RED-6369: Rules Refactor
* added id to ImageNode * added Manual Redaction Handling to Rules * minor rename
This commit is contained in:
Kilian Schuettler
parent
c2fa9ece18
commit
b193f90a59
@ -10,7 +10,7 @@ import lombok.NoArgsConstructor;
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@Builder
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@AllArgsConstructor
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@NoArgsConstructor
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public class EntityRecogintionEntity {
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public class EntityRecognitionEntity {
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private String value;
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private int startOffset;
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@ -14,6 +14,6 @@ import lombok.NoArgsConstructor;
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@AllArgsConstructor
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public class NerEntities {
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private Map<Integer, List<EntityRecogintionEntity>> data = new HashMap<>();
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private Map<Integer, List<EntityRecognitionEntity>> data = new HashMap<>();
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}
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@ -161,9 +161,9 @@ public class EntityNode {
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}
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public boolean matchesResizedAnnotationId(String resizedAnnotationId) {
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public boolean matchesAnnotationId(String manualRedactionId) {
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return getRedactionPositionsPerPage().stream().anyMatch(entityPosition -> entityPosition.getId().equals(resizedAnnotationId));
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return getRedactionPositionsPerPage().stream().anyMatch(entityPosition -> entityPosition.getId().equals(manualRedactionId));
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}
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@ -4,6 +4,7 @@ import static java.lang.String.format;
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import static java.util.stream.Collectors.groupingBy;
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import static java.util.stream.Collectors.toList;
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import java.awt.geom.Rectangle2D;
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import java.util.Collections;
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import java.util.HashMap;
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import java.util.HashSet;
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@ -37,6 +38,7 @@ import com.iqser.red.service.redaction.v1.server.document.graph.nodes.TableNode;
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import com.iqser.red.service.redaction.v1.server.document.graph.textblock.AtomicTextBlock;
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import com.iqser.red.service.redaction.v1.server.parsing.model.TextPositionSequence;
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import com.iqser.red.service.redaction.v1.server.redaction.model.PdfImage;
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import com.iqser.red.service.redaction.v1.server.redaction.utils.IdBuilder;
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import com.iqser.red.service.redaction.v1.server.tableextraction.model.AbstractTextContainer;
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import com.iqser.red.service.redaction.v1.server.tableextraction.model.Cell;
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import com.iqser.red.service.redaction.v1.server.tableextraction.model.Table;
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@ -254,10 +256,12 @@ public class DocumentGraphFactory {
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private void addImage(SectionNode sectionNode, PdfImage image, Context context) {
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Rectangle2D position = RectangleTransformations.toRectangle2D(image.getPosition());
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PageNode page = getPage(image.getPage(), context);
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ImageNode imageNode = ImageNode.builder()
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.id(IdBuilder.buildId(Set.of(page), List.of(position)))
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.imageType(image.getImageType())
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.position(RectangleTransformations.toRectangle2D(image.getPosition()))
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.position(position)
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.transparency(image.isHasTransparency())
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.page(page)
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.tableOfContents(context.tableOfContents())
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@ -112,6 +112,12 @@ public class RectangleTransformations {
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}
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public static Rectangle2D toRectangle2D(com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.Rectangle rect) {
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return new Rectangle2D.Double(rect.getTopLeftX() - rect.getWidth(), rect.getTopLeftY() - rect.getHeight(), rect.getWidth(), rect.getHeight());
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}
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private static class Rectangle2DUnion implements Collector<Rectangle2D, Area, Rectangle2D> {
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@Override
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@ -30,11 +30,12 @@ import lombok.experimental.FieldDefaults;
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public class ImageNode implements SemanticNode {
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List<Integer> tocId;
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String id;
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ImageType imageType;
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boolean transparency;
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Rectangle2D position;
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boolean redaction;
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boolean ignored;
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@Builder.Default
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@ -19,6 +19,7 @@ public class PropertiesMapper {
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properties.put("imageType", image.getImageType().toString());
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properties.put("transparency", String.valueOf(image.isTransparency()));
