Compare commits

..
Author SHA1 Message Date
Timo Bejan f693667fbb Pull request #98: idRemoval fix
Merge in RED/redaction-service from annotation-fix to master

* commit 'e3a960d0861bdfa96b90fe406eb825573007530e':
  idRemoval fix
2021-01-08 10:40:22 +01:00
Timo e3a960d086 idRemoval fix 2021-01-08 11:29:47 +02:00
Dominique Eiflaender a8fdfc4edd Pull request #97: Avoid IndexOutOfBoundsException if dictionary entry has blank at end
Merge in RED/redaction-service from IndexOutOfBoundsBlankFix to master

* commit 'e23ed69e04aa0507eee022cd590a51422a1b09d3':
  Avoid IndexOutOfBoundsException if dictionary entry has blank at end
2021-01-07 16:32:19 +01:00
Dominique Eifländer e23ed69e04 Avoid IndexOutOfBoundsException if dictionary entry has blank at end 2021-01-07 16:20:51 +01:00
Dominique Eiflaender caf20e4776 Pull request #96: Fixed RegEx for et al.
Merge in RED/redaction-service from EtAlRegEx to master

* commit '633fb403e0ac82a88fd8a0d334685fec986c016f':
  Fixed RegEx for et al. recommendations
2021-01-07 13:18:43 +01:00
Dominique Eifländer 633fb403e0 Fixed RegEx for et al. recommendations 2021-01-07 13:07:21 +01:00
Timo Bejan e58b4ff6c1 Pull request #95: Feature/ruleset integration
Merge in RED/redaction-service from feature/ruleset-integration to master

* commit '2c4350b8f369c00177781edc4567df1f2806a2fe':
  Rules Tester
  rule update fix
2021-01-06 18:47:57 +01:00
Timo 2c4350b8f3 Rules Tester 2021-01-06 19:37:39 +02:00
Timo 07ffeab3ae rule update fix 2021-01-06 19:30:40 +02:00
Timo Bejan f087d4afdb Pull request #94: dev mode features, exception generalisation
Merge in RED/redaction-service from feature/ruleset-integration to master

* commit 'c2669ab56843f3ec335cfb1cd7d1e59dc828fb98':
  fixed tests
  fixed tests
  dev mode features, exception generalisation
2021-01-06 16:23:56 +01:00
Timo c2669ab568 fixed tests 2021-01-06 17:04:07 +02:00
Timo a824aa20a5 fixed tests 2021-01-06 17:02:43 +02:00
Timo 6412cf37d9 dev mode features, exception generalisation 2021-01-06 16:41:16 +02:00
Dominique Eiflaender 43d20ad1e7 Pull request #93: RED-727: Added possibility to redact/addRecommendations by regEx in rules.
Merge in RED/redaction-service from RED-727 to master

* commit 'de725a630c06fbc6c6bef6229fcf3ba5c859ef73':
  RED-727: Added possibility to redact/addRecommendations by regEx in rules. Added email regEx and et al. author recommendation regEx
2021-01-06 15:06:37 +01:00
Dominique Eifländer de725a630c RED-727: Added possibility to redact/addRecommendations by regEx in rules. Added email regEx and et al. author recommendation regEx 2021-01-06 14:53:49 +01:00
Timo Bejan 75127fd1bd Pull request #92: RedactionLog now stores ruleSetId
Merge in RED/redaction-service from feature/ruleset-integration to master

* commit '09069d11add65ae999ac80129d2188c64efaefec':
  RedactionLog now stores ruleSetId
2021-01-06 09:23:26 +01:00
Timo 09069d11ad RedactionLog now stores ruleSetId 2021-01-06 10:11:16 +02:00
Timo Bejan ad62a0666f Pull request #91: RuleSetId integration and drools update
Merge in RED/redaction-service from feature/ruleset-integration to master

* commit '5aba4b69bab772222bfd842afe52aae57c6ebba6':
  RuleSetId integration and drools update
2021-01-06 00:57:19 +01:00
Timo 5aba4b69ba RuleSetId integration and drools update 2021-01-06 01:45:38 +02:00
Dominique Eiflaender c2fd749fec Pull request #90: Fixed annotating cell with more than one TextBlock (Mismatch between EntityPositionSequence and found Entity)
Merge in RED/redaction-service from AnnotateCellFix to master

* commit 'e8256c49dc73c0ac93dff427bbeb3bcbfde5dd8b':
  Fixed annotating cell with more than one TextBlock (Mismatch between EntityPositionSequence and found Entity)
2021-01-05 15:03:37 +01:00
Dominique Eifländer e8256c49dc Fixed annotating cell with more than one TextBlock (Mismatch between EntityPositionSequence and found Entity) 2021-01-05 14:53:09 +01:00
Dominique Eiflaender 62351c8d16 Pull request #89: Tables with only 2 column are treated as on text
Merge in RED/redaction-service from 2columnTables to master

* commit '599c7bd6e474b61c32f92d6c67e53a80de13a2e7':
  Tables with only 2 column are treated as on text
2021-01-05 12:35:05 +01:00
Dominique Eifländer 599c7bd6e4 Tables with only 2 column are treated as on text 2021-01-05 12:23:24 +01:00
Dominique Eiflaender 22f609a93a Pull request #88: Fixed false positive dictionary problems
Merge in RED/redaction-service from FalsePositiveFix to master

* commit '609018a051a41504328caf3bd44d27af5848959d':
  Fixed false positive dictionary problems
2021-01-04 16:51:10 +01:00
Dominique Eifländer 609018a051 Fixed false positive dictionary problems 2021-01-04 16:34:55 +01:00
Dominique Eiflaender dedd169031 Pull request #87: Find annotations also in Header cells
Merge in RED/redaction-service from HeaderCellAnnotations to master

* commit '704e6a4b5abad5c1e6f820e7b94c8a50b4c0dc6c':
  Find annotations also in Header cells
2021-01-04 12:09:49 +01:00
Dominique Eifländer 704e6a4b5a Find annotations also in Header cells 2021-01-04 11:53:03 +01:00
Timo Bejan eeda6fd207 Pull request #86: fixed text-after and text-before spacing
Merge in RED/redaction-service from text-after-before-fix to master

