RED-6807: updated RM and DM rules
* changed typos * added rules * fixed bugs
This commit is contained in:
Ali Oezyetimoglu
parent
c26b4f3827
commit
7e9c6c8695
@ -132,6 +132,12 @@ public class RedactionSearchUtility {
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return getTextRangesByPatternWithLineBreaks(textBlock, group, pattern);
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}
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public static List<TextRange> findTextRangesByRegexIgnoreCase(String regexPattern, TextBlock textBlock) {
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Pattern pattern = Patterns.getCompiledPattern(regexPattern, true);
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return getTextRangesByPattern(textBlock, 0, pattern);
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}
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public static List<TextRange> findTextRangesByRegexIgnoreCase(String regexPattern, int group, TextBlock textBlock) {
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@ -63,7 +63,7 @@ class DroolsSyntaxValidationServiceTest {
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void testAllRules() {
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DroolsSyntaxValidationService droolsSyntaxValidationService = new DroolsSyntaxValidationService(new KieContainerCreationService(rulesClient));
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var rulesFile = new ClassPathResource("drools/all_rules.drl");
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var rulesFile = new ClassPathResource("drools/all_redact_manager_rules.drl");
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String rulesString = new String(rulesFile.getInputStream().readAllBytes());
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@ -216,8 +216,7 @@ class DroolsSyntaxValidationServiceTest {
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DroolsSyntaxValidationService droolsSyntaxValidationService = new DroolsSyntaxValidationService(new KieContainerCreationService(rulesClient));
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List<String> ruleFiles = List.of("drools/rules.drl",
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"drools/all_rules.drl",
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List<String> ruleFiles = List.of("drools/rules.drl", "drools/all_redact_manager_rules.drl",
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"drools/documine_flora.drl",
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"drools/manual_redaction_rules.drl",
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"drools/acceptance_rules.drl",
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@ -100,7 +100,7 @@ rule "CBI.0.0: Redact CBI Authors (non vertebrate Study)"
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not FileAttribute(label == "Vertebrate Study", value.toLowerCase() == "yes")
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$entity: TextEntity(type == "CBI_author", dictionaryEntry)
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then
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$entity.apply("CBI.0.0", "Author found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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$entity.redact("CBI.0.0", "Author found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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end
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rule "CBI.0.1: Redact CBI Authors (vertebrate Study)"
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@ -108,7 +108,7 @@ rule "CBI.0.1: Redact CBI Authors (vertebrate Study)"
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FileAttribute(label == "Vertebrate Study", value.toLowerCase() == "yes")
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$entity: TextEntity(type == "CBI_author", dictionaryEntry)
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then
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$entity.apply("CBI.0.1", "Author found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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$entity.redact("CBI.0.1", "Author found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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end
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@ -126,7 +126,7 @@ rule "CBI.1.1: Redact CBI Address (vertebrate Study)"
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FileAttribute(label == "Vertebrate Study", value.toLowerCase() == "yes")
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$entity: TextEntity(type == "CBI_address", dictionaryEntry)
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then
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$entity.apply("CBI.1.1", "Address found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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$entity.redact("CBI.1.1", "Address found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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end
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@ -387,7 +387,7 @@ rule "CBI.9.0: Redact all cells with Header Author(s) as CBI_author (non vertebr
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.map(tableCell -> entityCreationService.bySemanticNode(tableCell, "CBI_author", EntityType.ENTITY))
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.filter(Optional::isPresent)
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.map(Optional::get)
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.forEach(redactionEntity -> redactionEntity.apply("CBI.9.0", "Author(s) found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(redactionEntity -> redactionEntity.redact("CBI.9.0", "Author(s) found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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rule "CBI.9.1: Redact all cells with Header Author as CBI_author (non vertebrate study)"
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@ -400,7 +400,7 @@ rule "CBI.9.1: Redact all cells with Header Author as CBI_author (non vertebrate
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.map(tableCell -> entityCreationService.bySemanticNode(tableCell, "CBI_author", EntityType.ENTITY))
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.filter(Optional::isPresent)
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.map(Optional::get)
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.forEach(redactionEntity -> redactionEntity.apply("CBI.9.1", "Author found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(redactionEntity -> redactionEntity.redact("CBI.9.1", "Author found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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@ -415,7 +415,7 @@ rule "CBI.10.0: Redact all cells with Header Author(s) as CBI_author (vertebrate
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.map(tableCell -> entityCreationService.bySemanticNode(tableCell, "CBI_author", EntityType.ENTITY))
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.filter(Optional::isPresent)
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.map(Optional::get)
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.forEach(redactionEntity -> redactionEntity.apply("CBI.10.0", "Author(s) found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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.forEach(redactionEntity -> redactionEntity.redact("CBI.10.0", "Author(s) found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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end
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rule "CBI.10.1: Redact all cells with Header Author as CBI_author (vertebrate study)"
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@ -428,7 +428,7 @@ rule "CBI.10.1: Redact all cells with Header Author as CBI_author (vertebrate st
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.map(tableCell -> entityCreationService.bySemanticNode(tableCell, "CBI_author", EntityType.ENTITY))
