do not throw exceptions on valueset expansion (#5997)

* fixing throwing of expcetion for unsupported filter

* updating comment

* spotless

---------

Co-authored-by: leif stawnyczy <leifstawnyczy@leifs-mbp.home>
This commit is contained in:
TipzCM 2024-06-10 16:20:16 -04:00 committed by GitHub
parent 488bf6f18a
commit b39e2f8909
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3 changed files with 87 additions and 4 deletions

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@ -0,0 +1,8 @@
---
type: fix
issue: 5006
title: "Expanding a ValueSet on a property using a filter operator that is
not supported (ISA, NOTISA, etc) would throw an exception and fail
expansion.
This has been fixed.
"

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@ -1452,7 +1452,6 @@ public class TermReadSvcImpl implements ITermReadSvc, IHasScheduledJobs {
} else { } else {
Term term = new Term(CONCEPT_PROPERTY_PREFIX_NAME + theFilter.getProperty(), value); Term term = new Term(CONCEPT_PROPERTY_PREFIX_NAME + theFilter.getProperty(), value);
switch (theFilter.getOp()) { switch (theFilter.getOp()) {
case ISA:
case EQUAL: case EQUAL:
theB.must(theF.match().field(term.field()).matching(term.text())); theB.must(theF.match().field(term.field()).matching(term.text()));
break; break;
@ -1468,13 +1467,21 @@ public class TermReadSvcImpl implements ITermReadSvc, IHasScheduledJobs {
theB.filter(theF.terms().field(term.field()).matchingAny(valueSet)); theB.filter(theF.terms().field(term.field()).matchingAny(valueSet));
} }
break; break;
case ISA:
case ISNOTA:
case DESCENDENTOF:
case GENERALIZES:
default: default:
/* /*
* We do not need to handle REGEX, because that's handled in parent * We do not need to handle REGEX, because that's handled in parent
* We also don't handle EXISTS because that's a separate area (with different term) * We also don't handle EXISTS because that's a separate area (with different term).
* We add a match-none filter because otherwise it matches everything (not desired).
*/ */
throw new InvalidRequestException(Msg.code(2526) + "Unsupported property filter " ourLog.error(
+ theFilter.getOp().getDisplay()); "Unsupported property filter {}. This may affect expansion, but will not cause errors.",
theFilter.getOp().getDisplay());
theB.must(theF.matchNone());
break;
} }
} }
} }