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properties.put("position", RectangleTransformations.toString(image.getPosition()));
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properties.put("id", image.getId());
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return properties;
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}
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@ -54,6 +55,7 @@ public class PropertiesMapper {
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builder.imageType(parseImageType(properties.get("imageType")));
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builder.transparency(Boolean.parseBoolean(properties.get("transparency")));
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builder.position(parseRectangle2D(properties.get("position")));
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builder.id(properties.get("id"));
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}
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@ -73,7 +75,7 @@ public class PropertiesMapper {
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}
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private static ImageType parseImageType(String imageType) {
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public static ImageType parseImageType(String imageType) {
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return switch (imageType) {
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case "LOGO" -> ImageType.LOGO;
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@ -0,0 +1,45 @@
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package com.iqser.red.service.redaction.v1.server.document.services;
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import java.util.NoSuchElementException;
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import org.springframework.stereotype.Service;
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import com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.entitymapped.ManualResizeRedaction;
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import com.iqser.red.service.redaction.v1.server.document.graph.entity.EntityNode;
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import com.iqser.red.service.redaction.v1.server.document.graph.entity.RedactionPosition;
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import com.iqser.red.service.redaction.v1.server.document.graph.factory.RectangleTransformations;
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import lombok.RequiredArgsConstructor;
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@Service
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@RequiredArgsConstructor
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public class ManualRedactionApplicationService {
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private final EntityCreationService entityCreationService;
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public void resizeEntityAndReinsert(EntityNode entityToBeResized, ManualResizeRedaction manualResizeRedaction) {
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RedactionPosition redactionPositionToBeResized = entityToBeResized.getRedactionPositionsPerPage()
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.stream()
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.filter(redactionPosition -> redactionPosition.getId().equals(manualResizeRedaction.getValue()))
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.findFirst()
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.orElseThrow(() -> new NoSuchElementException("No redaction position with matching annotation id found!"));
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redactionPositionToBeResized.setRectanglePerLine(manualResizeRedaction.getPositions().stream().map(RectangleTransformations::toRectangle2D).toList());
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int newStartOffset;
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if (manualResizeRedaction.getValue().length() > entityToBeResized.getValue().length()) {
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newStartOffset = entityToBeResized.getBoundary().start() - manualResizeRedaction.getValue().indexOf(entityToBeResized.getValue());
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} else {
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newStartOffset = entityToBeResized.getBoundary().start() + entityToBeResized.getValue().indexOf(manualResizeRedaction.getValue());
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}
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entityToBeResized.setResized(true);
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entityToBeResized.getBoundary().setStart(newStartOffset);
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entityToBeResized.getBoundary().setEnd(newStartOffset + manualResizeRedaction.getValue().length());
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entityToBeResized.removeFromGraph();
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entityCreationService.addEntityToGraph(entityToBeResized, entityToBeResized.getDeepestFullyContainingNode().getTableOfContents());
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}
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}
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@ -3,6 +3,7 @@ package drools
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import static java.lang.String.format;
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import static com.iqser.red.service.redaction.v1.server.document.services.CharSequenceSearchUtils.anyMatch;
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import static com.iqser.red.service.redaction.v1.server.document.services.EntityEnrichmentService.setFields;
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import static com.iqser.red.service.redaction.v1.server.document.mapper.PropertiesMapper.parseImageType;
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import java.util.List;
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@ -21,9 +22,15 @@ import com.iqser.red.service.redaction.v1.server.document.services.EntityCreatio
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import com.iqser.red.service.redaction.v1.server.redaction.model.dictionary.Dictionary;
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import com.iqser.red.service.redaction.v1.server.redaction.model.dictionary.DictionaryModel;
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import com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.entitymapped.ManualResizeRedaction;
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import com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.entitymapped.IdRemoval;
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import com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.entitymapped.ManualForceRedaction;
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import com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.entitymapped.ManualImageRecategorization;