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.filter(Optional::isPresent)
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.map(Optional::get)
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.forEach(redactionEntity -> redactionEntity.apply("CBI.10.1", "Author found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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.forEach(redactionEntity -> redactionEntity.redact("CBI.10.1", "Author found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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end
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@ -474,7 +474,7 @@ rule "CBI.12.2: Redact CBI_author, if its row contains a cell with header \"Vert
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then
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$table.streamEntitiesWhereRowHasHeaderAndAnyValue("Vertebrate study Y/N", List.of("Y", "Yes"))
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.filter(redactionEntity -> redactionEntity.isAnyType(List.of("CBI_author", "CBI_address")))
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.forEach(authorEntity -> authorEntity.apply("CBI.12.2", "Redacted because it's row belongs to a vertebrate study", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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.forEach(authorEntity -> authorEntity.redact("CBI.12.2", "Redacted because it's row belongs to a vertebrate study", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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end
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@ -494,7 +494,7 @@ rule "CBI.14.0: Redact CBI_sponsor entities if preceded by \"batches produced at
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when
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$sponsorEntity: TextEntity(type == "CBI_sponsor", textBefore.contains("batches produced at"))
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then
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$sponsorEntity.apply("CBI.14.0", "Redacted because it represents a sponsor company", "Reg (EC) No 1107/2009 Art. 63 (2g)");
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$sponsorEntity.redact("CBI.14.0", "Redacted because it represents a sponsor company", "Reg (EC) No 1107/2009 Art. 63 (2g)");
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end
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@ -519,7 +519,7 @@ rule "CBI.15.0: Redact row if row contains \"determination of residues\" and liv
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.toList();
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$section.getEntitiesOfType(List.of($keyword, $residueKeyword))
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.forEach(redactionEntity -> redactionEntity.apply("CBI.15.0", "Determination of residues and keyword \"" + $keyword + "\" was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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.forEach(redactionEntity -> redactionEntity.redact("CBI.15.0", "Determination of residues and keyword \"" + $keyword + "\" was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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end
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rule "CBI.15.1: Redact CBI_author and CBI_address if row contains \"determination of residues\" and livestock keyword"
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@ -541,7 +541,7 @@ rule "CBI.15.1: Redact CBI_author and CBI_address if row contains \"determinatio
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$table.streamEntitiesWhereRowContainsStringsIgnoreCase(List.of($keyword, $residueKeyword))
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.filter(redactionEntity -> redactionEntity.isAnyType(List.of("CBI_author", "CBI_address")))
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.forEach(redactionEntity -> redactionEntity.apply("CBI.15.1", "Determination of residues and keyword \"" + $keyword + "\" was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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.forEach(redactionEntity -> redactionEntity.redact("CBI.15.1", "Determination of residues and keyword \"" + $keyword + "\" was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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end
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@ -554,7 +554,7 @@ rule "CBI.16.0: Add CBI_author with \"et al.\" RegEx (non vertebrate study)"
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then
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entityCreationService.byRegex("\\b([A-ZÄÖÜ][^\\s\\.,]+( [A-ZÄÖÜ]{1,2}\\.?)?( ?[A-ZÄÖÜ]\\.?)?) et al\\.?", "CBI_author", EntityType.ENTITY, 1, $section)
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.forEach(entity -> {
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entity.apply("CBI.16.0", "Author found by \"et al\" regex", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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entity.redact("CBI.16.0", "Author found by \"et al\" regex", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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dictionary.recommendEverywhere(entity);
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});
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end
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@ -567,7 +567,7 @@ rule "CBI.16.1: Add CBI_author with \"et al.\" RegEx (vertebrate study)"
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then
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entityCreationService.byRegex("\\b([A-ZÄÖÜ][^\\s\\.,]+( [A-ZÄÖÜ]{1,2}\\.?)?( ?[A-ZÄÖÜ]\\.?)?) et al\\.?", "CBI_author", EntityType.ENTITY, 1, $section)
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.forEach(entity -> {
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entity.apply("CBI.16.1", "Author found by \"et al\" regex", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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entity.redact("CBI.16.1", "Author found by \"et al\" regex", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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dictionary.recommendEverywhere(entity);
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});
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end
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@ -646,7 +646,7 @@ rule "CBI.20.1: Redact between \"PERFORMING LABORATORY\" and \"LABORATORY PROJEC
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then
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entityCreationService.betweenStrings("PERFORMING LABORATORY:", "LABORATORY PROJECT ID:", "CBI_address", EntityType.ENTITY, $section)
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.forEach(laboratoryEntity -> {
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laboratoryEntity.apply("CBI.20.1", "PERFORMING LABORATORY was found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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laboratoryEntity.redact("CBI.20.1", "PERFORMING LABORATORY was found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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dictionary.recommendEverywhere(laboratoryEntity);
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});
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end
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@ -660,7 +660,7 @@ rule "CBI.21.0: Redact short Authors section (non vertebrate study)"
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then
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entityCreationService.byRegexIgnoreCase("(?<=author\\(?s\\)?\\s\\n?)([\\p{Lu}\\p{L} ]{5,15}(,|\\n)?){1,3}", "CBI_author", EntityType.ENTITY, $section)
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.forEach(entity -> {
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entity.apply("CBI.21.0", "AUTHOR(S) was found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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entity.redact("CBI.21.0", "AUTHOR(S) was found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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});
