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FHIRPathSpecTest update and related changes #2749

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Sep 15, 2021
Merged

FHIRPathSpecTest update and related changes #2749

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66eda23
Update the FHIRPath tests
lmsurpre Sep 8, 2021
a303e9d
Updated method name per PR comments
JohnTimm Sep 13, 2021
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5 changes: 5 additions & 0 deletions fhir-path/src/main/java/com/ibm/fhir/path/FHIRPathAbstractTemporalValue.java
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Original file line number Diff line number Diff line change
Expand Up @@ -124,6 +124,11 @@ public boolean isComparableTo(FHIRPathNode other) {
FHIRPathTemporalValue temporalValue = (other instanceof FHIRPathTemporalValue) ?
(FHIRPathTemporalValue) other : (FHIRPathTemporalValue) other.getValue();

if ((temporalAccessor instanceof LocalTime && !(temporalValue.temporalAccessor() instanceof LocalTime))
|| (!(temporalAccessor instanceof LocalTime) && temporalValue.temporalAccessor() instanceof LocalTime)) {
return false;
}

int startIndex = 0;

if (temporalAccessor instanceof LocalTime && temporalValue.temporalAccessor() instanceof LocalTime) {
Expand Down
26 changes: 16 additions & 10 deletions fhir-path/src/main/java/com/ibm/fhir/path/evaluator/FHIRPathEvaluator.java
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Expand Up @@ -373,7 +373,17 @@ private Collection<FHIRPathNode> exists(List<ExpressionContext> arguments) {
if (arguments.isEmpty()) {
return !getCurrentContext().isEmpty() ? SINGLETON_TRUE : SINGLETON_FALSE;
}
return evaluatesToTrue(visit(arguments.get(0))) ? SINGLETON_TRUE : SINGLETON_FALSE;

for (FHIRPathNode node : getCurrentContext()) {
pushContext(singleton(node));
if (evaluatesToTrue(visit(arguments.get(0)))) {
popContext();
return SINGLETON_TRUE;
}
popContext();
}

return SINGLETON_FALSE;
}

private Collection<FHIRPathNode> getCurrentContext() {
Expand Down Expand Up @@ -873,7 +883,9 @@ public Collection<FHIRPathNode> visitEqualityExpression(FHIRPathParser.EqualityE
return afterEvaluation(ctx, SINGLETON_FALSE);
}

if (!validateEqualityOperands(left, right)) {
// for quantity operands: Attempting to operate on quantities with invalid units will result in empty ({ }).
// for temporal operands: If one input has a value for the precision and the other does not, the comparison stops and the result is empty ({ })
if (!equalityOperandsAreValid(left, right)) {
return afterEvaluation(ctx, empty());
}

Expand All @@ -898,7 +910,7 @@ public Collection<FHIRPathNode> visitEqualityExpression(FHIRPathParser.EqualityE
return afterEvaluation(ctx, result);
}

private boolean validateEqualityOperands(Collection<FHIRPathNode> left, Collection<FHIRPathNode> right) {
private boolean equalityOperandsAreValid(Collection<FHIRPathNode> left, Collection<FHIRPathNode> right) {
if (left.size() != right.size()) {
throw new IllegalArgumentException();
}
Expand All @@ -914,12 +926,6 @@ private boolean validateEqualityOperands(Collection<FHIRPathNode> left, Collecti
!getTemporalValue(leftNode).precision().equals(getTemporalValue(rightNode).precision())) {
return false;
}
// TODO: change to this when we update to a newer version of the test file
/*
if (hasTemporalValue(leftNode) && hasTemporalValue(rightNode) && !leftNode.isComparableTo(rightNode)) {
return false;
}
*/
}

return true;
Expand Down Expand Up @@ -1213,7 +1219,7 @@ public Collection<FHIRPathNode> visitQuantity(FHIRPathParser.QuantityContext ctx
beforeEvaluation(ctx);
String number = ctx.NUMBER().getText();
String text = ctx.unit().getText();
String unit = text.substring(1, text.length() - 1);
String unit = text.startsWith("'") ? text.substring(1, text.length() - 1) : text;
return afterEvaluation(ctx, singleton(FHIRPathQuantityValue.quantityValue(new BigDecimal(number), unit)));
}

