonParser;
import org.hl7.fhir.r5.formats.XmlParser;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.ElementDefinition.ElementDefinitionBindingComponent;
import org.hl7.fhir.r5.model.ExpressionNode.CollectionStatus;
import org.hl7.fhir.r5.model.Resource;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.model.StructureDefinition.StructureDefinitionKind;
import org.hl7.fhir.r5.model.StructureDefinition.TypeDerivationRule;
import org.hl7.fhir.r5.model.TypeDetails;
import org.hl7.fhir.r5.model.ValueSet;
import org.hl7.fhir.r5.renderers.RendererFactory;
import org.hl7.fhir.r5.renderers.utils.RenderingContext;
import org.hl7.fhir.r5.renderers.utils.RenderingContext.GenerationRules;
import org.hl7.fhir.r5.renderers.utils.RenderingContext.ResourceRendererMode;
import org.hl7.fhir.r5.test.utils.TestingUtilities;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.FHIRPathEngine.IEvaluationContext;
import org.hl7.fhir.r5.utils.FHIRPathUtilityClasses.FunctionDetails;
import org.hl7.fhir.r5.utils.XVerExtensionManager;
import org.hl7.fhir.r5.utils.validation.IResourceValidator;
import org.hl7.fhir.utilities.Utilities;

2
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/test/StructureMapUtilitiesTest.java
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@ -8,12 +8,12 @@ import org.hl7.fhir.r5.context.SimpleWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.elementmodel.Manager;
import org.hl7.fhir.r5.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.model.Base;
import org.hl7.fhir.r5.model.Coding;
import org.hl7.fhir.r5.model.StructureMap;
import org.hl7.fhir.r5.model.StructureMap.StructureMapGroupRuleTargetComponent;
import org.hl7.fhir.r5.test.utils.TestingUtilities;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.r5.utils.structuremap.ITransformerServices;
import org.hl7.fhir.r5.utils.structuremap.StructureMapUtilities;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager;

2
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/test/XmlParserTests.java
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@ -8,10 +8,10 @@ import org.hl7.fhir.r5.context.SimpleWorkerContext;
import org.hl7.fhir.r5.elementmodel.Element;
import org.hl7.fhir.r5.elementmodel.Manager;
import org.hl7.fhir.r5.elementmodel.Manager.FhirFormat;
import org.hl7.fhir.r5.fhirpath.FHIRPathEngine;
import org.hl7.fhir.r5.formats.IParser.OutputStyle;
import org.hl7.fhir.r5.model.StructureDefinition;
import org.hl7.fhir.r5.test.utils.TestingUtilities;
import org.hl7.fhir.r5.utils.FHIRPathEngine;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager;
import org.hl7.fhir.utilities.npm.ToolsVersion;
import org.hl7.fhir.utilities.npm.FilesystemPackageCacheManager.FilesystemPackageCacheMode;

1
org.hl7.fhir.r5/src/test/java/org/hl7/fhir/r5/utils/FHIRLexerTest.java
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@ -1,5 +1,6 @@
package org.hl7.fhir.r5.utils;
import org.hl7.fhir.r5.fhirpath.FHIRLexer;
import org.junit.jupiter.api.Assertions;
import org.junit.jupiter.api.DisplayName;
import org.junit.jupiter.api.Test;

4
org.hl7.fhir.utilities/pom.xml
View File

@ -31,12 +31,12 @@
<!-- Markdown Utilities -->
<dependency>
<groupId>com.atlassian.commonmark</groupId>
<groupId>org.commonmark</groupId>
<artifactId>commonmark</artifactId>
<optional>true</optional>
</dependency>
<dependency>
<groupId>com.atlassian.commonmark</groupId>
<groupId>org.commonmark</groupId>
<artifactId>commonmark-ext-gfm-tables</artifactId>
<optional>true</optional>
</dependency>

19
org.hl7.fhir.utilities/src/main/java/org/hl7/fhir/utilities/HL7WorkGroups.java
View File

@ -5,13 +5,15 @@ public class HL7WorkGroups {
public static class HL7WorkGroup {
private String link;
private String name;
private String name2;
private String code;
protected HL7WorkGroup(String code, String name, String link) {
protected HL7WorkGroup(String code, String name, String name2, String link) {
super();
this.code = code;
this.name = name;
this.name2 = name2;
this.link = link;
}
public String getLink() {
@ -20,6 +22,9 @@ public class HL7WorkGroups {
public String getName() {
return name;
}
public String getName2() {
return name2;
}
public String getCode() {
return code;
}
@ -27,9 +32,10 @@ public class HL7WorkGroups {
public static HL7WorkGroup find(String wg) {
String name = nameForWG(wg);
String name2 = name2ForWG(wg);
String url = urlForWG(wg);
if (name != null) {
return new HL7WorkGroup(wg, name, url);
return new HL7WorkGroup(wg, name, name2, url);
} else {
return null;
}
@ -129,10 +135,17 @@ public class HL7WorkGroups {
case "tsmg": return "Terminology Services Management Group (TSMG)";
case "us": return "US Realm Steering Committee";
case "v2": return "V2 Management Group";
case "vocab": return "Terminology Infrastructure";
}
return null;
}
private static String name2ForWG(String wg) {
switch (wg) {
case "ti": return "Vocabulary";
case "vocab": return "Vocabulary";
}
return null;
}
}

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