* commit '0bc5abb29d0cf688201a37825bb0c726b2c7dcd2':
  fixed text-after and text-before spacing
2021-01-03 12:05:53 +01:00
Timo 0bc5abb29d fixed text-after and text-before spacing 2021-01-03 12:40:21 +02:00
Dominique Eiflaender 53cb9718b6 Pull request #85: Handle 'u00A0' character the same way as ' '
Merge in RED/redaction-service from specialSpaceCharacter to master

* commit '79b57e85cd724ac040b5da9e33f90f4568aac7d0':
  Handle 'u00A0' character the same way as ' '
2020-12-23 11:07:44 +01:00
Dominique Eifländer 79b57e85cd Handle 'u00A0' character the same way as ' ' 2020-12-23 10:57:58 +01:00
Kresnadi Budisantoso b173975ff5 Pull request #84: Fixed 'Comparison method violates its general contract' by using QuickSort from PDFBox
Merge in RED/redaction-service from sortAlgorithm to master

* commit '000b145e710b8459e56223e77a9e19f4a7edd33e':
  Fixed 'Comparison method violates its general contract' by using QuickSort from PDFBox
2020-12-22 16:17:38 +01:00
26 changed files with 1086 additions and 800 deletions
+1 -1
View File
@@ -32,7 +32,7 @@
<dependency>
<groupId>com.iqser.red</groupId>
<artifactId>platform-commons-dependency</artifactId>
<version>1.1.0</version>
<version>1.1.7</version>
<scope>import</scope>
<type>pom</type>
</dependency>
@@ -1,29 +1,32 @@
package com.iqser.red.service.redaction.v1.model;
import java.util.List;
import lombok.AllArgsConstructor;
import lombok.Data;
import lombok.NoArgsConstructor;
import java.util.List;
@Data
@AllArgsConstructor
@NoArgsConstructor
public class RedactionLog {
public RedactionLog(List<RedactionLogEntry> redactionLogEntry, long dictionaryVersion, long rulesVersion) {
private List<RedactionLogEntry> redactionLogEntry;
private long dictionaryVersion = -1;
private long rulesVersion = -1;
private String ruleSetId;
private String filename;
public RedactionLog(List<RedactionLogEntry> redactionLogEntry, long dictionaryVersion, long rulesVersion, String ruleSetId) {
this.redactionLogEntry = redactionLogEntry;
this.dictionaryVersion = dictionaryVersion;
this.rulesVersion = rulesVersion;
this.ruleSetId = ruleSetId;
}
private List<RedactionLogEntry> redactionLogEntry;
private long dictionaryVersion = -1;
private long rulesVersion = -1;
private String filename;
}
@@ -12,6 +12,7 @@ import lombok.NoArgsConstructor;
public class RedactionRequest {
private byte[] document;
private String ruleSetId;
private boolean flatRedaction;
private ManualRedactions manualRedactions;
}
@@ -1,16 +1,19 @@
package com.iqser.red.service.redaction.v1.resources;
import org.springframework.http.MediaType;
import org.springframework.web.bind.annotation.PostMapping;
import org.springframework.web.bind.annotation.RequestBody;
import com.iqser.red.service.redaction.v1.model.RedactionRequest;
import com.iqser.red.service.redaction.v1.model.RedactionResult;
import org.springframework.http.MediaType;
import org.springframework.web.bind.annotation.PathVariable;
import org.springframework.web.bind.annotation.PostMapping;
import org.springframework.web.bind.annotation.RequestBody;
public interface RedactionResource {
String SERVICE_NAME = "redaction-service-v1";
String RULE_SET_PARAMETER_NAME = "ruleSetId";
String RULE_SET_PATH_VARIABLE = "/{" + RULE_SET_PARAMETER_NAME + "}";
@PostMapping(value = "/redact", produces = MediaType.APPLICATION_JSON_VALUE, consumes = MediaType.APPLICATION_JSON_VALUE)
RedactionResult redact(@RequestBody RedactionRequest redactionRequest);
@@ -23,7 +26,10 @@ public interface RedactionResource {
@PostMapping(value = "/debug/htmlTables", produces = MediaType.APPLICATION_JSON_VALUE, consumes = MediaType.APPLICATION_JSON_VALUE)
RedactionResult htmlTables(@RequestBody RedactionRequest redactionRequest);
@PostMapping(value = "/rules/update", consumes = MediaType.APPLICATION_JSON_VALUE)
void updateRules(@RequestBody String rules);
@PostMapping(value = "/rules/update"+RULE_SET_PATH_VARIABLE, consumes = MediaType.APPLICATION_JSON_VALUE)
void updateRules(@PathVariable(RULE_SET_PARAMETER_NAME) String ruleSetId);
@PostMapping(value = "/rules/test", consumes = MediaType.APPLICATION_JSON_VALUE)
void testRules(@RequestBody String rules);
}
@@ -20,7 +20,7 @@
<dependency>
<groupId>com.iqser.red.service</groupId>
<artifactId>configuration-service-api-v1</artifactId>
<version>1.3.7</version>
<version>2.0.0</version>
</dependency>
<dependency>
<groupId>org.drools</groupId>
@@ -1,16 +1,8 @@
package com.iqser.red.service.redaction.v1.server;
import java.io.ByteArrayInputStream;
import java.io.InputStream;
import java.nio.charset.StandardCharsets;
import org.apache.commons.lang3.StringUtils;
import org.kie.api.KieServices;
import org.kie.api.builder.KieBuilder;
import org.kie.api.builder.KieFileSystem;
import org.kie.api.builder.KieModule;
import org.kie.api.runtime.KieContainer;
import org.springframework.beans.factory.annotation.Autowired;
import com.iqser.red.commons.spring.DefaultWebMvcConfiguration;
import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.settings.RedactionServiceSettings;
import org.springframework.boot.SpringApplication;
import org.springframework.boot.actuate.autoconfigure.metrics.web.servlet.WebMvcMetricsAutoConfiguration;
import org.springframework.boot.actuate.autoconfigure.security.servlet.ManagementWebSecurityAutoConfiguration;
@@ -18,54 +10,17 @@ import org.springframework.boot.autoconfigure.SpringBootApplication;
import org.springframework.boot.autoconfigure.security.servlet.SecurityAutoConfiguration;
import org.springframework.boot.context.properties.EnableConfigurationProperties;
import org.springframework.cloud.openfeign.EnableFeignClients;
import org.springframework.context.annotation.Bean;
import org.springframework.context.annotation.Import;
import com.iqser.red.commons.spring.DefaultWebMvcConfiguration;
import com.iqser.red.service.configuration.v1.api.model.RulesResponse;