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end
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@ -672,7 +672,7 @@ rule "CBI.21.1: Redact short Authors section (vertebrate study)"
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then
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entityCreationService.byRegexIgnoreCase("(?<=author\\(?s\\)?\\s\\n?)([\\p{Lu}\\p{L} ]{5,15}(,|\\n)?){1,3}", "CBI_author", EntityType.ENTITY, $section)
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.forEach(entity -> {
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entity.apply("CBI.21.1", "AUTHOR(S) was found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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entity.redact("CBI.21.1", "AUTHOR(S) was found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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});
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end
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@ -685,7 +685,7 @@ rule "CBI.22.0: Redact Addresses in Reference Tables for vertebrate studies in n
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then
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$table.streamEntitiesWhereRowHasHeaderAndAnyValue("Vertebrate study Y/N", List.of("Y", "Yes"))
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.filter(redactionEntity -> redactionEntity.isType("CBI_address"))
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.forEach(authorEntity -> authorEntity.apply("CBI.22.0", "Redacted because row is a vertebrate study", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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.forEach(authorEntity -> authorEntity.redact("CBI.22.0", "Redacted because row is a vertebrate study", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
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end
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@ -697,7 +697,7 @@ rule "PII.0.0: Redact all PII (non vertebrate study)"
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not FileAttribute(label == "Vertebrate Study", value.toLowerCase() == "yes")
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$pii: TextEntity(type == "PII", dictionaryEntry)
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then
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$pii.apply("PII.0.0", "Personal Information found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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$pii.redact("PII.0.0", "Personal Information found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
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end
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rule "PII.0.1: Redact all PII (vertebrate study)"
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@ -705,7 +705,7 @@ rule "PII.0.1: Redact all PII (vertebrate study)"
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FileAttribute(label == "Vertebrate Study", value.toLowerCase() == "yes")
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$pii: TextEntity(type == "PII", dictionaryEntry)
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then
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$pii.apply("PII.0.1", "Personal Information found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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$pii.redact("PII.0.1", "Personal Information found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
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end
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@ -716,7 +716,7 @@ rule "PII.1.0: Redact Emails by RegEx (Non vertebrate study)"
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$section: Section(containsString("@"))
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then
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entityCreationService.byRegex("\\b([A-Za-z0-9._%+\\-]+@[A-Za-z0-9.\\-]+\\.[A-Za-z\\-]{1,23}[A-Za-z])\\b", "PII", EntityType.ENTITY, 1, $section)
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.forEach(emailEntity -> emailEntity.apply("PII.1.0", "Found by Email Regex", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(emailEntity -> emailEntity.redact("PII.1.0", "Found by Email Regex", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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rule "PII.1.1: Redact Emails by RegEx (vertebrate study)"
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@ -725,7 +725,7 @@ rule "PII.1.1: Redact Emails by RegEx (vertebrate study)"
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$section: Section(containsString("@"))
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then
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entityCreationService.byRegex("\\b([A-Za-z0-9._%+\\-]+@[A-Za-z0-9.\\-]+\\.[A-Za-z\\-]{1,23}[A-Za-z])\\b", "PII", EntityType.ENTITY, 1, $section)
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.forEach(emailEntity -> emailEntity.apply("PII.1.1", "Found by Email Regex", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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.forEach(emailEntity -> emailEntity.redact("PII.1.1", "Found by Email Regex", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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end
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rule "PII.1.2: Redact typoed Emails with indicator"
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@ -733,7 +733,7 @@ rule "PII.1.2: Redact typoed Emails with indicator"
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$section: Section(containsString("@") || containsStringIgnoreCase("mail"))
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then
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entityCreationService.byRegexIgnoreCase("mail[:\\.\\s]{1,2}([\\w\\/\\-\\{\\(\\. ]{3,20}(@|a|f)\\s?[\\w\\/\\-\\{\\(\\. ]{3,20}(\\. \\w{2,4}\\b|\\.\\B|\\.\\w{1,4}\\b))", "PII", EntityType.ENTITY, $section)
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.forEach(emailEntity -> emailEntity.apply("PII.1.2", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(emailEntity -> emailEntity.redact("PII.1.2", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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@ -753,7 +753,7 @@ rule "PII.2.0: Redact Phone and Fax by RegEx (non vertebrate study)"
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containsString("Fer"))
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then
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entityCreationService.byRegexIgnoreCase("\\b(contact|telephone|phone|ph\\.|fax|tel|ter|mobile|fel|fer)[a-zA-Z\\s]{0,10}[:.\\s]{0,3}([\\+\\d\\(][\\s\\d\\(\\)\\-\\/\\.]{4,100}\\d)\\b", "PII", EntityType.ENTITY, 2, $section)
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.forEach(contactEntity -> contactEntity.apply("PII.2.0", "Found by Phone and Fax Regex", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(contactEntity -> contactEntity.redact("PII.2.0", "Found by Phone and Fax Regex", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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rule "PII.2.1: Redact Phone and Fax by RegEx (vertebrate study)"
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@ -771,7 +771,7 @@ rule "PII.2.1: Redact Phone and Fax by RegEx (vertebrate study)"
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containsString("Fer"))
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then
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entityCreationService.byRegexIgnoreCase("\\b(contact|telephone|phone|ph\\.|fax|tel|ter|mobile|fel|fer)[a-zA-Z\\s]{0,10}[:.\\s]{0,3}([\\+\\d\\(][\\s\\d\\(\\)\\-\\/\\.]{4,100}\\d)\\b", "PII", EntityType.ENTITY, 2, $section)