Expand Down
16 changes: 11 additions & 5 deletions fhir-path/src/main/java/com/ibm/fhir/path/function/AllTrueFunction.java
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Expand Up @@ -30,12 +30,18 @@ public int getMinArity() {
public int getMaxArity() {
return 0;
}

@Override
public Collection<FHIRPathNode> apply(EvaluationContext evaluationContext, Collection<FHIRPathNode> context, List<Collection<FHIRPathNode>> arguments) {
return context.stream().allMatch(node -> node.isSystemValue() &&
node.asSystemValue().isBooleanValue() &&
node.asSystemValue().asBooleanValue().isTrue()) ?
SINGLETON_TRUE : SINGLETON_FALSE;
for (FHIRPathNode node : context) {
if (node.isSystemValue() && node.asSystemValue().isBooleanValue()) {
if (node.asSystemValue().asBooleanValue().isFalse()) {
return SINGLETON_FALSE;
}
} else {
throw new IllegalArgumentException("Invalid argument; expected boolean but found " + node.type());
}
}
return SINGLETON_TRUE;
}
}
19 changes: 4 additions & 15 deletions fhir-path/src/main/java/com/ibm/fhir/path/util/FHIRPathUtil.java
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Expand Up @@ -47,6 +47,7 @@
import org.antlr.v4.runtime.CommonTokenStream;
import org.antlr.v4.runtime.RecognitionException;
import org.antlr.v4.runtime.Recognizer;
import org.antlr.v4.runtime.Token;
import org.antlr.v4.runtime.misc.ParseCancellationException;

import com.ibm.fhir.model.patch.exception.FHIRPatchException;
Expand Down Expand Up @@ -127,14 +128,6 @@ public void syntaxError(Recognizer<?, ?> recognizer, Object offendingSymbol, int
private FHIRPathUtil() { }

public static ExpressionContext compile(String expr) {
int startIndex = -1;
for (int i = 0; i < expr.length(); i++) {
if (!Character.isWhitespace(expr.charAt(i))) {
startIndex = i;
break;
}
}

int stopIndex = -1;
for (int i = expr.length() - 1; i >= 0; i--) {
if (!Character.isWhitespace(expr.charAt(i))) {
Expand All @@ -143,7 +136,7 @@ public static ExpressionContext compile(String expr) {
}
}

if (startIndex == -1 || stopIndex == -1) {
if (stopIndex == -1) {
throw new IllegalArgumentException("Invalid FHIRPath expression: '" + expr + "'");
}

Expand All @@ -158,12 +151,8 @@ public static ExpressionContext compile(String expr) {
parser.addErrorListener(SYNTAX_ERROR_LISTENER);

ExpressionContext expressionContext = parser.expression();

if (expressionContext.getStart() == null || expressionContext.getStop() == null) {
throw new IllegalArgumentException("FHIRPath expression was parsed but start and/or stop token was null");
}

if (expressionContext.getStart().getStartIndex() != startIndex || expressionContext.getStop().getStopIndex() != stopIndex) {
List<Token> hiddenTokensToRight = tokens.getHiddenTokensToRight(expressionContext.getStop().getTokenIndex());
if (hiddenTokensToRight == null && expressionContext.getStop().getStopIndex() != stopIndex) {
throw new IllegalArgumentException("FHIRPath expression parsing error at: '" + expr.charAt(expressionContext.getStop().getStopIndex() + 1) + "'");
}

Expand Down
8 changes: 0 additions & 8 deletions fhir-path/src/test/java/com/ibm/fhir/path/test/BooleanEvaluationTest.java
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Expand Up @@ -6,7 +6,6 @@

package com.ibm.fhir.path.test;

import static com.ibm.fhir.path.evaluator.FHIRPathEvaluator.SINGLETON_FALSE;
import static com.ibm.fhir.path.evaluator.FHIRPathEvaluator.SINGLETON_TRUE;
import static org.testng.Assert.assertEquals;