import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.exception.RulesValidationException;
import com.iqser.red.service.redaction.v1.server.settings.RedactionServiceSettings;
@Import({DefaultWebMvcConfiguration.class})
@EnableFeignClients(basePackageClasses = RulesClient.class)
@EnableConfigurationProperties(RedactionServiceSettings.class)
@SpringBootApplication(exclude = {SecurityAutoConfiguration.class, ManagementWebSecurityAutoConfiguration.class, WebMvcMetricsAutoConfiguration.class})
public class Application {
@Autowired
private RulesClient rulesClient;
public static void main(String[] args) {
SpringApplication.run(Application.class, args);
}
@Bean
public KieContainer kieContainer() {
try {
KieServices kieServices = KieServices.Factory.get();
KieFileSystem kieFileSystem = kieServices.newKieFileSystem();
RulesResponse rules = rulesClient.getRules();
if (StringUtils.isEmpty(rules.getRules())) {
throw new RuntimeException("Rules cannot be empty.");
}
InputStream input = new ByteArrayInputStream(rules.getRules().getBytes(StandardCharsets.UTF_8));
kieFileSystem.write("src/main/resources/drools/rules.drl", kieServices.getResources()
.newInputStreamResource(input));
KieBuilder kieBuilder = kieServices.newKieBuilder(kieFileSystem);
kieBuilder.buildAll();
KieModule kieModule = kieBuilder.getKieModule();
return kieServices.newKieContainer(kieModule.getReleaseId());
} catch (Exception e) {
throw new RulesValidationException("Could not update rules: " + e.getMessage(), e);
}
}
}
@@ -1,10 +1,8 @@
package com.iqser.red.service.redaction.v1.server.client;
import com.iqser.red.service.configuration.v1.api.resource.DictionaryResource;
import org.springframework.cloud.openfeign.FeignClient;
import com.iqser.red.service.configuration.v1.api.resource.DictionaryResource;
import com.iqser.red.service.configuration.v1.api.resource.RulesResource;
@FeignClient(name = "DictionaryResource", url = "http://" + RulesResource.SERVICE_NAME + ":8080")
@FeignClient(name = "DictionaryResource", url = "${configuration-service.url}")
public interface DictionaryClient extends DictionaryResource {
}
@@ -1,9 +1,8 @@
package com.iqser.red.service.redaction.v1.server.client;
import com.iqser.red.service.configuration.v1.api.resource.RulesResource;
import org.springframework.cloud.openfeign.FeignClient;
import com.iqser.red.service.configuration.v1.api.resource.RulesResource;
@FeignClient(name = RulesResource.SERVICE_NAME, url = "http://" + RulesResource.SERVICE_NAME + ":8080")
@FeignClient(name = RulesResource.SERVICE_NAME, url = "${configuration-service.url}")
public interface RulesClient extends RulesResource {
}
@@ -1,14 +1,5 @@
package com.iqser.red.service.redaction.v1.server.controller;
import java.io.ByteArrayInputStream;
import java.io.ByteArrayOutputStream;
import java.io.IOException;
import java.util.List;
import org.apache.pdfbox.pdmodel.PDDocument;
import org.springframework.web.bind.annotation.RequestBody;
import org.springframework.web.bind.annotation.RestController;
import com.iqser.red.service.redaction.v1.model.RedactionLog;
import com.iqser.red.service.redaction.v1.model.RedactionLogEntry;
import com.iqser.red.service.redaction.v1.model.RedactionRequest;
@@ -25,9 +16,17 @@ import com.iqser.red.service.redaction.v1.server.tableextraction.model.AbstractT
import com.iqser.red.service.redaction.v1.server.tableextraction.model.Table;
import com.iqser.red.service.redaction.v1.server.visualization.service.AnnotationHighlightService;
import com.iqser.red.service.redaction.v1.server.visualization.service.PdfVisualisationService;
import lombok.RequiredArgsConstructor;
import lombok.extern.slf4j.Slf4j;
import org.apache.pdfbox.pdmodel.PDDocument;
import org.springframework.web.bind.annotation.PathVariable;
import org.springframework.web.bind.annotation.RequestBody;
import org.springframework.web.bind.annotation.RestController;
import java.io.ByteArrayInputStream;
import java.io.ByteArrayOutputStream;
import java.io.IOException;
import java.util.List;
@Slf4j
@RestController
@@ -51,16 +50,21 @@ public class RedactionController implements RedactionResource {
log.info("Document structure analysis successful, starting redaction analysis...");
entityRedactionService.processDocument(classifiedDoc, redactionRequest.getManualRedactions());
entityRedactionService.processDocument(classifiedDoc, redactionRequest.getRuleSetId(), redactionRequest.getManualRedactions());
annotationHighlightService.highlight(pdDocument, classifiedDoc, redactionRequest.isFlatRedaction(), redactionRequest
.getManualRedactions());
.getManualRedactions(), redactionRequest.getRuleSetId());
log.info("Redaction analysis successful...");
return convert(pdDocument, classifiedDoc.getPages()
.size(), classifiedDoc.getRedactionLogEntities(), classifiedDoc.getSectionGrid(), classifiedDoc.getDictionaryVersion(), classifiedDoc.getRulesVersion());
return convert(pdDocument,
classifiedDoc.getPages().size(),
classifiedDoc.getRedactionLogEntities(),
classifiedDoc.getSectionGrid(),
classifiedDoc.getDictionaryVersion(),
classifiedDoc.getRulesVersion(),
redactionRequest.getRuleSetId());
} catch (IOException e) {
} catch (Exception e) {
throw new RedactionException(e);
}
@@ -76,7 +80,7 @@ public class RedactionController implements RedactionResource {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
pdfVisualisationService.visualizeClassifications(classifiedDoc, pdDocument);
return convert(pdDocument, classifiedDoc.getPages().size());
return convert(pdDocument, classifiedDoc.getPages().size(), pdfSegmentationRequest.getRuleSetId());
} catch (IOException e) {
throw new RedactionException(e);
@@ -94,7 +98,7 @@ public class RedactionController implements RedactionResource {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
pdfVisualisationService.visualizeParagraphs(classifiedDoc, pdDocument);
return convert(pdDocument, classifiedDoc.getPages().size());