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.forEach(contactEntity -> contactEntity.apply("PII.2.1", "Found by Phone and Fax Regex", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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.forEach(contactEntity -> contactEntity.redact("PII.2.1", "Found by Phone and Fax Regex", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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end
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rule "PII.2.2: Redact phone numbers without indicators"
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@ -779,7 +779,7 @@ rule "PII.2.2: Redact phone numbers without indicators"
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$section: Section(containsString("+"))
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then
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entityCreationService.byRegex("(\\+[\\dO]{1,2} )(\\([\\dO]{1,3}\\))?[\\d\\-O ]{8,15}", "PII", EntityType.ENTITY, $section)
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.forEach(entity -> entity.apply("PII.2.2", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(entity -> entity.redact("PII.2.2", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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@ -790,7 +790,7 @@ rule "PII.3.0: Redact telephone numbers by RegEx (Non vertebrate study)"
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$section: Section(matchesRegex("[+]\\d{1,}"))
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then
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entityCreationService.byRegex("((([+]\\d{1,3} (\\d{7,12})\\b)|([+]\\d{1,3}(\\d{3,12})\\b|[+]\\d{1,3}([ -]\\(?\\d{1,6}\\)?){2,4})|[+]\\d{1,3} ?((\\d{2,6}\\)?)([ -]\\d{2,6}){1,4}))(-\\d{1,3})?\\b)", "PII", EntityType.ENTITY, 1, $section)
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.forEach(entity -> entity.apply("PII.3.0", "Telephone number found by regex", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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.forEach(entity -> entity.redact("PII.3.0", "Telephone number found by regex", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
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end
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rule "PII.3.1: Redact telephone numbers by RegEx (vertebrate study)"
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@ -799,7 +799,7 @@ rule "PII.3.1: Redact telephone numbers by RegEx (vertebrate study)"
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$section: Section(matchesRegex("[+]\\d{1,}"))
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then
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entityCreationService.byRegex("((([+]\\d{1,3} (\\d{7,12})\\b)|([+]\\d{1,3}(\\d{3,12})\\b|[+]\\d{1,3}([ -]\\(?\\d{1,6}\\)?){2,4})|[+]\\d{1,3} ?((\\d{2,6}\\)?)([ -]\\d{2,6}){1,4}))(-\\d{1,3})?\\b)", "PII", EntityType.ENTITY, 1, $section)
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.forEach(entity -> entity.apply("PII.3.1", "Telephone number found by regex", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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.forEach(entity -> entity.redact("PII.3.1", "Telephone number found by regex", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
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end
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// Rule unit: PII.4
|
||||
@ -828,7 +828,7 @@ rule "PII.4.0: Redact line after contact information keywords (non vertebrate st
|
||||
$section: Section(containsString($contactKeyword))
|
||||
then
|
||||
entityCreationService.lineAfterString($contactKeyword, "PII", EntityType.ENTITY, $section)
|
||||
.forEach(contactEntity -> contactEntity.apply("PII.4.0", "Found after \"" + $contactKeyword + "\" contact keyword", "Reg (EC) No 1107/2009 Art. 63 (2e)"));
|
||||
.forEach(contactEntity -> contactEntity.redact("PII.4.0", "Found after \"" + $contactKeyword + "\" contact keyword", "Reg (EC) No 1107/2009 Art. 63 (2e)"));
|
||||
end
|
||||
|
||||
rule "PII.4.1: Redact line after contact information keywords (vertebrate study)"
|
||||
@ -856,7 +856,7 @@ rule "PII.4.1: Redact line after contact information keywords (vertebrate study)
|
||||
$section: Section(containsString($contactKeyword))
|
||||
then
|
||||
entityCreationService.lineAfterString($contactKeyword, "PII", EntityType.ENTITY, $section)
|
||||
.forEach(contactEntity -> contactEntity.apply("PII.4.1", "Found after \"" + $contactKeyword + "\" contact keyword", "Reg (EC) No 1107/2009 Art. 63 (2e)"));
|
||||
.forEach(contactEntity -> contactEntity.redact("PII.4.1", "Found after \"" + $contactKeyword + "\" contact keyword", "Reg (EC) No 1107/2009 Art. 63 (2e)"));
|
||||
end
|
||||
|
||||
|
||||
@ -871,7 +871,7 @@ rule "PII.5.0: Redact line after contact information keywords reduced (non verte
|
||||
$section: Section(containsString($contactKeyword))
|
||||
then
|
||||
entityCreationService.lineAfterString($contactKeyword, "PII", EntityType.ENTITY, $section)
|
||||
.forEach(contactEntity -> contactEntity.apply("PII.5.0", "Found after \"" + $contactKeyword + "\" contact keyword", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.forEach(contactEntity -> contactEntity.redact("PII.5.0", "Found after \"" + $contactKeyword + "\" contact keyword", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
rule "PII.5.1: Redact line after contact information keywords reduced (Vertebrate study)"
|
||||
@ -884,7 +884,7 @@ rule "PII.5.1: Redact line after contact information keywords reduced (Vertebrat
|
||||
$section: Section(containsString($contactKeyword))
|
||||
then
|
||||
entityCreationService.lineAfterString($contactKeyword, "PII", EntityType.ENTITY, $section)
|
||||
.forEach(contactEntity -> contactEntity.apply("PII.5.1", "Found after \"" + $contactKeyword + "\" contact keyword", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
.forEach(contactEntity -> contactEntity.redact("PII.5.1", "Found after \"" + $contactKeyword + "\" contact keyword", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
|
||||
@ -898,7 +898,7 @@ rule "PII.6.0: Redact line between contact keywords (non vertebrate study)"
|
||||
entityCreationService.betweenStrings("No:", "Fax", "PII", EntityType.ENTITY, $section),
|
||||
entityCreationService.betweenStrings("Contact:", "Tel", "PII", EntityType.ENTITY, $section)
|
||||
)
|
||||
.forEach(contactEntity -> contactEntity.apply("PII.6.0", "Found between contact keywords", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.forEach(contactEntity -> contactEntity.redact("PII.6.0", "Found between contact keywords", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
rule "PII.6.1: Redact line between contact keywords (vertebrate study)"
|
||||
@ -910,7 +910,7 @@ rule "PII.6.1: Redact line between contact keywords (vertebrate study)"
|
||||
entityCreationService.betweenStrings("No:", "Fax", "PII", EntityType.ENTITY, $section),
|
||||
entityCreationService.betweenStrings("Contact:", "Tel", "PII", EntityType.ENTITY, $section)
|
||||
)
|
||||
.forEach(contactEntity -> contactEntity.apply("PII.6.1", "Found between contact keywords", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
.forEach(contactEntity -> contactEntity.redact("PII.6.1", "Found between contact keywords", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
|
||||
@ -930,7 +930,7 @@ rule "PII.7.0: Redact contact information if applicant is found (non vertebrate
|
||||
entityCreationService.betweenStrings("No:", "Fax", "PII", EntityType.ENTITY, $section),
|
||||
entityCreationService.betweenStrings("Contact:", "Tel", "PII", EntityType.ENTITY, $section)
|
||||
))
|
||||
.forEach(entity -> entity.apply("PII.7.0", "Applicant information was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.forEach(entity -> entity.redact("PII.7.0", "Applicant information was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
rule "PII.7.1: Redact contact information if applicant is found (vertebrate study)"
|
||||
@ -948,7 +948,7 @@ rule "PII.7.1: Redact contact information if applicant is found (vertebrate stud
|
||||
entityCreationService.betweenStrings("No:", "Fax", "PII", EntityType.ENTITY, $section),
