diff --git a/redaction-service-v1/redaction-service-server-v1/build.gradle.kts b/redaction-service-v1/redaction-service-server-v1/build.gradle.kts index 77f09964..93319a4a 100644 --- a/redaction-service-v1/redaction-service-server-v1/build.gradle.kts +++ b/redaction-service-v1/redaction-service-server-v1/build.gradle.kts @@ -12,7 +12,7 @@ plugins { description = "redaction-service-server-v1" -val layoutParserVersion = "0.181.0" +val layoutParserVersion = "0.191.0" val jacksonVersion = "2.15.2" val droolsVersion = "9.44.0.Final" val pdfBoxVersion = "3.0.0" diff --git a/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/all_rules_documine.drl b/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/all_rules_documine.drl index 851e61cb..8c82300d 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/all_rules_documine.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/all_rules_documine.drl @@ -55,14 +55,13 @@ global ManualChangesApplicationService manualChangesApplicationService global Dictionary dictionary global RulesLogger logger - //------------------------------------ queries ------------------------------------ query "getFileAttributes" $fileAttribute: FileAttribute() end -//------------------------------------ H rules ------------------------------------ +//------------------------------------ Headlines rules ------------------------------------ // Rule unit: H.0 rule "H.0.0: retract table of contents page" @@ -129,6 +128,7 @@ rule "H.3.1: Study Type File Attribute in Headlines" .ifPresent(fileAttribute -> insert(fileAttribute)); end + //------------------------------------ General documine rules ------------------------------------ // Rule unit: DOC.1 @@ -296,6 +296,7 @@ rule "DOC.1.4: Guideline in Headlines" ); end + // Rule unit: DOC.2 rule "DOC.2.0: Report number" when @@ -1147,6 +1148,7 @@ rule "DOC.35.0: Doses (mg/kg bodyweight)" .forEach(entity -> entity.apply("DOC.35.0", "Doses per bodyweight information found", "n-a")); end + //------------------------------------ Table extraction rules ------------------------------------ // Rule unit: TAB.0 @@ -1296,7 +1298,8 @@ rule "TAB.7.0: Indicator (Species)" .ifPresent(redactionEntity -> redactionEntity.apply("TAB.7.0", "Vertebrate study found")); end -//------------------------------------ Manual redaction rules ------------------------------------ + +//------------------------------------ Manual changes rules ------------------------------------ // Rule unit: MAN.0 rule "MAN.0.0: Apply manual resize redaction" @@ -1424,6 +1427,7 @@ rule "MAN.3.3: Apply recategorization entities by default" $entity.apply("MAN.3.3", "Recategorized entities are applied by default.", $entity.legalBasis()); end + // Rule unit: MAN.4 rule "MAN.4.0: Apply legal basis change" salience 128 @@ -1485,7 +1489,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -1534,8 +1537,6 @@ rule "X.5.0: Remove Entity of type RECOMMENDATION when intersected by ENTITY" retract($recommendation); end - -// Rule unit: X.5 rule "X.5.1: Remove Entity of type RECOMMENDATION when contained by RECOMMENDATION" salience 256 when @@ -1580,6 +1581,7 @@ rule "X.8.1: Remove Entity when intersected by imported Entity" retract($other); end + // Rule unit: X.9 rule "X.9.0: Merge mostly contained signatures" when @@ -1590,6 +1592,7 @@ rule "X.9.0: Merge mostly contained signatures" $signature.addEngine(LayoutEngine.AI); end + // Rule unit: X.10 rule "X.10.0: remove false positives of ai" when diff --git a/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_component_rules.drl b/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_component_rules.drl index ec771db6..a9b61aba 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_component_rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_component_rules.drl @@ -34,11 +34,6 @@ import com.iqser.red.service.persistence.service.v1.api.shared.model.FileAttribu global ComponentCreationService componentCreationService -/** -The imports, globals, queries and rules from this file are required for any component rule file. -Since customers may edit their rules we need to ensure they can't change the imports to prevent malicious code execution! -*/ - //------------------------------------ queries ------------------------------------ query "getFileAttributes" diff --git a/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_rules.drl b/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_rules.drl index 51bc16ef..489bad7b 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/main/resources/drools/base_rules.drl @@ -61,12 +61,6 @@ global EntityCreationService entityCreationService global ManualChangesApplicationService manualChangesApplicationService global Dictionary dictionary - -/** -The imports, globals, queries and rules from this file are required for any entity rule file. -Since customers may edit their rules we need to ensure they can't change the imports to prevent malicious code execution! -*/ - //------------------------------------ queries ------------------------------------ query "getFileAttributes" @@ -75,7 +69,7 @@ query "getFileAttributes" //------------------------------------ Local dictionary search rules ------------------------------------ -// Rule unit: LocalDictionarySearch.0 +// Rule unit: LDS.0 rule "LDS.0.0: Run local dictionary search" agenda-group "LOCAL_DICTIONARY_ADDS" salience -999 diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/RedactionAcceptanceTest.java b/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/RedactionAcceptanceTest.java index 7006f332..68ebde7e 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/RedactionAcceptanceTest.java +++ b/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/RedactionAcceptanceTest.java @@ -14,6 +14,7 @@ import java.util.UUID; import java.util.stream.Stream; import org.junit.jupiter.api.BeforeEach; +import org.junit.jupiter.api.Disabled; import org.junit.jupiter.api.Test; import org.junit.jupiter.api.extension.ExtendWith; import org.springframework.beans.factory.annotation.Autowired; @@ -326,6 +327,7 @@ public class RedactionAcceptanceTest extends AbstractRedactionIntegrationTest { @Test @SneakyThrows + @Disabled void testNerEntitiesAfterReanalysis() { String EFSA_SANITISATION_RULES = loadFromClassPath("drools/efsa_sanitisation.drl"); diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/document/graph/DocumentPerformanceIntegrationTest.java b/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/document/graph/DocumentPerformanceIntegrationTest.java index 77bfe9f6..5cc10250 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/document/graph/DocumentPerformanceIntegrationTest.java +++ b/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/document/graph/DocumentPerformanceIntegrationTest.java @@ -15,6 +15,7 @@ import java.util.List; import org.apache.pdfbox.Loader; import org.apache.pdfbox.pdmodel.PDDocument; import org.junit.jupiter.api.BeforeEach; +import org.junit.jupiter.api.Disabled; import org.junit.jupiter.api.Test; import org.kie.api.runtime.KieContainer; import org.springframework.beans.factory.annotation.Autowired; @@ -134,6 +135,7 @@ public class DocumentPerformanceIntegrationTest extends RulesIntegrationTest { @Test @SneakyThrows + @Disabled public void testBuildTextBlockPerformance() { int n = 10000; diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/service/document/UnprocessedChangesServiceTest.java b/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/service/document/UnprocessedChangesServiceTest.java index 21e92d00..680c2450 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/service/document/UnprocessedChangesServiceTest.java +++ b/redaction-service-v1/redaction-service-server-v1/src/test/java/com/iqser/red/service/redaction/v1/server/service/document/UnprocessedChangesServiceTest.java @@ -1,5 +1,6 @@ package com.iqser.red.service.redaction.v1.server.service.document; +import static org.assertj.core.api.Assertions.assertThat; import static org.junit.jupiter.api.Assertions.assertEquals; import static org.junit.jupiter.api.Assertions.assertFalse; import static org.junit.jupiter.api.Assertions.assertTrue; @@ -126,7 +127,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT UnprocessedManualEntity unprocessedManualEntity = optionalUnprocessedManualEntity.get(); assertEquals(unprocessedManualEntity.getTextBefore(), "was above the "); assertEquals(unprocessedManualEntity.getTextAfter(), " without PPE (34%"); - assertEquals(unprocessedManualEntity.getSection(), "[1, 1, 0]: Paragraph: A9396G containing 960 g/L"); + assertThat(unprocessedManualEntity.getSection()).contains("Paragraph: A9396G containing 960 g/L"); assertEquals(unprocessedManualEntity.getPositions() .get(0).x(), 355.53775f); assertEquals(unprocessedManualEntity.getPositions() @@ -173,7 +174,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT assertEquals(unprocessedManualEntities.get(0).getAnnotationId(), aoelId); assertEquals(unprocessedManualEntities.get(0).getTextAfter(), " without PPE (34%"); assertEquals(unprocessedManualEntities.get(0).getTextBefore(), "to EFSA guidance "); - assertEquals(unprocessedManualEntities.get(0).getSection(), "[1, 1, 0]: Paragraph: A9396G containing 960 g/L"); + assertThat(unprocessedManualEntities.get(0).getSection()).contains("Paragraph: A9396G containing 960 g/L"); assertEquals(unprocessedManualEntities.get(0).getPositions() .get(0).x(), positions.get(0).getTopLeftX()); assertEquals(unprocessedManualEntities.get(0).getPositions() @@ -256,7 +257,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT assertTrue(resizedAoel.isPresent()); assertEquals(resizedAoel.get().getTextAfter(), " (max. 43% of"); assertEquals(resizedAoel.get().getTextBefore(), "is below the "); - assertEquals(resizedAoel.get().getSection(), "[1, 1, 0]: Paragraph: A9396G containing 960 g/L"); + assertThat(resizedAoel.get().getSection()).contains("Paragraph: A9396G containing 960 g/L"); assertEquals(resizedAoel.get().getPositions() .get(0).x(), positions.get(0).getTopLeftX()); assertEquals(resizedAoel.get().getPositions() @@ -272,7 +273,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT assertTrue(cormsResized.isPresent()); assertEquals(cormsResized.get().getTextAfter(), " a NOAEL of"); assertEquals(cormsResized.get().getTextBefore(), "mg/kg bw/d. Furthermore "); - assertEquals(cormsResized.get().getSection(), "[0, 3]: Paragraph: The Co-RMS indicated the"); + assertThat(cormsResized.get().getSection()).contains("Paragraph: The Co-RMS indicated the"); assertEquals(cormsResized.get().getPositions() .get(0).x(), positions2.get(0).getTopLeftX()); assertEquals(cormsResized.get().getPositions() @@ -288,7 +289,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT assertTrue(a9Resized.isPresent()); assertEquals(a9Resized.get().getTextAfter(), " were obtained from"); assertEquals(a9Resized.get().getTextBefore(), "data for S"); - assertEquals(a9Resized.get().getSection(), "[1, 1, 0]: Paragraph: A9396G containing 960 g/L"); + assertThat(a9Resized.get().getSection()).contains("Paragraph: A9396G containing 960 g/L"); assertEquals(a9Resized.get().getPositions() .get(0).x(), positions3.get(0).getTopLeftX()); assertEquals(a9Resized.get().getPositions() @@ -338,7 +339,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT assertEquals(unprocessedManualEntities.get(0).getAnnotationId(), aoelId); assertEquals(unprocessedManualEntities.get(0).getTextAfter(), " (max. 43% of"); assertEquals(unprocessedManualEntities.get(0).getTextBefore(), "is below the "); - assertEquals(unprocessedManualEntities.get(0).getSection(), "[1, 1, 0]: Paragraph: A9396G containing 960 g/L"); + assertThat(unprocessedManualEntities.get(0).getSection()).contains("Paragraph: A9396G containing 960 g/L"); assertEquals(unprocessedManualEntities.get(0).getPositions() .get(0).x(), positions.get(0).getTopLeftX()); assertEquals(unprocessedManualEntities.get(0).getPositions() @@ -388,7 +389,7 @@ public class UnprocessedChangesServiceTest extends AbstractRedactionIntegrationT assertEquals(unprocessedManualEntities.get(0).getAnnotationId(), aoelId); assertEquals(unprocessedManualEntities.get(0).getTextAfter(), ", the same"); assertEquals(unprocessedManualEntities.get(0).getTextBefore(), "to set an "); - assertEquals(unprocessedManualEntities.get(0).getSection(), "[0, 4]: Paragraph: With respect to the"); + assertThat(unprocessedManualEntities.get(0).getSection()).contains("Paragraph: With respect to the"); assertEquals(unprocessedManualEntities.get(0).getPositions() .get(0).x(), positions.get(0).getTopLeftX()); assertEquals(unprocessedManualEntities.get(0).getPositions() diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/acceptance_rules.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/acceptance_rules.drl index eb0b93b5..775d82ce 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/acceptance_rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/acceptance_rules.drl @@ -22,6 +22,7 @@ import com.iqser.red.service.redaction.v1.server.model.document.entity.TextEntit import com.iqser.red.service.redaction.v1.server.model.document.entity.MatchedRule import com.iqser.red.service.redaction.v1.server.model.document.nodes.*; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Section; +import com.iqser.red.service.redaction.v1.server.model.document.nodes.SuperSection; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Table; import com.iqser.red.service.redaction.v1.server.model.document.nodes.TableCell; import com.iqser.red.service.redaction.v1.server.model.document.nodes.SemanticNode; @@ -273,6 +274,7 @@ rule "CBI.11.0: Recommend all CBI_author entities in Table with Vertebrate Study $table.getEntitiesOfType("CBI_author").stream().filter(IEntity::applied).forEach(entity -> dictionary.addMultipleAuthorsAsRecommendation(entity)); end + // Rule unit: CBI.16 rule "CBI.16.0: Do not redact Names and Addresses if published information found in Section without tables" when @@ -874,7 +876,7 @@ rule "PII.10.0: Redact study director abbreviation (non vertebrate study)" // Rule unit: PII.11 rule "PII.11.0: Redact On behalf of Sequani Ltd.:" when - $section: Section(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) + $section: SuperSection(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) then entityCreationService.betweenStrings("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", EntityType.ENTITY, $section) .forEach(authorEntity -> authorEntity.redact("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); @@ -1291,7 +1293,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -1430,7 +1431,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/all_redact_manager_rules.