return convert(pdDocument, classifiedDoc.getPages().size(), redactionRequest.getRuleSetId());
} catch (IOException e) {
throw new RedactionException(e);
@@ -131,28 +135,32 @@ public class RedactionController implements RedactionResource {
@Override
public void updateRules(@RequestBody String rules) {
public void updateRules(@PathVariable(RULE_SET_PARAMETER_NAME) String ruleSetId) {
droolsExecutionService.updateRules(ruleSetId);
}
droolsExecutionService.updateRules(rules);
@Override
public void testRules(@RequestBody String rules) {
droolsExecutionService.testRules(rules);
}
private RedactionResult convert(PDDocument document, int numberOfPages) throws IOException {
private RedactionResult convert(PDDocument document, int numberOfPages, String ruleSetId) throws IOException {
return convert(document, numberOfPages, null, null, 0, 0);
return convert(document, numberOfPages, null, null, 0, 0, ruleSetId);
}
private RedactionResult convert(PDDocument document, int numberOfPages,
List<RedactionLogEntry> redactionLogEntities,
SectionGrid sectionGrid, long dictionaryVersion, long rulesVersion) throws IOException {
SectionGrid sectionGrid, long dictionaryVersion, long rulesVersion, String ruleSetId) throws IOException {
try (ByteArrayOutputStream byteArrayOutputStream = new ByteArrayOutputStream()) {
document.save(byteArrayOutputStream);
return RedactionResult.builder()
.document(byteArrayOutputStream.toByteArray())
.numberOfPages(numberOfPages)
.redactionLog(new RedactionLog(redactionLogEntities,dictionaryVersion, rulesVersion))
.redactionLog(new RedactionLog(redactionLogEntities, dictionaryVersion, rulesVersion, ruleSetId))
.sectionGrid(sectionGrid)
.build();
}
@@ -212,7 +212,7 @@ public class PDFLinesTextStripper extends PDFTextStripper {
maxCharWidths = charWidth;
}
if (i == 0 && textPositions.get(i).getUnicode().equals(" ")) {
if (i == 0 && (textPositions.get(i).getUnicode().equals(" ") || textPositions.get(i).getUnicode().equals("\u00A0"))) {
startIndex++;
continue;
}
@@ -220,15 +220,15 @@ public class PDFLinesTextStripper extends PDFTextStripper {
// Strange but sometimes this is happening, for example: Metolachlor2.pdf
if (i > 0 && textPositions.get(i).getX() < textPositions.get(i - 1).getX()) {
List<TextPosition> sublist = textPositions.subList(startIndex, i);
if (!(sublist.isEmpty() || sublist.size() == 1 && sublist.get(0).getUnicode().equals(" "))) {
if (!(sublist.isEmpty() || sublist.size() == 1 && (sublist.get(0).getUnicode().equals(" ") || sublist.get(0).getUnicode().equals("\u00A0")))) {
textPositionSequences.add(new TextPositionSequence(sublist, pageNumber));
}
startIndex = i;
}
if (i > 0 && textPositions.get(i).getUnicode().equals(" ") && i <= textPositions.size() - 2) {
if (i > 0 && (textPositions.get(i).getUnicode().equals(" ") || textPositions.get(i).getUnicode().equals("\u00A0")) && i <= textPositions.size() - 2) {
List<TextPosition> sublist = textPositions.subList(startIndex, i);
if (!(sublist.isEmpty() || sublist.size() == 1 && sublist.get(0).getUnicode().equals(" "))) {
if (!(sublist.isEmpty() || sublist.size() == 1 && (sublist.get(0).getUnicode().equals(" ") || sublist.get(0).getUnicode().equals("\u00A0")))) {
textPositionSequences.add(new TextPositionSequence(sublist, pageNumber));
}
startIndex = i + 1;
@@ -236,14 +236,13 @@ public class PDFLinesTextStripper extends PDFTextStripper {
}
List<TextPosition> sublist = textPositions.subList(startIndex, textPositions.size());
if (!sublist.isEmpty() && sublist.get(sublist.size() - 1).getUnicode().equals(" ")) {
if (!sublist.isEmpty() && (sublist.get(sublist.size() - 1).getUnicode().equals(" ") || sublist.get(sublist.size() - 1).getUnicode().equals("\u00A0"))) {
sublist = sublist.subList(0, sublist.size() - 1);
}
if (!(sublist.isEmpty() || sublist.size() == 1 && sublist.get(0).getUnicode().equals(" "))) {
if (!(sublist.isEmpty() || sublist.size() == 1 && (sublist.get(0).getUnicode().equals(" ") || sublist.get(0).getUnicode().equals("\u00A0")))) {
textPositionSequences.add(new TextPositionSequence(sublist, pageNumber));
}
super.writeString(text);
}
@Override
@@ -0,0 +1,24 @@
package com.iqser.red.service.redaction.v1.server.redaction.model;
import lombok.Data;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
@Data
public class DictionaryRepresentation {
private String ruleSetId;
private long dictionaryVersion = -1;
private List<DictionaryModel> dictionary = new ArrayList<>();
private float[] defaultColor;
private float[] requestAddColor;
private float[] requestRemoveColor;
private float[] notRedactedColor;
private Map<String, DictionaryModel> localAccessMap = new HashMap<>();
}
@@ -2,17 +2,19 @@ package com.iqser.red.service.redaction.v1.server.redaction.model;
import static com.iqser.red.service.redaction.v1.server.redaction.model.Dictionary.RECOMMENDATION_PREFIX;
import java.util.ArrayList;
import java.util.Collection;
import java.util.HashMap;
import java.util.HashSet;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.regex.Matcher;
import java.util.regex.Pattern;
import java.util.stream.Collectors;
import org.apache.commons.lang3.StringUtils;
import com.iqser.red.service.redaction.v1.server.classification.model.TextBlock;
import com.iqser.red.service.redaction.v1.server.redaction.utils.EntitySearchUtils;
import com.iqser.red.service.redaction.v1.server.redaction.utils.Patterns;
import lombok.Builder;
@@ -45,6 +47,10 @@ public class Section {
private Map<String, CellValue> tabularData;
private Dictionary dictionary;
private SearchableText searchableText;
public boolean rowEquals(String headerName, String value) {
@@ -70,10 +76,10 @@ public class Section {
public void redact(String type, int ruleNumber, String reason, String legalBasis) {
boolean hasRecommendactionDictionary = dictionaryTypes.contains(RECOMMENDATION_PREFIX + type);
boolean hasRecommendationDictionary = dictionaryTypes.contains(RECOMMENDATION_PREFIX + type);