Expand All @@ -24,11 +23,4 @@ public void testBooleanEvaluation1() throws Exception {
Collection<FHIRPathNode> result = evaluator.evaluate("true and 'foo'");
assertEquals(result, SINGLETON_TRUE);
}

@Test
public void testBooleanEvaluation2() throws Exception {
FHIRPathEvaluator evaluator = FHIRPathEvaluator.evaluator();
Collection<FHIRPathNode> result = evaluator.evaluate("(true | 'foo').allTrue()");
assertEquals(result, SINGLETON_FALSE);
}
}
37 changes: 25 additions & 12 deletions fhir-path/src/test/java/com/ibm/fhir/path/test/FHIRPathSpecTest.java
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Expand Up @@ -6,6 +6,7 @@
package com.ibm.fhir.path.test;

import static com.ibm.fhir.path.util.FHIRPathUtil.getBooleanValue;
import static com.ibm.fhir.path.util.FHIRPathUtil.getDate;
import static com.ibm.fhir.path.util.FHIRPathUtil.getDateTime;
import static com.ibm.fhir.path.util.FHIRPathUtil.getNumberValue;
import static com.ibm.fhir.path.util.FHIRPathUtil.getStringValue;
Expand Down Expand Up @@ -34,16 +35,18 @@

import com.ibm.fhir.model.format.Format;
import com.ibm.fhir.model.parser.FHIRParser;
import com.ibm.fhir.model.resource.Observation;
import com.ibm.fhir.model.resource.Patient;
import com.ibm.fhir.model.resource.Resource;
import com.ibm.fhir.model.test.TestUtil;
import com.ibm.fhir.model.util.XMLSupport;
import com.ibm.fhir.path.FHIRPathDateTimeValue;
import com.ibm.fhir.path.FHIRPathDateValue;
import com.ibm.fhir.path.FHIRPathNode;
import com.ibm.fhir.path.FHIRPathQuantityValue;
import com.ibm.fhir.path.FHIRPathTimeValue;
import com.ibm.fhir.path.evaluator.FHIRPathEvaluator;
import com.ibm.fhir.path.evaluator.FHIRPathEvaluator.EvaluationContext;
import com.ibm.fhir.path.exception.FHIRPathException;
import com.ibm.fhir.path.util.FHIRPathUtil;

/**
* Executes all the FHIRPath tests shipped with the FHIRPath specification
Expand Down Expand Up @@ -141,8 +144,15 @@ private void executeTest() throws Exception {
assertEquals(getStringValue(singleton(result)).toString(), expectedOutput.text);
break;
case "date":
if (FHIRPathUtil.hasDateTimeValue(singleton(result))) {
// FHIR says that FHIR dates are actually FHIRPath dateTimes: https://www.hl7.org/fhir/fhirpath.html
assertEquals(getDateTime(singleton(result)), FHIRPathDateValue.dateValue(expectedOutput.text.substring(1)).date());
} else {
assertEquals(getDate(singleton(result)), FHIRPathDateValue.dateValue(expectedOutput.text.substring(1)).date());
}
break;
case "dateTime":
assertEquals(getDateTime(singleton(result)).toString(), expectedOutput.text);
assertEquals(getDateTime(singleton(result)), FHIRPathDateTimeValue.dateTimeValue(expectedOutput.text.substring(1)).dateTime());
break;
case "decimal":
case "integer":
Expand All @@ -155,7 +165,7 @@ private void executeTest() throws Exception {
assertEquals(getStringValue(singleton(result)).toString(), expectedOutput.text);
break;
case "time":
assertEquals(getTime(singleton(result)).toString(), expectedOutput.text);
assertEquals(getTime(singleton(result)), FHIRPathTimeValue.timeValue(expectedOutput.text).time());
break;
}
}
Expand Down Expand Up @@ -298,17 +308,20 @@ private static Object[] createSingleTest() throws Exception {
}