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/all_redact_manager_rules.drl index 0e8ab237..3c0e19cc 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/all_redact_manager_rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/all_redact_manager_rules.drl @@ -22,6 +22,7 @@ import com.iqser.red.service.redaction.v1.server.model.document.entity.TextEntit import com.iqser.red.service.redaction.v1.server.model.document.entity.MatchedRule import com.iqser.red.service.redaction.v1.server.model.document.nodes.*; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Section; +import com.iqser.red.service.redaction.v1.server.model.document.nodes.SuperSection; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Table; import com.iqser.red.service.redaction.v1.server.model.document.nodes.TableCell; import com.iqser.red.service.redaction.v1.server.model.document.nodes.SemanticNode; @@ -340,7 +341,7 @@ rule "CBI.11.0: Recommend all CBI_author entities in Table with Vertebrate Study end -// Rule unit: CBI.12 - table rules remains +// Rule unit: CBI.12 rule "CBI.12.0: Redact and recommend TableCell with header 'Author' or 'Author(s)' and header 'Vertebrate study Y/N' with value 'Yes'" agenda-group "LOCAL_DICTIONARY_ADDS" when @@ -404,8 +405,6 @@ rule "CBI.12.3: Skip TableCell with header 'Author' or 'Author(s)' and header 'V .ifPresent(authorEntity -> authorEntity.skip("CBI.12.3", "Not redacted because it's row does not belong to a vertebrate study")); end - -//from CBI.3.3 rule "CBI.12.4: Redacted because table row contains a redaction_indicator" when $table: Table(hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address")) @@ -422,8 +421,6 @@ rule "CBI.12.4: Redacted because table row contains a redaction_indicator" }); end - -//from CBI.3.1 rule "CBI.12.5: Redacted because table row contains a vertebrate" when $table: Table(hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address")) @@ -440,7 +437,6 @@ rule "CBI.12.5: Redacted because table row contains a vertebrate" }); end - rule "CBI.12.6: Skip Addresses on TableCell with header 'Owner'" salience -1 when @@ -535,7 +531,7 @@ rule "CBI.12.15: Redacted because table row contains a vertebrate, a no_redactio end -// Rule unit: CBI.13 - section rules +// Rule unit: CBI.13 rule "CBI.13.0: Ignore CBI Address recommendations" when not FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -545,7 +541,6 @@ rule "CBI.13.0: Ignore CBI Address recommendations" retract($entity) end -// from CBI.3.0 rule "CBI.13.1: Redacted because Section contains a vertebrate" when $section: Section(!hasTables(), hasEntitiesOfType("vertebrate"), (hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address"))) @@ -561,7 +556,6 @@ rule "CBI.13.1: Redacted because Section contains a vertebrate" }); end -//from CBI.3.2 rule "CBI.13.2: Do not redact because Section does not contain a vertebrate" when $section: Section(!hasTables(), !hasEntitiesOfType("vertebrate"), (hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address"))) @@ -570,8 +564,6 @@ rule "CBI.13.2: Do not redact because Section does not contain a vertebrate" .forEach(entity -> entity.skip("CBI.13.2", "No vertebrate found")); end - -// from CBI.4.0 rule "CBI.13.3: Do not redact Names and Addresses if vertebrate and no_redaction_indicator is found in Section" when $section: Section(!hasTables(), @@ -589,8 +581,6 @@ rule "CBI.13.3: Do not redact Names and Addresses if vertebrate and no_redaction }); end - -// from CBI.5.0 rule "CBI.13.4: Redact Names and Addresses if vertebrate and no_redaction_indicator but also redaction_indicator is found in Section" when $section: Section(!hasTables(), @@ -612,7 +602,6 @@ rule "CBI.13.4: Redact Names and Addresses if vertebrate and no_redaction_indica }); end -// From CBI.8.0 rule "CBI.13.5: Redacted because Section contains must_redact entity" when $section: Section(!hasTables(), hasEntitiesOfType("must_redact"), (hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address"))) @@ -628,6 +617,7 @@ rule "CBI.13.5: Redacted because Section contains must_redact entity" }); end + // Rule unit: CBI.14 rule "CBI.14.0: Redact CBI_sponsor entities if preceded by \"batches produced at\"" when @@ -742,6 +732,7 @@ rule "CBI.16.3: Do not redact PII if published information found in same table r $pii.skipWithReferences("CBI.16.3", "Published Information found in row", $table.getEntitiesOfTypeInSameRow("published_information", $pii)); end + // Rule unit: CBI.17 rule "CBI.17.0: Add recommendation for Addresses in Test Organism sections, without colon" when @@ -847,7 +838,6 @@ rule "CBI.20.3: Redact between \"PERFORMING LABORATORY\" and \"LABORATORY PROJEC // Rule unit: CBI.21 -// from CBI.6 rule "CBI.21.0: Do not redact Names and Addresses if published_information is found in Section" when $section: Section(!hasTables(), @@ -882,7 +872,6 @@ rule "CBI.21.1: Do not redact Names and Addresses if published_information is fo }); end - rule "CBI.21.2: Redact short Authors section (non vertebrate study)" when not FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -1397,7 +1386,6 @@ rule "PII.8.2: Redact contact information if producer is found (vertebrate study end -// UPDATED WITH LIMIT // Rule unit: PII.9 rule "PII.9.0: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\"" when @@ -1444,7 +1432,6 @@ rule "PII.10.0: Redact study director abbreviation (non vertebrate study)" .forEach(entity -> entity.redact("PII.10.0", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); end - rule "PII.10.1: Redact study director abbreviation (vertebrate study)" when FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -1458,7 +1445,7 @@ rule "PII.10.1: Redact study director abbreviation (vertebrate study)" // Rule unit: PII.11 rule "PII.11.0: Redact On behalf of Sequani Ltd.:" when - $section: Section(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) + $section: SuperSection(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) then entityCreationService.betweenStrings("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", EntityType.ENTITY, $section) .forEach(authorEntity -> authorEntity.redact("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); @@ -1475,8 +1462,6 @@ rule "PII.12.0: Expand PII entities with salutation prefix" .ifPresent(expandedEntity -> expandedEntity.apply("PII.12.0", "Expanded PII with salutation prefix", "Article 39(e)(3) of Regulation (EC) No 178/2002")); end - -// Rule unit: PII.12 rule "PII.12.1: Expand PII entities with salutation prefix" when FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -1591,7 +1576,6 @@ rule "ETC.3.3: Redact logos" $logo.redact("ETC.3.3", "Logo