|
||||
entityCreationService.betweenStrings("Contact:", "Tel", "PII", EntityType.ENTITY, $section)
|
||||
))
|
||||
.forEach(entity -> entity.apply("PII.7.1", "Applicant information was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
.forEach(entity -> entity.redact("PII.7.1", "Applicant information was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
|
||||
@ -968,7 +968,7 @@ rule "PII.8.0: Redact contact information if producer is found (non vertebrate s
|
||||
entityCreationService.betweenStrings("No:", "Fax", "PII", EntityType.ENTITY, $section),
|
||||
entityCreationService.betweenStrings("Contact:", "Tel", "PII", EntityType.ENTITY, $section)
|
||||
))
|
||||
.forEach(entity -> entity.apply("PII.8.0", "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)"));
|
||||
.forEach(entity -> entity.redact("PII.8.0", "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)"));
|
||||
end
|
||||
|
||||
rule "PII.8.1: Redact contact information if producer is found (vertebrate study)"
|
||||
@ -986,7 +986,7 @@ rule "PII.8.1: Redact contact information if producer is found (vertebrate study
|
||||
entityCreationService.betweenStrings("No:", "Fax", "PII", EntityType.ENTITY, $section),
|
||||
entityCreationService.betweenStrings("Contact:", "Tel", "PII", EntityType.ENTITY, $section)
|
||||
))
|
||||
.forEach(entity -> entity.apply("PII.8.1", "Producer was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
.forEach(entity -> entity.redact("PII.8.1", "Producer was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
|
||||
@ -997,7 +997,7 @@ rule "PII.9.0: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\" (non
|
||||
$section: Section(!hasTables(), containsString("AUTHOR(S)"), containsString("AUTHOR(S):"), containsString("COMPLETION DATE:"), containsString("STUDY COMPLETION DATE:"))
|
||||
then
|
||||
entityCreationService.shortestBetweenAnyString(List.of("AUTHOR(S)", "AUTHOR(S):"), List.of("COMPLETION DATE:", "STUDY COMPLETION DATE:"), "PII", EntityType.ENTITY, $section)
|
||||
.forEach(authorEntity -> authorEntity.apply("PII.9.0", "AUTHOR(S) was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.forEach(authorEntity -> authorEntity.redact("PII.9.0", "AUTHOR(S) was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
//rule "PII.9.1: Redact between \"AUTHOR(S)\" and \"STUDY COMPLETION DATE\" (non vertebrate study)"
|
||||
@ -1006,7 +1006,7 @@ rule "PII.9.0: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\" (non
|
||||
// $section: Section(!hasTables(), containsString("AUTHOR(S)"), containsString("AUTHOR(S):"), containsString("STUDY COMPLETION DATE:"))
|
||||
// then
|
||||
// entityCreationService.shortestBetweenAnyString(List.of("AUTHOR(S)", "AUTHOR(S):"), List.of("STUDY COMPLETION DATE:"), "PII", EntityType.ENTITY, $section)
|
||||
// .forEach(authorEntity -> authorEntity.apply("PII.9.1", "AUTHOR(S) was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
// .forEach(authorEntity -> authorEntity.redact("PII.9.1", "AUTHOR(S) was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
// end
|
||||
|
||||
rule "PII.9.1: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\" (vertebrate study)"
|
||||
@ -1015,7 +1015,7 @@ rule "PII.9.1: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\" (ver
|
||||
$section: Section(!hasTables(), containsString("AUTHOR(S)"), containsString("AUTHOR(S):"), containsString("COMPLETION DATE:"), containsString("STUDY COMPLETION DATE:"))
|
||||
then
|
||||
entityCreationService.shortestBetweenAnyString(List.of("AUTHOR(S)", "AUTHOR(S):"), List.of("COMPLETION DATE:", "STUDY COMPLETION DATE:"), "PII", EntityType.ENTITY, $section)
|
||||
.forEach(authorEntity -> authorEntity.apply("PII.9.1", "AUTHOR(S) was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
.forEach(authorEntity -> authorEntity.redact("PII.9.1", "AUTHOR(S) was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
//rule "PII.9.3: Redact between \"AUTHOR(S)\" and \"STUDY COMPLETION DATE\" (vertebrate study)"
|
||||
@ -1024,7 +1024,7 @@ rule "PII.9.1: Redact between \"AUTHOR(S)\" and \"(STUDY) COMPLETION DATE\" (ver
|
||||
// $section: Section(!hasTables(), containsString("AUTHOR(S)"), containsString("AUTHOR(S):"), containsString("STUDY COMPLETION DATE:"))
|
||||
// then
|
||||
// entityCreationService.shortestBetweenAnyString(List.of("AUTHOR(S)", "AUTHOR(S):"), List.of("STUDY COMPLETION DATE:"), "PII", EntityType.ENTITY, $section)
|
||||
// .forEach(authorEntity -> authorEntity.apply("PII.9.3", "AUTHOR(S) was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
// .forEach(authorEntity -> authorEntity.redact("PII.9.3", "AUTHOR(S) was found", "Article 39(e)(2) of Regulation (EC) No 178/2002"));
|
||||
// end
|
||||
|
||||
rule "PII.9.4: Redact between \"AUTHOR(S)\" and \"STUDY COMPLETION DATE\" (vertebrate study)"
|
||||
@ -1043,7 +1043,7 @@ rule "PII.10.0: Redact study director abbreviation"
|
||||
$section: Section(containsString("KATH") || containsString("BECH") || containsString("KML"))
|
||||
then
|
||||
entityCreationService.byRegexIgnoreCase("((KATH)|(BECH)|(KML)) ?(\\d{4})","PII", EntityType.ENTITY, 1, $section)
|
||||
.forEach(entity -> entity.apply("PII.10.0", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.forEach(entity -> entity.redact("PII.10.0", "Personal information found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
|
||||
@ -1053,7 +1053,7 @@ rule "PII.11.0: Redact On behalf of Sequani Ltd.:"
|
||||
$section: Section(!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.apply("PII.11.0", "On behalf of Sequani Ltd.: Name Title was found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.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"));
|
||||
end
|
||||
|
||||
|
||||
@ -1103,7 +1103,7 @@ rule "ETC.1.0: Redact Purity"
|
||||
$section: Section(containsStringIgnoreCase("purity"))
|
||||
then
|
||||
entityCreationService.byRegex("\\bPurity:\\s*(<?>?\\s*\\d{1,2}(?:\\.\\d{1,2})?\\s*%)", "purity", EntityType.ENTITY, 1, $section)
|
||||
.forEach(entity -> entity.apply("ETC.1.0", "Purity found", "Reg (EC) No 1107/2009 Art. 63 (2a)"));
|
||||
.forEach(entity -> entity.redact("ETC.1.0", "Purity found", "Reg (EC) No 1107/2009 Art. 63 (2a)"));
|
||||
end
|
||||
|
||||
|
||||
@ -1113,7 +1113,7 @@ rule "ETC.2.0: Redact signatures (non vertebrate study)"
|
||||
not FileAttribute(label == "Vertebrate Study", value == "Yes")
|
||||
$signature: Image(imageType == ImageType.SIGNATURE)
|
||||
then
|
||||
$signature.apply("ETC.2.0", "Signature Found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
$signature.redact("ETC.2.0", "Signature Found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
rule "ETC.2.1: Redact signatures (vertebrate study)"
|
||||
@ -1121,7 +1121,7 @@ rule "ETC.2.1: Redact signatures (vertebrate study)"
|
||||
FileAttribute(label == "Vertebrate Study", value == "Yes")
|
||||
$signature: Image(imageType == ImageType.SIGNATURE)
|
||||
then
|
||||
$signature.apply("ETC.2.1", "Signature Found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
|
||||
$signature.redact("ETC.2.1", "Signature Found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
|
||||
@ -1131,7 +1131,7 @@ rule "ETC.3.0: Redact logos (vertebrate study)"
|
||||
not FileAttribute(label == "Vertebrate Study", value == "Yes")
|
||||
$logo: Image(imageType == ImageType.LOGO)
|
||||
then
|
||||
$logo.apply("ETC.3.0", "Logo Found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
$logo.redact("ETC.3.0", "Logo Found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
rule "ETC.3.1: Redact logos (non vertebrate study)"
|
||||
@ -1139,7 +1139,7 @@ rule "ETC.3.1: Redact logos (non vertebrate study)"
|
||||
FileAttribute(label == "Vertebrate Study", value == "Yes")
|
||||
$logo: Image(imageType == ImageType.LOGO)
|
||||
then
|
||||
$logo.apply("ETC.3.1", "Logo Found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
|
||||
$logo.redact("ETC.3.1", "Logo Found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
|
||||
@ -1148,21 +1148,21 @@ rule "ETC.4.0: Redact dossier dictionary entries"
|
||||
when
|
||||