entities.forEach(entity -> {
if (entity.getType().equals(type) || hasRecommendactionDictionary && entity.getType()
if (entity.getType().equals(type) || hasRecommendationDictionary && entity.getType()
.equals(RECOMMENDATION_PREFIX + type)) {
entity.setRedaction(true);
entity.setMatchedRule(ruleNumber);
@@ -86,10 +92,10 @@ public class Section {
public void redactNot(String type, int ruleNumber, String reason) {
boolean hasRecommendactionDictionary = dictionaryTypes.contains(RECOMMENDATION_PREFIX + type);
boolean hasRecommendationDictionary = dictionaryTypes.contains(RECOMMENDATION_PREFIX + type);
entities.forEach(entity -> {
if (entity.getType().equals(type) || hasRecommendactionDictionary && entity.getType()
if (entity.getType().equals(type) || hasRecommendationDictionary && entity.getType()
.equals(RECOMMENDATION_PREFIX + type)) {
entity.setRedaction(false);
entity.setMatchedRule(ruleNumber);
@@ -114,8 +120,8 @@ public class Section {
public void addHintAnnotation(String value, String asType) {
Set<Entity> found = findEntities(value.trim(), asType, true);
entities.addAll(found);
Set<Entity> found = findEntities(value.trim(), asType, true, false, 0, null, null);
addNewerToEntities(found);
}
@@ -127,24 +133,41 @@ public class Section {
if (values != null) {
for (String value : values) {
if (StringUtils.isNotBlank(value)) {
Set<Entity> found = findEntities(value.trim(), asType, false);
// HashSet keeps the older value, but we want the new only.
entities.removeAll(found);
entities.addAll(found);
Set<Entity> found = findEntities(value.trim(), asType, false, true, ruleNumber, reason, legalBasis);
addNewerToEntities(found);
}
}
}
}
// TODO No need to iterate
entities.forEach(entity -> {
if (entity.getType().equals(asType)) {
entity.setRedaction(true);
entity.setMatchedRule(ruleNumber);
entity.setRedactionReason(reason);
entity.setLegalBasis(legalBasis);
public void redactByRegEx(String pattern, boolean patternCaseInsensitive, int group, String asType, int ruleNumber, String reason, String legalBasis) {
Pattern compiledPattern = Patterns.getCompiledPattern(pattern, patternCaseInsensitive);
Matcher matcher = compiledPattern.matcher(searchText);
while (matcher.find()) {
String match = matcher.group(group);
if (StringUtils.isNotBlank(match)) {
Set<Entity> found = findEntities(match.trim(), asType, false, true, ruleNumber, reason, legalBasis);
addNewerToEntities(found);
}
});
}
}
public void addRecommendationByRegEx(String pattern, boolean patternCaseInsensitive, int group, String asType) {
Pattern compiledPattern = Patterns.getCompiledPattern(pattern, patternCaseInsensitive);
Matcher matcher = compiledPattern.matcher(text);
while (matcher.find()) {
String match = matcher.group(group);
if (StringUtils.isNotBlank(match) && match.length() >= 3) {
localDictionaryAdds.computeIfAbsent(RECOMMENDATION_PREFIX + asType, (x) -> new HashSet<>())
.add(match);
}
}
}
@@ -156,30 +179,21 @@ public class Section {
if (values != null) {
for (String value : values) {
if (StringUtils.isNotBlank(value)) {
Set<Entity> found = findEntities(value.trim(), asType, false);
// HashSet keeps the older value, but we want the new only.
entities.removeAll(found);
entities.addAll(found);
Set<Entity> found = findEntities(value.trim(), asType, false, true, ruleNumber, reason, legalBasis);
addNewerToEntities(found);
if (redactEverywhere && !isLocal()) {
localDictionaryAdds.computeIfAbsent(asType, (x) -> new HashSet<>()).add(value.trim());
}
}
}
}
// TODO No need to iterate
entities.forEach(entity -> {
if (entity.getType().equals(asType)) {
entity.setRedaction(true);
entity.setMatchedRule(ruleNumber);
entity.setRedactionReason(reason);
entity.setLegalBasis(legalBasis);
}
});
}
public void redactLinesBetween(String start, String stop, String asType, int ruleNumber, boolean redactEverywhere,
public void redactLinesBetween(String start, String stop, String asType, int ruleNumber,
boolean redactEverywhere,
String reason, String legalBasis) {
String[] values = StringUtils.substringsBetween(text, start, stop);
@@ -195,11 +209,9 @@ public class Section {
return;
}
Set<Entity> found = findEntities(line.trim(), asType, false);
Set<Entity> found = findEntities(line.trim(), asType, false, true, ruleNumber, reason, legalBasis);
addNewerToEntities(found);
// HashSet keeps the older value, but we want the new only.
entities.removeAll(found);
entities.addAll(found);
if (redactEverywhere && !isLocal()) {
localDictionaryAdds.computeIfAbsent(asType, (x) -> new HashSet<>()).add(line.trim());
}
@@ -207,65 +219,6 @@ public class Section {
}
}
}
// TODO No need to iterate
entities.forEach(entity -> {
if (entity.getType().equals(asType)) {
entity.setRedaction(true);
entity.setMatchedRule(ruleNumber);
entity.setRedactionReason(reason);
entity.setLegalBasis(legalBasis);
}
});
}
private Set<Entity> findEntities(String value, String asType, boolean caseinsensitive) {
if (value.trim().length() <= 2) {
return new HashSet<>();
}
Set<Entity> found = new HashSet<>();
String text = caseinsensitive ? searchText.toLowerCase() : searchText;
String searchValue = caseinsensitive ? value.toLowerCase() : value;
int startIndex;
int stopIndex = 0;
do {
startIndex = text.indexOf(searchValue, stopIndex);
stopIndex = startIndex + searchValue.length();
if (startIndex > -1 && (startIndex == 0 || Character.isWhitespace(text.charAt(startIndex - 1)) || isSeparator(text
.charAt(startIndex - 1))) && (stopIndex == text.length() || isSeparator(text.charAt(stopIndex)))) {
found.add(new Entity(searchText.substring(startIndex, stopIndex), asType, startIndex, stopIndex, headline, sectionNumber, false));
}
} while (startIndex > -1);
return removeEntitiesContainedInLarger(found);
}
private boolean isSeparator(char c) {
return Character.isWhitespace(c) || Pattern.matches("\\p{Punct}", String.valueOf(c)) || c == '\"' || c == '‘' || c == '’';
}