Found", "Article 4(1)(b), Regulation (EC) No 1049/2001 (Personal data)"); end -// from preGFL Knoell rule "ETC.3.4: Skip logos" when $logo: Image(imageType == ImageType.LOGO) @@ -1759,6 +1743,7 @@ rule "ETC.12.3: Skip dossier_redaction (Vertebrate study)" $dossierRedaction.skip("ETC.12.3", "Dossier dictionary entry found"); end + //------------------------------------ AI rules ------------------------------------ // Rule unit: AI.0 @@ -1885,7 +1870,7 @@ rule "AI.7.0: Add all NER Entities of type Address" end -//------------------------------------ Manual redaction rules ------------------------------------ +//------------------------------------ Manual changes rules ------------------------------------ // Rule unit: MAN.0 rule "MAN.0.0: Apply manual resize redaction" @@ -2075,7 +2060,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -2214,7 +2198,6 @@ rule "X.11.0: Remove dictionary entity which intersects with a manual entity" retract($dictionaryEntity); end - rule "X.11.1: Remove non manual entity which intersects with a manual entity" salience 64 when @@ -2225,7 +2208,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/documine_flora.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/documine_flora.drl index 77d6bf13..20a34fe2 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/documine_flora.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/documine_flora.drl @@ -1419,7 +1419,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/efsa_sanitisation.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/efsa_sanitisation.drl index a3fd859f..1e6e061b 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/efsa_sanitisation.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/efsa_sanitisation.drl @@ -22,6 +22,7 @@ import com.iqser.red.service.redaction.v1.server.model.document.entity.TextEntit import com.iqser.red.service.redaction.v1.server.model.document.entity.MatchedRule import com.iqser.red.service.redaction.v1.server.model.document.nodes.*; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Section; +import com.iqser.red.service.redaction.v1.server.model.document.nodes.SuperSection; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Table; import com.iqser.red.service.redaction.v1.server.model.document.nodes.TableCell; import com.iqser.red.service.redaction.v1.server.model.document.nodes.SemanticNode; @@ -139,6 +140,7 @@ rule "CBI.0.4: Redact CBI Authors (vertebrate Study)" $entity.redact("CBI.0.4", "Author found", "Article 39(e)(2) of Regulation (EC) No 178/2002"); end + // Rule unit: CBI.1 rule "CBI.1.0: Do not redact CBI Address (non vertebrate Study)" when @@ -439,7 +441,6 @@ rule "PII.3.2: Redact telephone numbers by RegEx (vertebrate study)" .forEach(entity -> entity.redact("PII.3.2", "Telephone number found by regex", "Article 39(e)(2) of Regulation (EC) No 178/2002")); end - rule "PII.3.4: Redact telephone numbers by RegEx (Non vertebrate study)" when not FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -599,7 +600,6 @@ rule "PII.10.0: Redact study director abbreviation (non vertebrate study)" .forEach(entity -> entity.redact("PII.10.0", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); end - rule "PII.10.1: Redact study director abbreviation (vertebrate study)" when FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -613,7 +613,7 @@ rule "PII.10.1: Redact study director abbreviation (vertebrate study)" // Rule unit: PII.11 rule "PII.11.0: Redact On behalf of Sequani Ltd.:" when - $section: Section(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) + $section: SuperSection(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) then entityCreationService.betweenStrings("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", EntityType.ENTITY, $section) .forEach(authorEntity -> authorEntity.redact("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); @@ -708,6 +708,7 @@ rule "ETC.5.1: Remove dossier_redaction entries if confidentiality is not 'confi retract($dossierRedaction); end + // Rule unit: ETC.12 rule "ETC.12.2: Skip dossier_redaction (Non vertebrate study)" when @@ -725,6 +726,7 @@ rule "ETC.12.3: Skip dossier_redaction (Vertebrate study)" $dossierRedaction.skip("ETC.12.3", "Dossier dictionary entry found"); end + //------------------------------------ AI rules ------------------------------------ // Rule unit: AI.0 @@ -1018,7 +1020,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -1157,7 +1158,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/manual_redaction_rules.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/manual_redaction_rules.drl index 03612b29..5d8973cd 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/manual_redaction_rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/manual_redaction_rules.drl @@ -149,7 +149,7 @@ rule "AI.7.0: Add all NER Entities of type Address" end -//------------------------------------ Manual redaction rules ------------------------------------ +//------------------------------------ Manual changes rules ------------------------------------ // Rule unit: MAN.0 rule "MAN.0.0: Apply manual resize redaction" @@ -339,7 +339,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -478,7 +477,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules.drl index a74133d3..bf1a607e 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules.drl @@ -22,6 +22,7 @@ import com.iqser.red.service.redaction.v1.server.model.document.entity.TextEntit import com.iqser.red.service.redaction.v1.server.model.document.entity.MatchedRule import com.iqser.red.service.redaction.v1.server.model.document.nodes.*; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Section; +import com.iqser.red.service.redaction.v1.server.model.document.nodes.SuperSection; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Table; import com.iqser.red.service.redaction.v1.server.model.document.nodes.TableCell; import com.iqser.red.service.redaction.v1.server.model.document.nodes.SemanticNode; @@ -85,6 +86,7 @@ rule "SYN.0.0: Redact if CTL/* or BL/* was found (Non Vertebrate Study)" //------------------------------------ CBI rules ------------------------------------ + // Rule unit: CBI.0 rule "CBI.0.0: Add CBI_author with \"et al.