$dossierRedaction: TextEntity(type == "dossier_redaction")
|
||||
then
|
||||
$dossierRedaction.apply("ETC.4.0", "Specification of impurity found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
$dossierRedaction.redact("ETC.4.0", "Specification of impurity found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
rule "ETC.4.1: Redact dossier dictionary entries"
|
||||
when
|
||||
$dossierRedaction: TextEntity(type == "dossier_redaction")
|
||||
then
|
||||
$dossierRedaction.apply("ETC.4.1", "Dossier Redaction found", "Article 39(1)(2) of Regulation (EC) No 178/2002");
|
||||
$dossierRedaction.redact("ETC.4.1", "Dossier Redaction found", "Article 39(1)(2) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
rule "ETC.4.2: Redact dossier dictionary entries"
|
||||
when
|
||||
$dossierRedaction: TextEntity(type == "dossier_redaction")
|
||||
then
|
||||
$dossierRedaction.apply("ETC.4.2", "Dossier redaction found", "Article 63(2)(a) of Regulation (EC) No 1107/2009 (making reference to Article 39 of Regulation EC No 178/2002)");
|
||||
$dossierRedaction.redact("ETC.4.2", "Dossier redaction found", "Article 63(2)(a) of Regulation (EC) No 1107/2009 (making reference to Article 39 of Regulation EC No 178/2002)");
|
||||
end
|
||||
|
||||
|
||||
@ -1186,14 +1186,14 @@ rule "ETC.6.0: Redact CAS Number"
|
||||
.map(tableCell -> entityCreationService.bySemanticNode(tableCell, "PII", EntityType.ENTITY))
|
||||
.filter(Optional::isPresent)
|
||||
.map(Optional::get)
|
||||
.forEach(redactionEntity -> redactionEntity.apply("ETC.6.0", "Sample # found in Header", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
|
||||
.forEach(redactionEntity -> redactionEntity.redact("ETC.6.0", "Sample # found in Header", "Reg (EC) No 1107/2009 Art. 63 (2g)"));
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: ETC.7
|
||||
rule "ETC.7.0: Guidelines FileAttributes"
|
||||
when
|
||||
$section: Section(!hasTables(), (containsString("DATA REQUIREMENT(S):") || containsString("TEST GUIDELINE(S):")) && (containsString("OECD") || containsString("EPA") || containsString("OPPTS")))
|
||||
$section: Section(!hasTables(), containsAnyString("DATA REQUIREMENT(S):", "TEST GUIDELINE(S):") && containsAnyString("OECD", "EPA", "OPPTS"))
|
||||
then
|
||||
RedactionSearchUtility.findTextRangesByRegex("OECD (No\\.? )?\\d{3}( \\(\\d{4}\\))?", $section.getTextBlock()).stream()
|
||||
.map(boundary -> $section.getTextBlock().subSequence(boundary).toString())
|
||||
@ -1208,7 +1208,7 @@ rule "ETC.8.0: Redact formulas (vertebrate study)"
|
||||
not FileAttribute(label == "Vertebrate Study", value == "Yes")
|
||||
$logo: Image(imageType == ImageType.FORMULA)
|
||||
then
|
||||
$logo.apply("ETC.8.0", "Logo Found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
$logo.redact("ETC.8.0", "Logo Found", "Article 39(e)(3) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
rule "ETC.8.1: Redact formulas (non vertebrate study)"
|
||||
@ -1216,7 +1216,7 @@ rule "ETC.8.1: Redact formulas (non vertebrate study)"
|
||||
FileAttribute(label == "Vertebrate Study", value == "Yes")
|
||||
$logo: Image(imageType == ImageType.FORMULA)
|
||||
then
|
||||
$logo.apply("ETC.8.1", "Logo Found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
|
||||
$logo.redact("ETC.8.1", "Logo Found", "Article 39(e)(2) of Regulation (EC) No 178/2002");
|
||||
end
|
||||
|
||||
// Rule unit: ETC.9
|
||||
@ -1225,7 +1225,7 @@ rule "ETC.9.0: Redact skipped impurities"
|
||||
FileAttribute(label == "Redact Skipped Impurities", value == "Yes")
|
||||
$skippedImpurities: TextEntity(type == "skipped_impurities")
|
||||
then
|
||||
$skippedImpurities.apply("ETC.9.0", "Occasional Impurity found", "Article 63(2)(b) of Regulation (EC) No 1107/2009");
|
||||
$skippedImpurities.redact("ETC.9.0", "Occasional Impurity found", "Article 63(2)(b) of Regulation (EC) No 1107/2009");
|
||||
end
|
||||
|
||||
rule "ETC.9.1: Redact impurities"
|
||||
@ -1233,7 +1233,7 @@ rule "ETC.9.1: Redact impurities"
|
||||
FileAttribute(label == "Redact Impurities", value == "Yes")
|
||||
$skippedImpurities: TextEntity(type == "impurities")
|
||||
then
|
||||
$skippedImpurities.apply("ETC.9.1", "Impurity found", "Article 63(2)(b) of Regulation (EC) No 1107/2009");
|
||||
$skippedImpurities.redact("ETC.9.1", "Impurity found", "Article 63(2)(b) of Regulation (EC) No 1107/2009");
|
||||
end
|
||||
|
||||
// Rule unit: ETC.10
|
||||
@ -1241,7 +1241,7 @@ rule "ETC.10.0: Redact Product Composition Information"
|
||||
when
|
||||
$compositionInformation: TextEntity(type == "product_composition")
|
||||
then
|
||||
$compositionInformation.apply("ETC.10.0", "Product Composition Information found", "Article 63(2)(d) of Regulation (EC) No 1107/2009");
|
||||
$compositionInformation.redact("ETC.10.0", "Product Composition Information found", "Article 63(2)(d) of Regulation (EC) No 1107/2009");
|
||||
end
|
||||
|
||||
// Rule unit: ETC.11
|
||||
@ -1252,7 +1252,7 @@ rule "ETC.11.0: Recommend first line in table cell with name and address of owne
|
||||
$tableCell: TableCell(col == $header.col, row == 2) from $table.streamTableCells().toList()
|
||||
then
|
||||
entityCreationService.bySemanticNode($tableCell, "PII", EntityType.RECOMMENDATION)
|
||||
.ifPresent(redactionEntity -> redactionEntity.apply("ETC.11.0", "Trial Site owner and address found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
.ifPresent(redactionEntity -> redactionEntity.redact("ETC.11.0", "Trial Site owner and address found", "Article 39(e)(3) of Regulation (EC) No 178/2002"));
|
||||
end
|
||||
|
||||
//------------------------------------ AI rules ------------------------------------
|
||||
@ -1397,7 +1397,6 @@ rule "MAN.3.0: Apply entity recategorization"
|
||||
retract($entityToBeRecategorized);
|
||||
end
|
||||
|
||||
|
||||
rule "MAN.3.1: Apply entity recategorization of same type"
|
||||
salience 128
|
||||
when
|
||||
@ -1409,7 +1408,6 @@ rule "MAN.3.1: Apply entity recategorization of same type"
|
||||
retract($recategorization);
|
||||
end
|
||||
|
||||
|
||||
rule "MAN.3.2: Apply image recategorization"
|
||||
salience 128
|
||||
when
|
||||
@ -65,8 +65,10 @@ global Dictionary dictionary
|
||||
query "getFileAttributes"
|
||||
$fileAttribute: FileAttribute()
|
||||
end
|
||||
//---------------------------------------------------------------------------
|
||||
|
||||
//------------------------------------ H rules ------------------------------------
|
||||
|
||||
// Rule unit: H.0
|
||||
rule "H.0.0: retract table of contents page"
|
||||
when
|
||||
$page: Page(getMainBodyTextBlock().getSearchText().contains("........") || (getMainBodyTextBlock().getSearchText().contains("APPENDICES") && getMainBodyTextBlock().getSearchText().contains("TABLES")))
|
||||
@ -76,6 +78,7 @@ rule "H.0.0: retract table of contents page"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: H.1
|
||||
rule "H.1.0: Ignore Table of Contents"
|
||||
salience 10
|
||||
when
|
||||
@ -87,7 +90,7 @@ rule "H.1.0: Ignore Table of Contents"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: MAN.0
|
||||
// Rule unit: H.2
|
||||
rule "H.2.0: Show headlines"
|
||||
when
|
||||
$headline: Headline()
|
||||
@ -96,6 +99,7 @@ rule "H.2.0: Show headlines"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: H.3
|
||||
rule "H.3.0: Study Type File Attribute"
|
||||
when
|
||||
not FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436","438","439","471","487"))
|
||||
@ -113,6 +117,9 @@ rule "H.3.0: Study Type File Attribute"
|
||||
end
|
||||
|
||||
|
||||
//------------------------------------ General documine rules ------------------------------------
|
||||
|
||||
// Rule unit: DOC.1
|
||||
rule "DOC.1.0: Guidelines"
|
||||
when
|
||||
$section: Section(
|
||||
@ -172,7 +179,6 @@ rule "DOC.1.0: Guidelines"
|
||||
);
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.1.2: Guidelines"
|
||||
when
|
||||
$section: Section(
|
||||
@ -198,7 +204,6 @@ rule "DOC.1.2: Guidelines"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.1.3: Guidelines"
|
||||
when
|
||||
$section: Section(
|
||||
@ -228,6 +233,7 @@ rule "DOC.1.3: Guidelines"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.2