public Set<Entity> removeEntitiesContainedInLarger(Set<Entity> entities) {
List<Entity> wordsToRemove = new ArrayList<>();
for (Entity word : entities) {
for (Entity inner : entities) {
if (inner.getWord().length() < word.getWord()
.length() && inner.getStart() >= word.getStart() && inner.getEnd() <= word.getEnd() && word != inner) {
wordsToRemove.add(inner);
}
}
}
entities.removeAll(wordsToRemove);
return entities;
}
@@ -275,7 +228,8 @@ public class Section {
}
public void redactCell(String cellHeader, int ruleNumber, String type, boolean addAsRecommendations, String reason,
public void redactCell(String cellHeader, int ruleNumber, String type, boolean addAsRecommendations, String
reason,
String legalBasis) {
annotateCell(cellHeader, ruleNumber, type, true, addAsRecommendations, reason, legalBasis);
@@ -289,6 +243,27 @@ public class Section {
}
private Set<Entity> findEntities(String value, String asType, boolean caseInsensitive, boolean redacted,
int ruleNumber, String reason, String legalBasis) {
String text = caseInsensitive ? searchText.toLowerCase() : searchText;
String searchValue = caseInsensitive ? value.toLowerCase() : value;
Set<Entity> found = EntitySearchUtils.find(text, Set.of(searchValue), asType, headline, sectionNumber, true);
found.forEach(entity -> {
if (redacted) {
entity.setRedaction(true);
entity.setMatchedRule(ruleNumber);
entity.setRedactionReason(reason);
entity.setLegalBasis(legalBasis);
}
});
return EntitySearchUtils.clearAndFindPositions(found, searchableText, dictionary);
}
private void annotateCell(String cellHeader, int ruleNumber, String type, boolean redact,
boolean addAsRecommendations, String reason, String legalBasis) {
@@ -305,15 +280,19 @@ public class Section {
entity.setMatchedRule(ruleNumber);
entity.setRedactionReason(reason);
entity.setTargetSequences(value.getTextBlocks()
.get(0)
.getSequences()); // Make sure no other cells with same content are highlighted
.stream()
.map(TextBlock::getSequences)
.flatMap(Collection::stream)
.collect(Collectors.toList())); // Make sure no other cells with same content are highlighted
entity.setLegalBasis(legalBasis);
// HashSet keeps the older value, but we want the new only.
entities.remove(entity);
entities.add(entity);
Set<Entity> singleEntitySet = new HashSet<>();
singleEntitySet.add(entity);
EntitySearchUtils.clearAndFindPositions(singleEntitySet, searchableText, dictionary);
entities = removeEntitiesContainedInLarger(entities);
addNewerToEntities(entity);
EntitySearchUtils.removeEntitiesContainedInLarger(entities);
if (addAsRecommendations && !isLocal()) {
String cleanedWord = word.replaceAll(",", " ").replaceAll(" ", " ").trim() + " ";
@@ -334,6 +313,19 @@ public class Section {
}
}
private void addNewerToEntities(Set<Entity> found) {
// HashSet keeps the older value, but we want the new only.
entities.removeAll(found);
entities.addAll(found);
}
private void addNewerToEntities(Entity found) {
// HashSet keeps the older value, but we want the new only.
entities.remove(found);
entities.add(found);
}
}
@@ -1,5 +1,19 @@
package com.iqser.red.service.redaction.v1.server.redaction.service;
import com.iqser.red.service.configuration.v1.api.model.Colors;
import com.iqser.red.service.configuration.v1.api.model.TypeResponse;
import com.iqser.red.service.configuration.v1.api.model.TypeResult;
import com.iqser.red.service.redaction.v1.server.client.DictionaryClient;
import com.iqser.red.service.redaction.v1.server.redaction.model.Dictionary;
import com.iqser.red.service.redaction.v1.server.redaction.model.DictionaryModel;
import com.iqser.red.service.redaction.v1.server.redaction.model.DictionaryRepresentation;
import feign.FeignException;
import lombok.RequiredArgsConstructor;
import lombok.extern.slf4j.Slf4j;
import org.apache.commons.collections4.CollectionUtils;
import org.apache.commons.lang3.SerializationUtils;
import org.springframework.stereotype.Service;
import java.awt.Color;
import java.util.ArrayList;
import java.util.Comparator;
@@ -10,22 +24,6 @@ import java.util.Map;
import java.util.Set;
import java.util.stream.Collectors;
import org.apache.commons.collections4.CollectionUtils;
import org.apache.commons.lang3.SerializationUtils;
import org.springframework.stereotype.Service;
import com.iqser.red.service.configuration.v1.api.model.Colors;
import com.iqser.red.service.configuration.v1.api.model.TypeResponse;
import com.iqser.red.service.configuration.v1.api.model.TypeResult;
import com.iqser.red.service.redaction.v1.server.client.DictionaryClient;
import com.iqser.red.service.redaction.v1.server.redaction.model.Dictionary;
import com.iqser.red.service.redaction.v1.server.redaction.model.DictionaryModel;
import feign.FeignException;
import lombok.Getter;
import lombok.RequiredArgsConstructor;
import lombok.extern.slf4j.Slf4j;
@Slf4j
@Service
@RequiredArgsConstructor
@@ -34,60 +32,51 @@ public class DictionaryService {
private final DictionaryClient dictionaryClient;
@Getter
private long dictionaryVersion = -1;
@Getter
private List<DictionaryModel> dictionary = new ArrayList<>();
@Getter
private float[] defaultColor;
@Getter
private float[] requestAddColor;
@Getter
private float[] requestRemoveColor;
@Getter
private float[] notRedactedColor;
private Map<String, DictionaryRepresentation> dictionariesByRuleSets = new HashMap<>();
private Map<String, DictionaryModel> localAccessMap = new HashMap<>();
public void updateDictionary(String ruleSetId) {
long version = dictionaryClient.getVersion(ruleSetId);
var foundDictionary = dictionariesByRuleSets.get(ruleSetId);
public void updateDictionary() {
long version = dictionaryClient.getVersion();
if (version > dictionaryVersion) {
dictionaryVersion = version;
updateDictionaryEntry();
if (foundDictionary == null || version > foundDictionary.getDictionaryVersion()) {
updateDictionaryEntry(ruleSetId, version);
}
}
private void updateDictionaryEntry() {