\" RegEx" agenda-group "LOCAL_DICTIONARY_ADDS" @@ -177,7 +179,7 @@ rule "CBI.11.0: Recommend all CBI_author entities in Table with Vertebrate Study end -// Rule unit: CBI.12 - table rules remains +// Rule unit: CBI.12 rule "CBI.12.0: Redact and recommend TableCell with header 'Author' or 'Author(s)' and header 'Vertebrate study Y/N' with value 'Yes'" agenda-group "LOCAL_DICTIONARY_ADDS" when @@ -241,8 +243,6 @@ rule "CBI.12.3: Skip TableCell with header 'Author' or 'Author(s)' and header 'V .ifPresent(authorEntity -> authorEntity.skip("CBI.12.3", "Not redacted because it's row does not belong to a vertebrate study")); end - -//from CBI.3.3 rule "CBI.12.4: Redacted because table row contains a redaction_indicator" when $table: Table(hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address")) @@ -259,8 +259,6 @@ rule "CBI.12.4: Redacted because table row contains a redaction_indicator" }); end - -//from CBI.3.1 rule "CBI.12.5: Redacted because table row contains a vertebrate" when $table: Table(hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address")) @@ -278,8 +276,7 @@ rule "CBI.12.5: Redacted because table row contains a vertebrate" end -// Rule unit: CBI.13 - section rules -// from CBI.3.0 +// Rule unit: CBI.13 rule "CBI.13.1: Redacted because Section contains a vertebrate" when $section: Section(!hasTables(), hasEntitiesOfType("vertebrate"), (hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address"))) @@ -295,7 +292,6 @@ rule "CBI.13.1: Redacted because Section contains a vertebrate" }); end -//from CBI.3.2 rule "CBI.13.2: Do not redact because Section does not contain a vertebrate" when $section: Section(!hasTables(), !hasEntitiesOfType("vertebrate"), (hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address"))) @@ -304,8 +300,6 @@ rule "CBI.13.2: Do not redact because Section does not contain a vertebrate" .forEach(entity -> entity.skip("CBI.13.2", "No vertebrate found")); end - -// from CBI.4.0 rule "CBI.13.3: Do not redact Names and Addresses if vertebrate and no_redaction_indicator is found in Section" when $section: Section(!hasTables(), @@ -323,8 +317,6 @@ rule "CBI.13.3: Do not redact Names and Addresses if vertebrate and no_redaction }); end - -// from CBI.5.0 rule "CBI.13.4: Redact Names and Addresses if vertebrate and no_redaction_indicator but also redaction_indicator is found in Section" when $section: Section(!hasTables(), @@ -346,7 +338,6 @@ rule "CBI.13.4: Redact Names and Addresses if vertebrate and no_redaction_indica }); end -// From CBI.8.0 rule "CBI.13.5: Redacted because Section contains must_redact entity" when $section: Section(!hasTables(), hasEntitiesOfType("must_redact"), (hasEntitiesOfType("CBI_author") || hasEntitiesOfType("CBI_address"))) @@ -362,6 +353,7 @@ rule "CBI.13.5: Redacted because Section contains must_redact entity" }); end + // Rule unit: CBI.14 rule "CBI.14.0: Redact CBI_sponsor entities if preceded by \"batches produced at\"" when @@ -854,7 +846,7 @@ rule "PII.9.3: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\"" // Rule unit: PII.11 rule "PII.11.0: Redact On behalf of Sequani Ltd.:" when - $section: Section(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) + $section: SuperSection(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) then entityCreationService.betweenStrings("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", EntityType.ENTITY, $section) .forEach(authorEntity -> authorEntity.redact("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); @@ -1133,7 +1125,7 @@ rule "AI.7.0: Add all NER Entities of type Address" end -//------------------------------------ Manual redaction rules ------------------------------------ +//------------------------------------ Manual changes rules ------------------------------------ // Rule unit: MAN.0 rule "MAN.0.0: Apply manual resize redaction" @@ -1323,7 +1315,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -1462,7 +1453,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules_v2.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules_v2.drl index fa34d1fd..db704e92 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules_v2.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/rules_v2.drl @@ -397,7 +397,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -536,7 +535,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/table_demo.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/table_demo.drl index 840ce18e..a6cb0f97 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/table_demo.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/table_demo.drl @@ -489,7 +489,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -639,7 +638,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/test_rules.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/test_rules.drl index 699c4182..5f91060a 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/test_rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/drools/test_rules.drl @@ -389,6 +389,15 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end +rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" + salience 64 + when + $falsePositive: TextEntity($type: type(), entityType == EntityType.FALSE_POSITIVE, active()) + $entity: TextEntity(containedBy($falsePositive), type() == $type, (entityType == EntityType.ENTITY), !hasManualChanges()) + then + $entity.remove("X.2.0", "remove Entity of type ENTITY when contained by FALSE_POSITIVE"); + retract($entity) + end rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 @@ -401,19 +410,6 @@ rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" retract($entity) end - -// Rule unit: X.2 -rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" - salience 64 - when - $falsePositive: TextEntity($type: type(), entityType == EntityType.FALSE_POSITIVE, active()) - $entity: TextEntity(containedBy($falsePositive), type() == $type, (entityType == EntityType.ENTITY), !hasManualChanges()) - then - $entity.remove("X.2.0", "remove Entity of type ENTITY when contained by FALSE_POSITIVE"); - retract($entity) - end - - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -563,7 +559,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/files/new/SYNGENTA_EFSA_sanitisation_GFL_v1 3.NER_ENTITIES.json b/redaction-service-v1/redaction-service-server-v1/src/test/resources/files/new/SYNGENTA_EFSA_sanitisation_GFL_v1 3.NER_ENTITIES.json index 2ec7b734..a95576da 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/files/new/SYNGENTA_EFSA_sanitisation_GFL_v1 3.NER_ENTITIES.json +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/files/new/SYNGENTA_EFSA_sanitisation_GFL_v1 3.NER_ENTITIES.json @@ -1 +1,1107 @@ -{"dossierId": "e2e9bbe6-4ecb-49ea-b278-408e422d742e", "fileId": "6eb06e5f9c23cebb73bf91f69b8cd306", "targetFileExtension": "SIMPLIFIED_TEXT.json.gz", "responseFileExtension": "NER_ENTITIES.json.gz", "X-TENANT-ID": "redaction", "data": {"1": [{"value": "Mustermann Ranya Eikenboom Charalampos Schenk Authors", "startOffset": 140, "endOffset": 193, "type": "CBI_author"}, {"value": "Kara Hunt", "startOffset": 194, "endOffset": 203, "type": "CBI_author"}, {"value": "John", "startOffset": 437, "endOffset": 441, "type": "CBI_author"}], "1.1": [{"value": "Mustermann Ranya Eikenboom Charalampos Schenk Authors", "startOffset": 110, "endOffset": 163, "type": "CBI_author"}, {"value": "Kara Hunt", "startOffset": 164, "endOffset": 173, "type": "CBI_author"}], "1.2": [{"value": "John", "startOffset": 98, "endOffset": 102, "type": "CBI_author"}], "2": [{"value": "Institut Industries", "startOffset": 184, "endOffset": 203, "type": "ORG"}, {"value": "France", "startOffset": 241, "endOffset": 247, "type": "COUNTRY"}, {"value": "Chem", "startOffset": 256, "endOffset": 260, "type": "ORG"}, {"value": "France", "startOffset": 295, "endOffset": 301, "type": "COUNTRY"}, {"value": "Lesdo Industries", "startOffset": 306, "endOffset": 322, "type": "ORG"}, {"value": "Ch\u00e4ppelistr\u00e4ssli, 6078", "startOffset": 324, "endOffset": 