|
||||
rule "DOC.2.0: Report number"
|
||||
when
|
||||
$section: Section(containsString("LABORATORY PROJECT ID") , containsString("Report Number:"))
|
||||
@ -238,6 +244,7 @@ rule "DOC.2.0: Report number"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.3
|
||||
rule "DOC.3.0: Experimental Starting Date"
|
||||
when
|
||||
$section: Section(containsString("Experimental I. Starting Date:") || containsString("Experimental II. Starting Date:") || containsStringIgnoreCase("experimental start date") || containsStringIgnoreCase("experimental starting date"))
|
||||
@ -258,6 +265,7 @@ rule "DOC.3.0: Experimental Starting Date"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.4
|
||||
rule "DOC.4.0: Experimental Completion Date"
|
||||
when
|
||||
$section: Section(containsStringIgnoreCase("experimental termination date") || containsStringIgnoreCase("experimental completion date"))
|
||||
@ -276,7 +284,8 @@ rule "DOC.4.0: Experimental Completion Date"
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.5.0: Ignore species and strain in irrelevant study types"
|
||||
// Rule unit: DOC.5
|
||||
rule "DOC.5.0: Ignore species and strain in irrelevant study types"
|
||||
salience 1
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("406","428","438","439","471","474","487"))
|
||||
@ -288,8 +297,7 @@ rule "DOC.4.0: Experimental Completion Date"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.5.1: Hide all skipped species and strains except in the relevant sections"
|
||||
rule "DOC.5.1: Hide all skipped species and strains except in the relevant sections"
|
||||
salience 1
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436"))
|
||||
@ -308,7 +316,6 @@ rule "DOC.4.0: Experimental Completion Date"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.5.2: Species"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436"))
|
||||
@ -320,7 +327,6 @@ rule "DOC.5.2: Species"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.5.3: Strain"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436"))
|
||||
@ -340,20 +346,21 @@ rule "DOC.5.3: Strain"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.6
|
||||
rule "DOC.6.0: study title by document structure"
|
||||
when
|
||||
$table: Table(onPage(1),
|
||||
(containsString("Final Report") || containsString("SPL")),
|
||||
numberOfRows == 1,
|
||||
numberOfCols == 1)
|
||||
$tableCell: TableCell(row == 1, col == 1) from $table.streamTableCells().toList()
|
||||
$paragraph: Paragraph(previousSibling.isPresent(), nextSibling.isPresent()) from $tableCell.streamChildren().toList()
|
||||
then
|
||||
|
||||
entityCreationService.bySemanticNode($table.getCell(0, 0).streamChildren().toList().get(1), "title", EntityType.ENTITY).ifPresent(entity -> {
|
||||
entityCreationService.bySemanticNode($paragraph, "title", EntityType.ENTITY).ifPresent(entity -> {
|
||||
entity.apply("DOC.6.0", "Study title found", "n-a");
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.6.1: study title"
|
||||
when
|
||||
$table: Table(onPage(1), (containsString("Final Report") || containsString("SPL")))
|
||||
@ -363,7 +370,6 @@ rule "DOC.6.1: study title"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.6.2: study title"
|
||||
when
|
||||
not Table(onPage(1), (containsString("Final Report") || containsString("SPL")))
|
||||
@ -375,7 +381,7 @@ rule "DOC.6.2: study title"
|
||||
end
|
||||
|
||||
|
||||
|
||||
// Rule unit: DOC.7
|
||||
rule "DOC.7.0: Performing Laboratory (Name)"
|
||||
when
|
||||
$section: Section(containsString("PERFORMING LABORATORY:"))
|
||||
@ -385,8 +391,7 @@ rule "DOC.7.0: Performing Laboratory (Name)"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.7.1: Performing Laboratory (Country)"
|
||||
rule "DOC.7.1: Performing Laboratory (Country)"
|
||||
when
|
||||
nerEntities: NerEntities(hasEntitiesOfType("COUNTRY"))
|
||||
$section: Section(containsString("PERFORMING LABORATORY:"))
|
||||
@ -400,7 +405,6 @@ rule "DOC.7.0: Performing Laboratory (Name)"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.7.2: Performing Laboratory (Country & Name) from dict"
|
||||
when
|
||||
$section: Section(
|
||||
@ -416,7 +420,6 @@ rule "DOC.7.2: Performing Laboratory (Country & Name) from dict"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.7.3: Performing Laboratory (Country) from dict"
|
||||
when
|
||||
$section: Section(
|
||||
@ -431,6 +434,7 @@ rule "DOC.7.3: Performing Laboratory (Country) from dict"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.8
|
||||
rule "DOC.8.0: GLP Study"
|
||||
when
|
||||
$headline: Headline(containsString("GOOD LABORATORY PRACTICE COMPLIANCE")
|
||||
@ -448,6 +452,7 @@ rule "DOC.8.0: GLP Study"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.9
|
||||
rule "DOC.9.0: Batch number from CoA"
|
||||
when
|
||||
$section: Section(
|
||||
@ -486,7 +491,6 @@ rule "DOC.9.0: Batch number from CoA"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.9.1: Batch number"
|
||||
when
|
||||
$section: Section(
|
||||
@ -519,7 +523,6 @@ rule "DOC.9.1: Batch number"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.9.2: Batch number"
|
||||
when
|
||||
$section: Section(
|
||||
@ -552,8 +555,7 @@ rule "DOC.9.2: Batch number"
|
||||
end
|
||||
|
||||
|
||||
|
||||
|
||||
// Rule unit: DOC.10
|
||||
rule "DOC.10.0: Conclusions - LD50, LC50, Confidence"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","425","436"))
|
||||
@ -587,6 +589,7 @@ rule "DOC.10.0: Conclusions - LD50, LC50, Confidence"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.11
|
||||
rule "DOC.11.0: Guideline Deviation"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436","471"))
|
||||
@ -612,7 +615,6 @@ rule "DOC.11.0: Guideline Deviation"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.11.1: Guideline Deviation in text"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436","471"))
|
||||
@ -627,6 +629,7 @@ rule "DOC.11.1: Guideline Deviation in text"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.12
|
||||
rule "DOC.12.0: Clinical Signs"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "425")
|
||||
@ -637,6 +640,7 @@ rule "DOC.12.0: Clinical Signs"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.13
|
||||
rule "DOC.13.0: Dosages"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "425")
|
||||
@ -657,6 +661,7 @@ rule "DOC.13.0: Dosages"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.14
|
||||
rule "DOC.14.0: Mortality"
|
||||
when
|
||||
$headline: Headline(containsString("Mortality") && !containsString("TABLE"))
|
||||
@ -667,6 +672,7 @@ rule "DOC.14.0: Mortality"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.15
|
||||
rule "DOC.15.0: Study Conclusion"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","404","405","425","429","436","471"))
|
||||
@ -679,6 +685,7 @@ rule "DOC.15.0: Study Conclusion"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.16
|
||||
rule "DOC.16.0: Weight Behavior Changes"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "402")
|
||||
@ -697,6 +704,7 @@ rule "DOC.16.0: Weight Behavior Changes"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.17
|
||||
rule "DOC.17.0: Necropsy findings"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","403","436"))
|
||||
@ -716,6 +724,7 @@ rule "DOC.17.0: Necropsy findings"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.18
|
||||
rule "DOC.18.0: Clinical observations"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "403")
|
||||
@ -736,6 +745,7 @@ rule "DOC.18.0: Clinical observations"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.19
|
||||
rule "DOC.19.0: Bodyweight changes"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "403")
|
||||
@ -746,6 +756,7 @@ rule "DOC.19.0: Bodyweight changes"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.20
|
||||
rule "DOC.20.0: Study Design"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("402","404","405","406","428","429","438","439","474","487"))
|
||||
@ -758,7 +769,6 @@ rule "DOC.20.0: Study Design"
|
||||
.forEach(entity -> entity.apply("DOC.20.0", "Study design section found", "n-a"));