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import com.iqser.red.service.persistence.service.v1.api.shared.model.annotations.AnnotationStatus;
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import com.iqser.red.service.redaction.v1.server.document.services.ManualRedactionApplicationService;
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global DocumentGraph document
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global EntityCreationService entityCreationService
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global ManualRedactionApplicationService manualRedactionApplicationService
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global Dictionary dictionary
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// --------------------------------------- queries -------------------------------------------------------------------
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@ -32,11 +39,64 @@ query "getFileAttributes"
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$fileAttribute: FileAttribute()
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end
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// --------------------------------------- manual redaction rules -------------------------------------------------------------------
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rule "Apply manual resize redaction"
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salience 200
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when
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$resizeRedactions: ManualResizeRedaction($id: annotationId)
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$entityToBeResized: EntityNode(matchesAnnotationId($id))
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then
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manualRedactionApplicationService.resizeEntityAndReinsert($entityToBeResized, $resizeRedactions);
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retract($resizeRedactions);
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update($entityToBeResized);
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end
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rule "Apply id removals that are valid and not in forced redactions to Entity"
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salience 200
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when
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IdRemoval(status == AnnotationStatus.APPROVED, !removeFromDictionary, requestDate != null, $id: annotationId)
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not ManualForceRedaction($id == annotationId, status == AnnotationStatus.APPROVED, requestDate != null)
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$entityToBeRemoved: EntityNode(matchesAnnotationId($id))
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then
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$entityToBeRemoved.removeFromGraph();
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retract($entityToBeRemoved);
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end
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rule "Apply id removals that are valid and not in forced redactions to Image"
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salience 200
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when
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IdRemoval(status == AnnotationStatus.APPROVED, !removeFromDictionary, requestDate != null, $id: annotationId)
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not ManualForceRedaction($id == annotationId, status == AnnotationStatus.APPROVED, requestDate != null)
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$entityToBeRemoved: ImageNode($id == id)
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then
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$entityToBeRemoved.setIgnored(true);
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end
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rule "Apply force redaction"
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salience 200
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when
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ManualForceRedaction($id: annotationId, status == AnnotationStatus.APPROVED, requestDate != null, $legalBasis: legalBasis)
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$entityToForce: EntityNode(matchesAnnotationId($id))
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then
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$entityToForce.setLegalBasis($legalBasis);
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$entityToForce.setRedaction(true);
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$entityToForce.setSkipRemoveEntitiesContainedInLarger(true);
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end
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rule "Apply image recategorization"
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salience 200
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when
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ManualImageRecategorization($id: annotationId, status == AnnotationStatus.APPROVED, $imageType: type)
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$image: ImageNode($id == id)
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then
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$image.setImageType(parseImageType($imageType));
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end
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// --------------------------------------- merging rules -------------------------------------------------------------------
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rule "merge intersecting Entities of same type"
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salience 100
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when
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$first: EntityNode($type: type, $entityType: entityType, !resized, !skipRemoveEntitiesContainedInLarger)
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$second: EntityNode(intersects($first), type == $type, entityType == $entityType, this != $first, !resized, !skipRemoveEntitiesContainedInLarger)
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@ -51,7 +111,6 @@ rule "merge intersecting Entities of same type"
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rule "remove Entity of type ENTITY when contained by FALSE_POSITIVE"
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salience 100
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when
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$falsePositive: EntityNode($type: type, entityType == EntityType.FALSE_POSITIVE)
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$entity: EntityNode(containedBy($falsePositive), type == $type, entityType == EntityType.ENTITY, !resized, !skipRemoveEntitiesContainedInLarger)
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@ -62,7 +121,6 @@ rule "remove Entity of type ENTITY when contained by FALSE_POSITIVE"