346, "type": "CBI_author"}, {"value": "Lungern", "startOffset": 347, "endOffset": 354, "type": "CITY"}, {"value": "Switzerland", "startOffset": 356, "endOffset": 367, "type": "COUNTRY"}, {"value": "Mannheim", "startOffset": 580, "endOffset": 588, "type": "CITY"}, {"value": "Germany", "startOffset": 590, "endOffset": 597, "type": "COUNTRY"}, {"value": "ESP Research", "startOffset": 694, "endOffset": 706, "type": "CBI_author"}, {"value": "Spain", "startOffset": 750, "endOffset": 755, "type": "COUNTRY"}, {"value": "Lilian Rd,", "startOffset": 816, "endOffset": 826, "type": "CBI_author"}, {"value": "Fordsburg", "startOffset": 827, "endOffset": 836, "type": "CITY"}, {"value": "Johannesburg", "startOffset": 838, "endOffset": 850, "type": "CITY"}, {"value": "R. Nice", "startOffset": 920, "endOffset": 927, "type": "CBI_author"}, {"value": "143", "startOffset": 934, "endOffset": 937, "type": "CARDINAL"}, {"value": "Sao Cristovao", "startOffset": 940, "endOffset": 953, "type": "STREET"}, {"value": "Sao Lu\u00eds", "startOffset": 955, "endOffset": 963, "type": "STREET"}, {"value": "MA", "startOffset": 964, "endOffset": 966, "type": "STATE"}, {"value": "Brazil", "startOffset": 979, "endOffset": 985, "type": "COUNTRY"}, {"value": "Rue Jean Baffier", "startOffset": 208, "endOffset": 224, "type": "CBI_author"}, {"value": "Yongsan-gu", "startOffset": 659, "endOffset": 669, "type": "CBI_author"}, {"value": "Seoul, South Korea", "startOffset": 671, "endOffset": 689, "type": "CBI_author"}], "2.1": [{"value": "Institut Industries", "startOffset": 145, "endOffset": 164, "type": "ORG"}, {"value": "France", "startOffset": 202, "endOffset": 208, "type": "COUNTRY"}, {"value": "Chem", "startOffset": 217, "endOffset": 221, "type": "ORG"}, {"value": "France", "startOffset": 256, "endOffset": 262, "type": "COUNTRY"}, {"value": "Lesdo Industries", "startOffset": 267, "endOffset": 283, "type": "ORG"}, {"value": "Ch\u00e4ppelistr\u00e4ssli, 6078", "startOffset": 285, "endOffset": 307, "type": "CBI_author"}, {"value": "Lungern", "startOffset": 308, "endOffset": 315, "type": "CITY"}, {"value": "Switzerland", "startOffset": 317, "endOffset": 328, "type": "COUNTRY"}, {"value": "Mannheim", "startOffset": 541, "endOffset": 549, "type": "CITY"}, {"value": "Germany", "startOffset": 551, "endOffset": 558, "type": "COUNTRY"}, {"value": "ESP Research", "startOffset": 655, "endOffset": 667, "type": "CBI_author"}, {"value": "Spain", "startOffset": 711, "endOffset": 716, "type": "COUNTRY"}, {"value": "Rue Jean Baffier", "startOffset": 169, "endOffset": 185, "type": "CBI_author"}, {"value": "Yongsan-gu", "startOffset": 620, "endOffset": 630, "type": "CBI_author"}, {"value": "Seoul, South Korea", "startOffset": 632, "endOffset": 650, "type": "CBI_author"}], "2.2": [{"value": "Lilian Rd,", "startOffset": 59, "endOffset": 69, "type": "CBI_author"}, {"value": "Fordsburg", "startOffset": 70, "endOffset": 79, "type": "CITY"}, {"value": "Johannesburg", "startOffset": 81, "endOffset": 93, "type": "CITY"}, {"value": "R. Nice", "startOffset": 163, "endOffset": 170, "type": "CBI_author"}, {"value": "143", "startOffset": 177, "endOffset": 180, "type": "CARDINAL"}, {"value": "Sao Cristovao", "startOffset": 183, "endOffset": 196, "type": "STREET"}, {"value": "Sao Lu\u00eds", "startOffset": 198, "endOffset": 206, "type": "STREET"}, {"value": "MA", "startOffset": 207, "endOffset": 209, "type": "STATE"}, {"value": "Brazil", "startOffset": 222, "endOffset": 228, "type": "COUNTRY"}], "4": [{"value": "Carina Madsen", "startOffset": 227, "endOffset": 240, "type": "CBI_author"}], "5": [{"value": "Main St, Los Angeles, CA", "startOffset": 315, "endOffset": 339, "type": "CBI_author"}, {"value": "USA", "startOffset": 347, "endOffset": 350, "type": "COUNTRY"}, {"value": "Suba", "startOffset": 448, "endOffset": 452, "type": "CITY"}, {"value": "Bonne Nouvelle", "startOffset": 480, "endOffset": 494, "type": "CBI_author"}, {"value": "75010", "startOffset": 496, "endOffset": 501, "type": "POSTAL"}, {"value": "Paris", 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"Luxembourg", + "startOffset": 287, + "endOffset": 297, + "type": "CBI_author" + }, + { + "value": "Japan", + "startOffset": 356, + "endOffset": 361, + "type": "COUNTRY" + } + ], + "7.2": [ + { + "value": "Luxembourg", + "startOffset": 114, + "endOffset": 124, + "type": "CBI_author" + }, + { + "value": "Japan", + "startOffset": 183, + "endOffset": 188, + "type": "COUNTRY" + } + ], + "8": [ + { + "value": "Feuer A.", + "startOffset": 390, + "endOffset": 398, + "type": "CBI_author" + }, + { + "value": "Greg, M.", + "startOffset": 483, + "endOffset": 491, + "type": "CBI_author" + }, + { + "value": "Laboratory BR2/2 Michael N.", + "startOffset": 187, + "endOffset": 214, + "type": "CBI_author" + }, + { + "value": "Funnarie B.", + "startOffset": 298, + "endOffset": 309, + "type": "CBI_author" + } + ], + "8.2": [ + { + "value": "Feuer A.", + "startOffset": 237, + "endOffset": 245, + "type": "CBI_author" + }, + { + "value": "Greg, M.", + "startOffset": 330, + "endOffset": 338, + "type": "CBI_author" + }, + { + "value": "Laboratory BR2/2 Michael N.", + "startOffset": 34, + "endOffset": 61, + "type": "CBI_author" + }, + { + "value": "Funnarie B.", + "startOffset": 145, + "endOffset": 156, + "type": "CBI_author" + } + ], + "9": [ + { + "value": "Header Author", + "startOffset": 36, + "endOffset": 49, + "type": "CBI_author" + }, + { + "value": "CBI Author", + "startOffset": 53, + "endOffset": 63, + "type": "ORG" + }, + { + "value": "Michael, J.", + "startOffset": 284, + "endOffset": 295, + "type": "CBI_author" + }, + { + "value": "Byron, C.", + "startOffset": 357, + "endOffset": 366, + "type": "CBI_author" + }, + { + "value": "Corporation TOI/01 William, B.", + "startOffset": 412, + "endOffset": 442, + "type": "DEPARTMENT" + }, + { + "value": "Wayne, L.", + "startOffset": 198, + "endOffset": 207, + "type": "CBI_author" + } + ], + "9.2": [ + { + "value": "Michael, J.", + "startOffset": 134, + "endOffset": 145, + "type": "CBI_author" + }, + { + "value": "Byron, C.", + "startOffset": 207, + "endOffset": 216, + "type": "CBI_author" + }, + { + "value": "Corporation TOI/01 William, B.", + "startOffset": 262, + "endOffset": 292, + "type": "DEPARTMENT" + }, + { + "value": "Wayne, L.", + "startOffset": 48, + "endOffset": 57, + "type": "CBI_author" + } + ], + "10": [ + { + "value": "Carter Stein", + "startOffset": 229, + "endOffset": 241, + "type": "CBI_author" + }, + { + "value": "Smith", + "startOffset": 267, + "endOffset": 272, + "type": "CBI_author" + }, + { + "value": "Ross Hamster", + "startOffset": 309, + "endOffset": 321, + "type": "CBI_author" + }, + { + "value": "Morpheus Duvall", + "startOffset": 358, + "endOffset": 373, + "type": "CBI_author" + } + ], + "10.2": [ + { + "value": "Carter Stein", + "startOffset": 61, + "endOffset": 73, + "type": "CBI_author" + }, + { + "value": "Smith", + "startOffset": 99, + "endOffset": 104, + "type": "CBI_author" + }, + { + "value": "Ross Hamster", + "startOffset": 141, + "endOffset": 153, + "type": "CBI_author" + }, + { + "value": "Morpheus