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@ -11,6 +11,10 @@ import ca.uhn.fhir.jpa.term.api.ITermDeferredStorageSvc;
import ca.uhn.fhir.jpa.term.api.ITermReadSvc; import ca.uhn.fhir.jpa.term.api.ITermReadSvc;
import ca.uhn.fhir.parser.IParser; import ca.uhn.fhir.parser.IParser;
import ca.uhn.fhir.rest.api.server.SystemRequestDetails; import ca.uhn.fhir.rest.api.server.SystemRequestDetails;
import ch.qos.logback.classic.Level;
import ch.qos.logback.classic.Logger;
import ch.qos.logback.classic.spi.ILoggingEvent;
import ch.qos.logback.core.read.ListAppender;
import org.hl7.fhir.r4.model.CodeSystem; import org.hl7.fhir.r4.model.CodeSystem;
import org.hl7.fhir.r4.model.DateTimeType; import org.hl7.fhir.r4.model.DateTimeType;
import org.hl7.fhir.r4.model.DecimalType; import org.hl7.fhir.r4.model.DecimalType;
@ -18,6 +22,8 @@ import org.hl7.fhir.r4.model.IntegerType;
import org.hl7.fhir.r4.model.ValueSet; import org.hl7.fhir.r4.model.ValueSet;
import org.junit.jupiter.params.ParameterizedTest; import org.junit.jupiter.params.ParameterizedTest;
import org.junit.jupiter.params.provider.EnumSource; import org.junit.jupiter.params.provider.EnumSource;
import org.mockito.ArgumentCaptor;
import org.slf4j.LoggerFactory;
import java.time.Instant; import java.time.Instant;
import java.time.temporal.ChronoUnit; import java.time.temporal.ChronoUnit;
@ -28,6 +34,8 @@ import static org.junit.jupiter.api.Assertions.assertFalse;
import static org.junit.jupiter.api.Assertions.assertNotNull; import static org.junit.jupiter.api.Assertions.assertNotNull;
import static org.junit.jupiter.api.Assertions.assertTrue; import static org.junit.jupiter.api.Assertions.assertTrue;
import static org.junit.jupiter.api.Assertions.fail; import static org.junit.jupiter.api.Assertions.fail;
import static org.mockito.Mockito.mock;
import static org.mockito.Mockito.verify;
public interface IValueSetExpansionIT { public interface IValueSetExpansionIT {
static final String CODE_SYSTEM_CODE = "PRODUCT-MULTI-SOURCE"; static final String CODE_SYSTEM_CODE = "PRODUCT-MULTI-SOURCE";
@ -205,6 +213,66 @@ public interface IValueSetExpansionIT {
} }
} }
/**
* We exclude filters we do support (tested in this class),
* as well as NULL (which isn't a "real" filter),
* and REGEX (tested elsewhere).
*/
@ParameterizedTest
@EnumSource(
value = ValueSet.FilterOperator.class,
mode = EnumSource.Mode.EXCLUDE,
names = {"EQUAL", "EXISTS", "IN", "NOTIN", "REGEX", "NULL"})
default void expandValueSet_withUnsupportedFilters_doesNotThrow(ValueSet.FilterOperator theOperator) {
// setup
IParser parser = getFhirContext().newJsonParser();
Logger logger = (Logger) LoggerFactory.getLogger(TermReadSvcImpl.class);
ListAppender<ILoggingEvent> listAppender = mock(ListAppender.class);
// setup CodeSystem
// one really isn't necessary for this test, but we'll include it for completeness
CodeSystem codeSystem = parser.parseResource(CodeSystem.class, CODE_SYSTEM_STR_BASE);
// setup valueset
ValueSet valueSet = parser.parseResource(ValueSet.class, VALUE_SET_STR_BASE);
ValueSet.ConceptSetComponent conceptSetComponent =
valueSet.getCompose().getInclude().get(0);
ValueSet.ConceptSetFilterComponent filterComponent = new ValueSet.ConceptSetFilterComponent();
filterComponent.setProperty(PROPERTY_NAME);
filterComponent.setOp(theOperator);
filterComponent.setValue("anything");
conceptSetComponent.setFilter(List.of(filterComponent));
// test
boolean preExpand = getJpaStorageSettings().isPreExpandValueSets();
Level logLevel = logger.getLevel();
getJpaStorageSettings().setPreExpandValueSets(true);
logger.setLevel(Level.ERROR);
logger.addAppender(listAppender);
try {
ValueSet expanded = createCodeSystemAndValueSetAndReturnExpandedValueSet(codeSystem, valueSet);
assertNotNull(expanded);
assertNotNull(expanded.getExpansion());
assertTrue(expanded.getExpansion().getContains().isEmpty());
ArgumentCaptor<ILoggingEvent> loggingEventArgumentCaptor = ArgumentCaptor.forClass(ILoggingEvent.class);
verify(listAppender).doAppend(loggingEventArgumentCaptor.capture());
List<ILoggingEvent> errors = loggingEventArgumentCaptor.getAllValues().stream()
.filter(e -> e.getLevel() == Level.ERROR)
.toList();
assertFalse(errors.isEmpty());
ILoggingEvent first = errors.get(0);
assertTrue(first.getFormattedMessage().contains("Unsupported property filter"));
assertTrue(first.getFormattedMessage().contains(theOperator.getDisplay()));
} finally {
getJpaStorageSettings().setPreExpandValueSets(preExpand);
logger.setLevel(logLevel);
logger.detachAppender(listAppender);
}
}
@ParameterizedTest @ParameterizedTest
@EnumSource( @EnumSource(
value = ValueSet.FilterOperator.class, value = ValueSet.FilterOperator.class,