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rule "remove Entity of type RECOMMENDATION when contained by FALSE_RECOMMENDATION"
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salience 100
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when
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$falseRecommendation: EntityNode($type: type, entityType == EntityType.FALSE_RECOMMENDATION)
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$recommendation: EntityNode(containedBy($falseRecommendation), type == $type, entityType == EntityType.RECOMMENDATION, !resized, !skipRemoveEntitiesContainedInLarger)
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@ -73,7 +131,6 @@ rule "remove Entity of type RECOMMENDATION when contained by FALSE_RECOMMENDATIO
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rule "remove Entity of type RECOMMENDATION when contained by ENTITY"
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salience 100
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when
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$entity: EntityNode($type: type, entityType == EntityType.ENTITY)
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$recommendation: EntityNode(containedBy($entity), type == $type, entityType == EntityType.RECOMMENDATION, !resized, !skipRemoveEntitiesContainedInLarger)
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@ -84,7 +141,6 @@ rule "remove Entity of type RECOMMENDATION when contained by ENTITY"
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rule "remove Entity of lower rank, when equal boundaries and entityType"
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salience 100
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when
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$higherRank: EntityNode($type: type, $entityType: entityType, $boundary: boundary)
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$lowerRank: EntityNode($boundary == boundary, type != $type, entityType == $entityType, dictionary.getDictionaryRank(type) < dictionary.getDictionaryRank($type))
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@ -98,7 +154,6 @@ rule "remove Entity of lower rank, when equal boundaries and entityType"
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rule "run local dictionary search"
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agenda-group "LOCAL_DICTIONARY_ADDS"
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salience -999
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when
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DictionaryModel(!localEntries.isEmpty(), $type: type, $searchImplementation: localSearch) from dictionary.getDictionaryModels()
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then
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@ -107,12 +162,10 @@ rule "run local dictionary search"
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entityNodes.forEach(entityNode -> insert(entityNode));
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end
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// --------------------------------------- CBI rules -------------------------------------------------------------------
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rule "1: Redact CBI Authors (Non vertebrate study)"
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no-loop true
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when
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not FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$entity: EntityNode(type == "CBI_author", entityType == EntityType.ENTITY)
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@ -124,7 +177,6 @@ rule "1: Redact CBI Authors (Non vertebrate study)"
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rule "2: Redact CBI Authors (Vertebrate study)"
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no-loop true
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when
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FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$entity: EntityNode(type == "CBI_author", entityType == EntityType.ENTITY)
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@ -136,7 +188,6 @@ rule "2: Redact CBI Authors (Vertebrate study)"
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rule "3: Don't redact CBI Address (Non vertebrate study)"
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no-loop true
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when
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not FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$entity: EntityNode(type == "CBI_address", entityType == EntityType.ENTITY)
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@ -147,7 +198,6 @@ rule "3: Don't redact CBI Address (Non vertebrate study)"
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rule "4: Redact CBI Address (Vertebrate study)"
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no-loop true
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when
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FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$entity: EntityNode(type == "CBI_address", entityType == EntityType.ENTITY)
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@ -158,7 +208,6 @@ rule "4: Redact CBI Address (Vertebrate study)"
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end
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rule "5: Add FALSE_POSITIVE Entity for genitive CBI_author"
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when
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$entity: EntityNode(type == "CBI_author", anyMatch(textAfter, "['’’'ʼˈ´`‘′ʻ’']s"), redaction)
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then
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@ -167,10 +216,8 @@ rule "5: Add FALSE_POSITIVE Entity for genitive CBI_author"
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insert(falsePositive);
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end
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rule "6: Create Entity from Author(s) cells in Tables with Author(s) header and add Authorname as Recommendation"
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agenda-group "LOCAL_DICTIONARY_ADDS"
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when
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authorCell: TableCellNode(!header, (hasHeader("Author(s)") || hasHeader("Author")), hasText())
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then
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@ -182,7 +229,6 @@ rule "6: Create Entity from Author(s) cells in Tables with Author(s) header and
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rule "7: Add CBI_author with \"et al.\" Regex"
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agenda-group "LOCAL_DICTIONARY_ADDS"
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when
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$section: SectionNode(containsString("et al."))