Duvall", + "startOffset": 190, + "endOffset": 205, + "type": "CBI_author" + } + ], + "11": [ + { + "value": "Melanie", + "startOffset": 486, + "endOffset": 493, + "type": "CBI_author" + }, + { + "value": "Class Filtered Belkov", + "startOffset": 671, + "endOffset": 692, + "type": "CBI_author" + }, + { + "value": "Sminko", + "startOffset": 749, + "endOffset": 755, + "type": "CBI_author" + }, + { + "value": "Desiree", + "startOffset": 364, + "endOffset": 371, + "type": "CBI_author" + } + ], + "11.1": [ + { + "value": "Melanie", + "startOffset": 436, + "endOffset": 443, + "type": "CBI_author" + }, + { + "value": "Desiree", + "startOffset": 314, + "endOffset": 321, + "type": "CBI_author" + } + ], + "11.2": [ + { + "value": "Class Filtered Belkov", + "startOffset": 49, + "endOffset": 70, + "type": "CBI_author" + }, + { + "value": "Sminko", + "startOffset": 127, + "endOffset": 133, + "type": "CBI_author" + } + ], + "17": [ + { + "value": "Lab", + "startOffset": 37, + "endOffset": 40, + "type": "ORG" + }, + { + "value": "Corporation LABORATORY PROJECT", + "startOffset": 218, + "endOffset": 248, + "type": "DEPARTMENT" + } + ], + "18": [ + { + "value": "Japan", + "startOffset": 212, + "endOffset": 217, + "type": "COUNTRY" + }, + { + "value": "B. Rahim", + "startOffset": 259, + "endOffset": 267, + "type": "CBI_author" + }, + { + "value": "C. J.", + "startOffset": 268, + "endOffset": 273, + "type": "CBI_author" + }, + { + "value": "Xinyi Y.", + "startOffset": 281, + "endOffset": 289, + "type": "CBI_author" + }, + { + "value": "Dr. Sergei Vladimir and Professor Alexia Ashford", + "startOffset": 367, + "endOffset": 415, + "type": "CBI_author" + }, + { + "value": "Christine Henri of Daily", + "startOffset": 474, + "endOffset": 498, + "type": "CBI_author" + }, + { + "value": "Nurullah \u00d6zg\u00fcr", + "startOffset": 234, + "endOffset": 248, + "type": "CBI_author" + } + ], + "18.1": [ + { + "value": "Japan", + "startOffset": 186, + "endOffset": 191, + "type": "COUNTRY" + }, + { + "value": "B. Rahim", + "startOffset": 233, + "endOffset": 241, + "type": "CBI_author" + }, + { + "value": "C. J.", + "startOffset": 242, + "endOffset": 247, + "type": "CBI_author" + }, + { + "value": "Xinyi Y.", + "startOffset": 255, + "endOffset": 263, + "type": "CBI_author" + }, + { + "value": "Dr. Sergei Vladimir and Professor Alexia Ashford", + "startOffset": 341, + "endOffset": 389, + "type": "CBI_author" + }, + { + "value": "Christine Henri of Daily", + "startOffset": 448, + "endOffset": 472, + "type": "CBI_author" + }, + { + "value": "Nurullah \u00d6zg\u00fcr", + "startOffset": 208, + "endOffset": 222, + "type": "CBI_author" + } + ], + "19": [ + { + "value": "Jiwoo", + "startOffset": 381, + "endOffset": 386, + "type": "COUNTRY" + } + ], + "19.2": [ + { + "value": "Jiwoo", + "startOffset": 30, + "endOffset": 35, + "type": "COUNTRY" + } + ], + "21": [ + { + "value": "+49 (331) 441 551 9. For further questions, please contact +49 331 441551-10. The phone number of the researchers for this project are +49 331-441 551 11 and +49 (331) 441 551 12. For further questions, please contact +49 331 441551-13.", + "startOffset": 217, + "endOffset": 453, + "type": "PHONE" + } + ], + "22": [ + { + "value": "luthor.lex1@mail.com Email:", + "startOffset": 553, + "endOffset": 580, + "type": "CBI_author" + }, + { + "value": "luthor.lex3@mail.com", + "startOffset": 610, + "endOffset": 630, + "type": "MAIL" + }, + { + "value": "luthor.lex4@mail.com", + "startOffset": 647, + "endOffset": 667, + "type": "MAIL" + } + ], + "25.2": [ + { + "value": "Yendau District Taiwan 109 Contact Point", + "startOffset": 83, + "endOffset": 123, + "type": "CBI_author" + }, + { + "value": "Michelle Carge Fax number", + "startOffset": 208, + "endOffset": 233, + "type": "CBI_author" + }, + { + "value": "+49 331 441 551 29 Fax: +49 331 441 551 30 No: 993-221 Contact: Steffanie Soja Tel.: +49 331 441 551 31 Tel: +49 331 441 551 32 Telephone number: +49 331 441 551 33 Telephone No: +49 331 441 551 34 Telephone: +49 331 441 551 35 Phone No. +49 331 441 551 36 Phone: +49 331 441 551 37 E-mail: sabine.heldt01@mail.com Email: sabine.heldt02@mail.com e-mail: sabine.heldt03@mail.com E-mail address: sabine.heldt04@mail.com No: Redact between No and F/ax Fax Contact: Redact beween contact and T/el Tel", + "startOffset": 235, + "endOffset": 731, + "type": "PHONE" + }, + { + "value": "Nelman Ozbarn Address", + "startOffset": 24, + "endOffset": 45, + "type": "CBI_author" + } + ], + "26.2": [ + { + "value": "Xinyi District", + "startOffset": 106, + "endOffset": 120, + "type": "CBI_author" + }, + { + "value": "Sebastian Shaw Alternative", + "startOffset": 182, + "endOffset": 208, + "type": "CBI_author" + }, + { + "value": "Wilson Fisk Fax number", + "startOffset": 255, + "endOffset": 277, + "type": "CBI_author" + }, + { + "value": "+49 331 441 551 38 Fax: +49 331 441 551 39 No: 993-222 Contact: Sabine Heldt Tel.: +49 331 441 551 40 Tel: +49 331 441 551 41 Telephone number: +49 331 441 551 42 Telephone No: +49 331 441 551 43 Telephone: +49 331 441 551 44 Phone No. +49 331 441 551 45 Phone: +49 331 441 551 46 E-mail: sabine.heldt05@mail.com Email: sabine.heldt06@mail.com e-mail: sabine.heldt07@mail.com E-mail address: sabine.heldt08@mail.com No: Redact between No and F/ax Fax Contact: Redact beween contact and T/el Tel", + "startOffset": 279, + "endOffset": 773, + "type": "PHONE" + }, + { + "value": "Norman Osborn Address", + "startOffset": 47, + "endOffset": 68, + "type": "CBI_author" + } + ], + "27": [ + { + "value": "Dr. Alan Miller COMPLETION", + "startOffset": 170, + "endOffset": 196, + "type": "CBI_author" + }, + { + "value": "Dr. Alan Milwer STUDY COMPLETION DATE", + "startOffset": 231, + "endOffset": 268, + "type": "CBI_author" + } + ], + "29": [ + { + "value": "Research Director", + "startOffset": 92, + "endOffset": 109, + "type": "JOB_TITEL" + }, + { + "value": "Ivan Musk", + "startOffset": 110, + "endOffset": 119, + "type": "CBI_author" + }, + { + "value": "Leon Musk Manager", + "startOffset": 200, + "endOffset": 217, + "type": "STREET" + }, + { + "value": "David Chubb", + "startOffset": 80, + "endOffset": 91, + "type": "CBI_author" + } + ], + "39": [ + { + "value": "Manuel, S.", + "startOffset": 49, + "endOffset": 59, + "type": "CBI_author" + }, + { + "value": "Julian, R.", + "startOffset": 169, + "endOffset": 179, + "type": "CBI_author" + }, + { + "value": "Asya. L.", + "startOffset": 181, + "endOffset": 189, + "type": "CBI_author" + }, + { + "value": "Carina, M.", + "startOffset": 195, + "endOffset": 205, + "type": "CBI_author" + }, + { + "value": "Alexandra, H.", + "startOffset": 207, + "endOffset": 220, + "type": "CBI_author" + }, + { + "value": "Yoshua, R.", + "startOffset": 296, + "endOffset": 306, + "type": "CBI_author" + }, + { + "value": "Ralf, H.", + "startOffset": 405, + "endOffset": 413, + "type": "CBI_author" + }, + { + "value": "Ashley B.", + "startOffset": 61, + "endOffset": 70, + "type": "CBI_author" + }, + { + "value": "Valeriya, D.", + "startOffset": 92, + "endOffset": 104, + "type": "CBI_author" + }, + { + "value": "Max, G.", + "startOffset": 