private void updateDictionaryEntry(String ruleSetId, long version) {
try {
TypeResponse typeResponse = dictionaryClient.getAllTypes();
DictionaryRepresentation dictionaryRepresentation = new DictionaryRepresentation();
TypeResponse typeResponse = dictionaryClient.getAllTypes(ruleSetId);
if (typeResponse != null && CollectionUtils.isNotEmpty(typeResponse.getTypes())) {
dictionary = typeResponse.getTypes()
List<DictionaryModel> dictionary = typeResponse.getTypes()
.stream()
.map(t -> new DictionaryModel(t.getType(), t.getRank(), convertColor(t.getHexColor()), t.isCaseInsensitive(), t
.isHint(), t.isRecommendation(), convertEntries(t), new HashSet<>()))
.sorted(Comparator.comparingInt(DictionaryModel::getRank).reversed())
.collect(Collectors.toList());
localAccessMap.clear();
dictionary.forEach(dm -> localAccessMap.put(dm.getType(), dm));
Colors colors = dictionaryClient.getColors();
defaultColor = convertColor(colors.getDefaultColor());
requestAddColor = convertColor(colors.getRequestAdd());
requestRemoveColor = convertColor(colors.getRequestRemove());
notRedactedColor = convertColor(colors.getNotRedacted());
dictionary.forEach(dm -> dictionaryRepresentation.getLocalAccessMap().put(dm.getType(), dm));
Colors colors = dictionaryClient.getColors(ruleSetId);
dictionaryRepresentation.setDefaultColor(convertColor(colors.getDefaultColor()));
dictionaryRepresentation.setRequestAddColor(convertColor(colors.getRequestAdd()));
dictionaryRepresentation.setRequestRemoveColor(convertColor(colors.getRequestRemove()));
dictionaryRepresentation.setNotRedactedColor(convertColor(colors.getNotRedacted()));
dictionaryRepresentation.setRuleSetId(ruleSetId);
dictionaryRepresentation.setDictionaryVersion(version);
dictionaryRepresentation.setDictionary(dictionary);
dictionariesByRuleSets.put(ruleSetId, dictionaryRepresentation);
}
} catch (FeignException e) {
log.warn("Got some unknown feignException", e);
@@ -96,12 +85,12 @@ public class DictionaryService {
}
public void updateExternalDictionary(Dictionary dictionary){
public void updateExternalDictionary(Dictionary dictionary, String ruleSetId) {
dictionary.getDictionaryModels().forEach(dm -> {
if(dm.isRecommendation() && !dm.getLocalEntries().isEmpty()){
dictionaryClient.addEntries(dm.getType(), new ArrayList<>(dm.getLocalEntries()), false);
long externalVersion = dictionaryClient.getVersion();
if(externalVersion == dictionary.getVersion() + 1){
if (dm.isRecommendation() && !dm.getLocalEntries().isEmpty()) {
dictionaryClient.addEntries(dm.getType(), ruleSetId, new ArrayList<>(dm.getLocalEntries()), false);
long externalVersion = dictionaryClient.getVersion(ruleSetId);
if (externalVersion == dictionary.getVersion() + 1) {
dictionary.setVersion(externalVersion);
}
}
@@ -112,13 +101,13 @@ public class DictionaryService {
private Set<String> convertEntries(TypeResult t) {
if (t.isCaseInsensitive()) {
return dictionaryClient.getDictionaryForType(t.getType())
return dictionaryClient.getDictionaryForType(t.getType(), t.getRuleSetId())
.getEntries()
.stream()
.map(String::toLowerCase)
.collect(Collectors.toSet());
} else {
return new HashSet<>(dictionaryClient.getDictionaryForType(t.getType()).getEntries());
return new HashSet<>(dictionaryClient.getDictionaryForType(t.getType(), t.getRuleSetId()).getEntries());
}
}
@@ -130,9 +119,9 @@ public class DictionaryService {
}
public boolean isCaseInsensitiveDictionary(String type) {
public boolean isCaseInsensitiveDictionary(String type, String ruleSetId) {
DictionaryModel dictionaryModel = localAccessMap.get(type);
DictionaryModel dictionaryModel = dictionariesByRuleSets.get(ruleSetId).getLocalAccessMap().get(type);
if (dictionaryModel != null) {
return dictionaryModel.isCaseInsensitive();
}
@@ -140,28 +129,28 @@ public class DictionaryService {
}
public float[] getColor(String type) {
public float[] getColor(String type, String ruleSetId) {
DictionaryModel model = localAccessMap.get(type);
DictionaryModel model = dictionariesByRuleSets.get(ruleSetId).getLocalAccessMap().get(type);
if (model != null) {
return model.getColor();
}
return defaultColor;
return dictionariesByRuleSets.get(ruleSetId).getDefaultColor();
}
public boolean isHint(String type) {
public boolean isHint(String type, String ruleSetId) {
DictionaryModel model = localAccessMap.get(type);
DictionaryModel model = dictionariesByRuleSets.get(ruleSetId).getLocalAccessMap().get(type);
if (model != null) {
return model.isHint();
}
return false;
}
public boolean isRecommendation(String type) {
public boolean isRecommendation(String type, String ruleSetId) {
DictionaryModel model = localAccessMap.get(type);
DictionaryModel model = dictionariesByRuleSets.get(ruleSetId).getLocalAccessMap().get(type);
if (model != null) {
return model.isRecommendation();
}
@@ -169,14 +158,27 @@ public class DictionaryService {
}
public Dictionary getDeepCopyDictionary(){
public Dictionary getDeepCopyDictionary(String ruleSetId) {
List<DictionaryModel> copy = new ArrayList<>();
var representation = dictionariesByRuleSets.get(ruleSetId);
var dictionary = dictionariesByRuleSets.get(ruleSetId).getDictionary();
dictionary.forEach(dm -> {
copy.add(SerializationUtils.clone(dm));
});
return new Dictionary(copy, dictionaryVersion);
return new Dictionary(copy, representation.getDictionaryVersion());
}
public float[] getRequestRemoveColor(String ruleSetId) {
return dictionariesByRuleSets.get(ruleSetId).getRequestAddColor();
}
public float[] getNotRedactedColor(String ruleSetId) {
return dictionariesByRuleSets.get(ruleSetId).getNotRedactedColor();
}
public float[] getRequestAddColor(String ruleSetId) {
return dictionariesByRuleSets.get(ruleSetId).getRequestAddColor();
}
}
@@ -1,9 +1,11 @@
package com.iqser.red.service.redaction.v1.server.redaction.service;
import java.io.ByteArrayInputStream;
import java.io.InputStream;
import java.nio.charset.StandardCharsets;