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.20.1: Study Design"
|
||||
when
|
||||
Headline(containsStringIgnoreCase("Study Design"), $sectionIdentifier: getSectionIdentifier())
|
||||
@ -771,6 +781,7 @@ rule "DOC.20.1: Study Design"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.21
|
||||
rule "DOC.21.0: Results and Conclusion (406, 428, 438, 439, 474 & 487)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("406","428","438","439","474","487"))
|
||||
@ -785,7 +796,6 @@ rule "DOC.21.0: Results and Conclusion (406, 428, 438, 439, 474 & 487)"
|
||||
.forEach(entity -> entity.apply("DOC.21.0", "Results and Conclusion found", "n-a"));
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.21.1: Results and Conclusion (406, 428, 438, 439, 474 & 487)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("406","428","438","439","474","487"))
|
||||
@ -801,6 +811,7 @@ rule "DOC.21.1: Results and Conclusion (406, 428, 438, 439, 474 & 487)"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.22
|
||||
rule "DOC.22.0: Detailing (404 & 405)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("404","405"))
|
||||
@ -815,6 +826,7 @@ rule "DOC.22.0: Detailing (404 & 405)"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.23
|
||||
rule "DOC.23.0: Preliminary Test Results (429)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "429")
|
||||
@ -828,6 +840,7 @@ rule "DOC.23.0: Preliminary Test Results (429)"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.24
|
||||
rule "DOC.24.0: Test Results (429)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "429")
|
||||
@ -837,7 +850,6 @@ rule "DOC.24.0: Test Results (429)"
|
||||
.forEach(entity -> entity.apply("DOC.24.0", "Test Results found", "n-a"));
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.24.1: Test Results (429)"
|
||||
when
|
||||
Headline(containsStringIgnoreCase("RESULTS AND DISCUSSION"), $sectionIdentifierResultsAndDiscussion: getSectionIdentifier())
|
||||
@ -850,6 +862,7 @@ rule "DOC.24.1: Test Results (429)"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.25
|
||||
rule "DOC.25.0: Approach used (429)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "429")
|
||||
@ -864,6 +877,7 @@ rule "DOC.25.0: Approach used (429)"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.26
|
||||
rule "DOC.26.0: Sex"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("405","429"))
|
||||
@ -886,6 +900,7 @@ rule "DOC.26.0: Sex"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.27
|
||||
rule "DOC.27.0: Animal Number 405"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "405")
|
||||
@ -911,6 +926,7 @@ rule "DOC.27.0: Animal Number 405"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.28
|
||||
rule "DOC.28.0: Animal Number 429"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "429")
|
||||
@ -936,7 +952,6 @@ rule "DOC.28.0: Animal Number 429"
|
||||
});
|
||||
end
|
||||
|
||||
|
||||
rule "DOC.28.1: No. Of animals - Fallback to appendix tables listing all individual animals for 429"
|
||||
when
|
||||
$keyword: String() from List.of("Animal Number", "Animal No.", "Animal number")
|
||||
@ -954,6 +969,7 @@ rule "DOC.28.1: No. Of animals - Fallback to appendix tables listing all individ
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.29
|
||||
rule "DOC.29.0: 4h Exposure"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", valueEqualsAnyOf("403","436"))
|
||||
@ -967,6 +983,7 @@ rule "DOC.29.0: 4h Exposure"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.30
|
||||
rule "DOC.30.0: Dilution of the test substance"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "404")
|
||||
@ -980,6 +997,7 @@ rule "DOC.30.0: Dilution of the test substance"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.31
|
||||
rule "DOC.31.0: Positive Control"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "429")
|
||||
@ -993,6 +1011,7 @@ rule "DOC.31.0: Positive Control"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.32
|
||||
rule "DOC.32.0: Mortality Statement"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "402")
|
||||
@ -1003,6 +1022,7 @@ rule "DOC.32.0: Mortality Statement"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.33
|
||||
rule "DOC.33.0: Dose Mortality"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "425")
|
||||
@ -1046,6 +1066,7 @@ rule "DOC.33.0: Dose Mortality"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.34
|
||||
rule "DOC.34.0: Results (Main Study)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "429")
|
||||
@ -1060,6 +1081,7 @@ rule "DOC.34.0: Results (Main Study)"
|
||||
end
|
||||
|
||||
|
||||
// Rule unit: DOC.35
|
||||
rule "DOC.35.0: Doses (mg/kg bodyweight)"
|
||||
when
|
||||
FileAttribute(label == "OECD Number", value == "402")
|
||||
@ -1071,6 +1093,7 @@ rule "DOC.35.0: Doses (mg/kg bodyweight)"
|
||||
.forEach(entity -> entity.apply("DOC.35.0", "Doses per bodyweight information found", "n-a"));
|
||||
end
|
||||
|
||||
|
||||
//------------------------------------ Manual redaction rules ------------------------------------
|
||||
|
||||
// Rule unit: MAN.0
|
||||
@ -1213,11 +1236,10 @@ rule "MAN.4.1: Apply legal basis change"
|
||||
end
|
||||
|
||||
|
||||
|
||||
//------------------------------------ Entity merging rules ------------------------------------
|
||||
|
||||
// Rule unit: X.0
|
||||
rule "X.0.0: remove Entity contained by Entity of same type"
|
||||
rule "X.0.0: Remove Entity contained by Entity of same type"
|
||||
salience 65
|
||||
when
|
||||
$larger: TextEntity($type: type, $entityType: entityType, active())
|
||||
@ -1229,7 +1251,7 @@ rule "X.0.0: remove Entity contained by Entity of same type"
|
||||
|
||||
|
||||
// Rule unit: X.2
|
||||
rule "X.2.0: remove Entity of type ENTITY when contained by FALSE_POSITIVE"
|
||||
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())
|
||||
@ -1242,7 +1264,7 @@ rule "X.2.0: remove Entity of type ENTITY when contained by FALSE_POSITIVE"
|
||||
|
||||
|
||||
// Rule unit: X.3
|
||||
rule "X.3.0: remove Entity of type RECOMMENDATION when contained by FALSE_RECOMMENDATION"
|
||||
rule "X.3.0: Remove Entity of type RECOMMENDATION when contained by FALSE_RECOMMENDATION"
|
||||
salience 64
|
||||
when
|
||||
$falseRecommendation: TextEntity($type: type, entityType == EntityType.FALSE_RECOMMENDATION, active())
|
||||
@ -1254,7 +1276,7 @@ rule "X.3.0: remove Entity of type RECOMMENDATION when contained by FALSE_RECOMM
|
||||
|
||||
|
||||
// Rule unit: X.4
|
||||
rule "X.4.0: remove Entity of type RECOMMENDATION when intersected by ENTITY with same type"
|
||||
rule "X.4.0: Remove Entity of type RECOMMENDATION when intersected by ENTITY with same type"
|
||||
salience 256
|
||||
when
|
||||
$entity: TextEntity($type: type, (entityType == EntityType.ENTITY || entityType == EntityType.HINT), active())
|
||||
@ -1267,7 +1289,7 @@ rule "X.4.0: remove Entity of type RECOMMENDATION when intersected by ENTITY wit
|
||||
|
||||
|
||||
// Rule unit: X.5
|
||||
rule "X.5.0: remove Entity of type RECOMMENDATION when contained by ENTITY"
|
||||
rule "X.5.0: Remove Entity of type RECOMMENDATION when contained by ENTITY"
|
||||
salience 256
|
||||
when
|
||||
$entity: TextEntity((entityType == EntityType.ENTITY || entityType == EntityType.HINT), active())
|
||||
@ -1292,8 +1314,7 @@ rule "X.7.0: remove all images"
|
||||
//------------------------------------ File attributes rules ------------------------------------
|
||||
|
||||
// Rule unit: FA.1
|
||||
rule "FA.1.0: remove duplicate FileAttributes"
|
||||
|
||||
rule "FA.1.0: Remove duplicate FileAttributes"
|
||||
salience 64
|
||||
when
|
||||
$fileAttribute: FileAttribute($label: label, $value: value)
|
||||
@ -1303,6 +1324,8 @@ rule "FA.1.0: remove duplicate FileAttributes"
|
||||
end
|
||||
|
||||
|
||||
//------------------------------------ Local dictionary search rules ------------------------------------
|
||||
|
||||
// Rule unit: LDS.0
|
||||
rule "LDS.0.0: Run local dictionary search"
|
||||
agenda-group "LOCAL_DICTIONARY_ADDS"
|
||||
|
||||
Loading…
x
Reference in New Issue
Block a user