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then
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@ -193,7 +239,6 @@ rule "7: Add CBI_author with \"et al.\" Regex"
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end
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rule "8: Add recommendation for Addresses in Test Organism sections"
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when
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//FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$section: SectionNode(containsString("Species") && containsString("Source") && !containsString("Species:") && !containsString("Source:"))
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@ -203,7 +248,6 @@ rule "8: Add recommendation for Addresses in Test Organism sections"
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entities.forEach(entity -> insert(entity));
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end
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rule "9: Add recommendation for Addresses in Test Animals sections"
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when
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@ -216,7 +260,6 @@ rule "9: Add recommendation for Addresses in Test Animals sections"
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end
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rule "12: Recommend CTL/BL laboratory that start with BL or CTL"
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when
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$section : SectionNode(containsString("BL") || containsString("CT"))
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then
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@ -226,13 +269,11 @@ rule "12: Recommend CTL/BL laboratory that start with BL or CTL"
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entities.forEach(entity -> dictionary.addLocalDictionaryEntry("PII", entity.getValue(), false));
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end
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// --------------------------------------- PII rules -------------------------------------------------------------------
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rule "10: Redacted PII Personal Identification Information (Non vertebrate study)"
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no-loop true
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when
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not FileAttribute(label == "Vertebrate Study" , value.toLowerCase() != "yes")
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$entity: EntityNode(type == "PII", entityType == EntityType.ENTITY)
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@ -242,11 +283,8 @@ rule "10: Redacted PII Personal Identification Information (Non vertebrate study
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update($entity)
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end
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rule "11: Redacted PII Personal Identification Information (Vertebrate study)"
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no-loop true
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when
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FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$entity: EntityNode(type == "PII", entityType == EntityType.ENTITY)
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@ -257,7 +295,6 @@ rule "11: Redacted PII Personal Identification Information (Vertebrate study)"
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end
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rule "12: Redact Emails by RegEx (Non vertebrate study)"
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when
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not FileAttribute(label == "Vertebrate Study" , value.toLowerCase() != "yes")
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$section: SectionNode(containsString("@"))
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@ -268,7 +305,6 @@ rule "12: Redact Emails by RegEx (Non vertebrate study)"
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end
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rule "13: Redact Emails by RegEx (Vertebrate study)"
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when
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FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
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$section: SectionNode(containsString("@"))
|
||||
@ -278,10 +314,8 @@ rule "13: Redact Emails by RegEx (Vertebrate study)"
|
||||
entities.forEach(entity -> insert(entity));
|
||||
end
|
||||
|
||||
|
||||
rule "14: Redact line after contact information (Non vertebrate study)"
|
||||
agenda-group "LOCAL_DICTIONARY_ADDS"
|
||||
|
||||
when
|
||||
not FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
|
||||
$string: String() from List.of("Contact point:",
|
||||
@ -313,10 +347,8 @@ rule "14: Redact line after contact information (Non vertebrate study)"
|
||||
entities.forEach(entity -> dictionary.addLocalDictionaryEntry("PII", entity.getValue(), false));
|
||||
end
|
||||
|
||||
|
||||
rule "15: Redact line after contact information (Vertebrate study)"
|
||||
agenda-group "LOCAL_DICTIONARY_ADDS"
|
||||
|
||||
when
|
||||
FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
|
||||
$string: String() from List.of("Contact point:",
|
||||
@ -346,10 +378,8 @@ rule "15: Redact line after contact information (Vertebrate study)"
|
||||
entities.forEach(entity -> dictionary.addLocalDictionaryEntry("PII", entity.getValue(), false));
|
||||
end
|
||||
|
||||
|
||||
rule "16: redact line between contact keywords"
|
||||
agenda-group "LOCAL_DICTIONARY_ADDS"
|
||||
|
||||
when
|
||||
not FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
|
||||
$section: SectionNode((containsString("No:") && containsString("Fax")) || (containsString("Contact:") && containsString("Tel")))
|
||||
@ -364,7 +394,6 @@ rule "16: redact line between contact keywords"
|
||||
|
||||
rule "17: redact line between contact keywords"
|
||||
agenda-group "LOCAL_DICTIONARY_ADDS"
|
||||
|
||||
when
|
||||
FileAttribute(label == "Vertebrate Study" , value.toLowerCase() == "yes")
|
||||
$section: SectionNode((containsString("No:") && containsString("Fax")) || (containsString("Contact:") && containsString("Tel")))
|
||||
@ -378,7 +407,6 @@ rule "17: redact line between contact keywords"
|
||||
end
|
||||
|
||||
rule "18: Redact Phone and Fax by RegEx"
|
||||
|
||||
when
|
||||
$section: SectionNode(containsString("Contact") ||
|
||||
containsString("Telephone") ||
|
||||
|
||||
Loading…
x
Reference in New Issue
Block a user