public static void main(String[] args) throws Exception {
try (InputStream in = FHIRPathSpecTest.class.getClassLoader().getResourceAsStream("FHIRPath/input/patient-example.xml")) {
Patient patient = FHIRParser.parser(Format.XML).parse(in);
FHIRPathEvaluator evaluator = FHIRPathEvaluator.evaluator();
Collection<FHIRPathNode> result = evaluator.evaluate(patient, "Patient.active.type().name = 'boolean'");
System.out.println("result: " + result);
}
try (InputStream in = FHIRPathSpecTest.class.getClassLoader().getResourceAsStream("FHIRPath/input/observation-example.xml")) {
Observation observation = FHIRParser.parser(Format.XML).parse(in);
Resource resource = FHIRParser.parser(Format.XML).parse(in);
FHIRPathEvaluator evaluator = FHIRPathEvaluator.evaluator();
Collection<FHIRPathNode> result = evaluator.evaluate(observation, "(Observation.value as Period).unit");
Collection<FHIRPathNode> result = evaluator.evaluate(resource, "Observation.issued is instant");
System.out.println("result: " + result);
}
// try (InputStream in = FHIRPathSpecTest.class.getClassLoader().getResourceAsStream("FHIRPath/input/observation-example.xml")) {
// Observation observation = FHIRParser.parser(Format.XML).parse(in);
// FHIRPathEvaluator evaluator = FHIRPathEvaluator.evaluator();
// Collection<FHIRPathNode> result = evaluator.evaluate(observation, "(Observation.value as Period).unit");
// System.out.println("result: " + result);
// }



}
}
34 changes: 32 additions & 2 deletions fhir-path/src/test/java/com/ibm/fhir/path/test/FHIRPathUtilTest.java
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Expand Up @@ -20,6 +20,35 @@
import com.ibm.fhir.path.util.FHIRPathUtil;

public class FHIRPathUtilTest {

@Test (expectedExceptions = IllegalArgumentException.class)
void testCompileWithFailure1() throws Exception {
FHIRPathUtil.compile("@T14:34:28Z.is(Time)");
}

@Test (expectedExceptions = IllegalArgumentException.class)
void testCompileWithFailure2() throws Exception {
FHIRPathUtil.compile("@T14:34:28Z.is(Time) //Still invalid");
}

@Test (expectedExceptions = IllegalArgumentException.class)
void testCompileWithFailure3() throws Exception {
FHIRPathUtil.compile("@T14:34:28 //Still invalid\n + @T14:34:28Z");
}

@Test
void testCompileWithSuccess() throws Exception {
FHIRPathUtil.compile("//Comment \n 2 + 2");
FHIRPathUtil.compile("2 + 2 \n //Comment \n + 2");
FHIRPathUtil.compile("2 + 2 //Comment + 4");

FHIRPathUtil.compile("/*Comment*/ \n 2 + 2");
FHIRPathUtil.compile("/*Comment \n */ 2 + 2");
FHIRPathUtil.compile("2 + 2 \n /*Comment*/ \n + 2");
FHIRPathUtil.compile("2 + 2 /* \nComment\n/ */ + 2");
FHIRPathUtil.compile("2 + 2 /*Comment + 4*/");
}

@Test
void testAdd() throws Exception {
HumanName name1 = HumanName.builder()
Expand All @@ -40,7 +69,7 @@ void testAdd() throws Exception {
fhirpathPatient = FHIRPathUtil.add(fhirpathPatient, "Patient", "deceased", Boolean.TRUE);
fhirpathPatient = FHIRPathUtil.add(fhirpathPatient, "Patient", "name", name1);
fhirpathPatient = FHIRPathUtil.add(fhirpathPatient, "Patient", "name", name2);

assertEquals(fhirpathPatient, builderPatient);
}

Expand Down Expand Up @@ -140,7 +169,7 @@ void testReplace() throws Exception {
.deceased(Boolean.TRUE)
.name(name1)
.build();

Patient builderPatient = patient.toBuilder()
.deceased(Boolean.FALSE)
.name(Collections.singleton(patient.getName().get(0).toBuilder()
Expand Down Expand Up @@ -175,4 +204,5 @@ void testMove() throws Exception {

assertEquals(fhirpathPatient, builderPatient);
}

}
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