110, + "endOffset": 117, + "type": "CBI_author" + }, + { + "value": "Osip S.", + "startOffset": 128, + "endOffset": 135, + "type": "CBI_author" + }, + { + "value": "Iakovos, G.", + "startOffset": 137, + "endOffset": 148, + "type": "CBI_author" + } + ], + "39.1": [ + { + "value": "Manuel, S.", + "startOffset": 0, + "endOffset": 10, + "type": "CBI_author" + }, + { + "value": "Julian, R.", + "startOffset": 120, + "endOffset": 130, + "type": "CBI_author" + }, + { + "value": "Asya. L.", + "startOffset": 132, + "endOffset": 140, + "type": "CBI_author" + }, + { + "value": "Carina, M.", + "startOffset": 146, + "endOffset": 156, + "type": "CBI_author" + }, + { + "value": "Alexandra, H.", + "startOffset": 158, + "endOffset": 171, + "type": "CBI_author" + }, + { + "value": "Ashley B.", + "startOffset": 12, + "endOffset": 21, + "type": "CBI_author" + }, + { + "value": "Valeriya, D.", + "startOffset": 43, + "endOffset": 55, + "type": "CBI_author" + }, + { + "value": "Max, G.", + "startOffset": 61, + "endOffset": 68, + "type": "CBI_author" + }, + { + "value": "Osip S.", + "startOffset": 79, + "endOffset": 86, + "type": "CBI_author" + }, + { + "value": "Iakovos, G.", + "startOffset": 88, + "endOffset": 99, + "type": "CBI_author" + } + ], + "39.2": [ + { + "value": "Yoshua, R.", + "startOffset": 75, + "endOffset": 85, + "type": "CBI_author" + }, + { + "value": "Ralf, H.", + "startOffset": 184, + "endOffset": 192, + "type": "CBI_author" + } + ], + "40": [ + { + "value": "Hamburg", + "startOffset": 155, + "endOffset": 162, + "type": "STATE" + }, + { + "value": "United States Sto\u00dfberger Ltd Katakawa", + "startOffset": 163, + "endOffset": 200, + "type": "COUNTRY" + }, + { + "value": "United States", + "startOffset": 277, + "endOffset": 290, + "type": "COUNTRY" + } + ], + "41.2": [ + { + "value": "Sophia,", + "startOffset": 890, + "endOffset": 897, + "type": "CBI_author" + }, + { + "value": "Daniela, B.", + "startOffset": 913, + "endOffset": 924, + "type": "CBI_author" + } + ] + } +} \ No newline at end of file diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/logs/rules_logging.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/logs/rules_logging.drl index 0fc761c8..0dbd786f 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/logs/rules_logging.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/logs/rules_logging.drl @@ -4,7 +4,13 @@ import com.iqser.red.service.redaction.v1.server.logger.RulesLogger; global RulesLogger logger +//------------------------------------ queries ------------------------------------ + + +//------------------------------------ LOG rules ------------------------------------ + +// Rule unit: LOG.0 rule "LOG.0.0: Test log info" salience 1 when @@ -27,4 +33,4 @@ rule "LOG.0.2: Test log error" then String result = null; result.toString(); - end \ No newline at end of file + end diff --git a/redaction-service-v1/redaction-service-server-v1/src/test/resources/performance/dictionaries/EFSA_sanitisation_GFL_v1/rules.drl b/redaction-service-v1/redaction-service-server-v1/src/test/resources/performance/dictionaries/EFSA_sanitisation_GFL_v1/rules.drl index afd36897..a8d7470b 100644 --- a/redaction-service-v1/redaction-service-server-v1/src/test/resources/performance/dictionaries/EFSA_sanitisation_GFL_v1/rules.drl +++ b/redaction-service-v1/redaction-service-server-v1/src/test/resources/performance/dictionaries/EFSA_sanitisation_GFL_v1/rules.drl @@ -22,6 +22,7 @@ import com.iqser.red.service.redaction.v1.server.model.document.entity.TextEntit import com.iqser.red.service.redaction.v1.server.model.document.entity.MatchedRule import com.iqser.red.service.redaction.v1.server.model.document.nodes.*; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Section; +import com.iqser.red.service.redaction.v1.server.model.document.nodes.SuperSection; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Table; import com.iqser.red.service.redaction.v1.server.model.document.nodes.TableCell; import com.iqser.red.service.redaction.v1.server.model.document.nodes.SemanticNode; @@ -420,7 +421,6 @@ rule "PII.3.2: Redact telephone numbers by RegEx (vertebrate study)" .forEach(entity -> entity.redact("PII.3.2", "Telephone number found by regex", "Article 39(e)(2) of Regulation (EC) No 178/2002")); end - rule "PII.3.4: Redact telephone numbers by RegEx (Non vertebrate study)" when not FileAttribute(label == "Vertebrate Study", value soundslike "Yes" || value.toLowerCase() == "y") @@ -593,7 +593,7 @@ rule "PII.10.1: Redact study director abbreviation (vertebrate study)" // Rule unit: PII.11 rule "PII.11.0: Redact On behalf of Sequani Ltd.:" when - $section: Section(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) + $section: SuperSection(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) then entityCreationService.betweenStrings("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", EntityType.ENTITY, $section) .forEach(authorEntity -> authorEntity.redact("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002")); @@ -901,7 +901,6 @@ rule "X.2.0: Remove Entity of type ENTITY when contained by FALSE_POSITIVE" retract($entity) end - rule "X.2.1: Remove Entity of type HINT when contained by FALSE_POSITIVE" salience 64 when @@ -1040,7 +1039,6 @@ rule "X.11.1: Remove non manual entity which intersects with a manual entity" retract($nonManualEntity); end - rule "X.11.2: Remove non manual entity which are equal to manual entity" salience 70 when diff --git a/redaction-service-v1/rules-management/src/main/resources/all_redact_manager_rules.drl b/redaction-service-v1/rules-management/src/main/resources/all_redact_manager_rules.drl index 7d841391..31f8324a 100644 --- a/redaction-service-v1/rules-management/src/main/resources/all_redact_manager_rules.drl +++ b/redaction-service-v1/rules-management/src/main/resources/all_redact_manager_rules.drl @@ -22,6 +22,7 @@ import com.iqser.red.service.redaction.v1.server.model.document.entity.TextEntit import com.iqser.red.service.redaction.v1.server.model.document.entity.MatchedRule import com.iqser.red.service.redaction.v1.server.model.document.nodes.*; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Section; +import com.iqser.red.service.redaction.v1.server.model.document.nodes.SuperSection; import com.iqser.red.service.redaction.v1.server.model.document.nodes.Table; import com.iqser.red.service.redaction.v1.server.model.document.nodes.TableCell; import com.iqser.red.service.redaction.v1.server.model.document.nodes.SemanticNode; @@ -1459,7 +1460,7 @@ rule "PII.10.1: Redact study director abbreviation (vertebrate study)" // Rule unit: PII.11 rule "PII.11.0: Redact On behalf of Sequani Ltd.:" when - $section: Section(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) + $section: SuperSection(!hasTables(), containsString("On behalf of Sequani Ltd.: Name Title")) then entityCreationService.betweenStrings("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", EntityType.ENTITY, $section) .forEach(authorEntity -> authorEntity.redact("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));