import com.iqser.red.service.configuration.v1.api.model.RulesResponse;
import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.exception.RulesValidationException;
import com.iqser.red.service.redaction.v1.server.redaction.model.Section;
import lombok.Getter;
import lombok.RequiredArgsConstructor;
import org.apache.commons.lang3.StringUtils;
import org.kie.api.KieServices;
import org.kie.api.builder.KieBuilder;
@@ -11,15 +13,13 @@ import org.kie.api.builder.KieFileSystem;
import org.kie.api.builder.KieModule;
import org.kie.api.runtime.KieContainer;
import org.kie.api.runtime.KieSession;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.stereotype.Service;
import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.exception.RulesValidationException;
import com.iqser.red.service.redaction.v1.server.redaction.model.Section;
import lombok.Getter;
import lombok.RequiredArgsConstructor;
import java.io.ByteArrayInputStream;
import java.io.InputStream;
import java.nio.charset.StandardCharsets;
import java.util.HashMap;
import java.util.Map;
@Service
@RequiredArgsConstructor
@@ -27,13 +27,22 @@ public class DroolsExecutionService {
private final RulesClient rulesClient;
@Autowired
private KieContainer kieContainer;
private Map<String, KieContainer> kieContainers = new HashMap<>();
public KieContainer getKieContainer(String ruleSetId) {
KieContainer container = kieContainers.get(ruleSetId);
if (container == null) {
return createOrUpdateKieContainer(ruleSetId);
} else {
return container;
}
}
@Getter
private long rulesVersion = -1;
public Section executeRules(Section section) {
public Section executeRules(KieContainer kieContainer, Section section) {
KieSession kieSession = kieContainer.newKieSession();
kieSession.setGlobal("section", section);
@@ -45,34 +54,60 @@ public class DroolsExecutionService {
}
public void updateRules() {
public KieContainer updateRules(String ruleSetId) {
long version = rulesClient.getVersion();
long version = rulesClient.getVersion(ruleSetId);
if (version > rulesVersion) {
rulesVersion = version;
updateRules(rulesClient.getRules().getRules());
return createOrUpdateKieContainer(ruleSetId);
}
return getKieContainer(ruleSetId);
}
public void updateRules(String drlAsString) {
private KieContainer createOrUpdateKieContainer(String ruleSetId) {
try {
if (StringUtils.isEmpty(drlAsString)) {
RulesResponse rules = rulesClient.getRules(ruleSetId);
if (rules == null || StringUtils.isEmpty(rules.getRules())) {
throw new RuntimeException("Rules cannot be empty.");
}
KieServices kieServices = KieServices.Factory.get();
InputStream input = new ByteArrayInputStream(drlAsString.getBytes(StandardCharsets.UTF_8));
KieFileSystem kieFileSystem = kieServices.newKieFileSystem();
kieFileSystem.write("src/main/resources/drools/rules.drl", kieServices.getResources().newInputStreamResource(input));
KieBuilder kieBuilder = kieServices.newKieBuilder(kieFileSystem);
kieBuilder.buildAll();
KieModule kieModule = kieBuilder.getKieModule();
kieContainer.updateToVersion(kieModule.getReleaseId());
KieModule kieModule = getKieModule(ruleSetId, rules.getRules(), kieServices);
var container = kieContainers.get(ruleSetId);
if (container != null) {
container.updateToVersion(kieModule.getReleaseId());
return container;
}
container = kieServices.newKieContainer(kieModule.getReleaseId());
kieContainers.put(ruleSetId, container);
return container;
} catch (Exception e) {
throw new RulesValidationException("Could not update rules: " + e.getMessage(), e);
}
}
private KieModule getKieModule(String ruleSetId, String rules, KieServices kieServices) {
KieFileSystem kieFileSystem = kieServices.newKieFileSystem();
InputStream input = new ByteArrayInputStream(rules.getBytes(StandardCharsets.UTF_8));
kieFileSystem.write("src/main/resources/drools/rules" + ruleSetId + ".drl", kieServices.getResources()
.newInputStreamResource(input));
KieBuilder kieBuilder = kieServices.newKieBuilder(kieFileSystem);
kieBuilder.buildAll();
return kieBuilder.getKieModule();
}
public void testRules(String rules) {
KieServices kieServices = KieServices.Factory.get();
KieModule kieModule = getKieModule("test-rules", rules, kieServices);
var container = kieServices.newKieContainer(kieModule.getReleaseId());
container.newKieSession();
container.dispose();
}
}
@@ -6,12 +6,14 @@ import java.util.HashSet;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.concurrent.atomic.AtomicInteger;
import java.util.regex.Pattern;
import java.util.stream.Collectors;
import java.util.stream.Stream;
import org.apache.commons.collections4.CollectionUtils;
import org.apache.commons.lang3.StringUtils;
import org.kie.api.runtime.KieContainer;
import org.springframework.stereotype.Service;
import com.iqser.red.service.redaction.v1.model.ManualRedactionEntry;
@@ -28,6 +30,7 @@ import com.iqser.red.service.redaction.v1.server.redaction.model.EntityPositionS
import com.iqser.red.service.redaction.v1.server.redaction.model.SearchableText;
import com.iqser.red.service.redaction.v1.server.redaction.model.Section;
import com.iqser.red.service.redaction.v1.server.redaction.model.SectionSearchableTextPair;
import com.iqser.red.service.redaction.v1.server.redaction.utils.EntitySearchUtils;
import com.iqser.red.service.redaction.v1.server.tableextraction.model.Cell;
import com.iqser.red.service.redaction.v1.server.tableextraction.model.Table;
@@ -44,15 +47,15 @@ public class EntityRedactionService {
private final SurroundingWordsService surroundingWordsService;
public void processDocument(Document classifiedDoc, ManualRedactions manualRedactions) {
public void processDocument(Document classifiedDoc, String ruleSetId, ManualRedactions manualRedactions) {
dictionaryService.updateDictionary();
droolsExecutionService.updateRules();
dictionaryService.updateDictionary(ruleSetId);
KieContainer container = droolsExecutionService.updateRules(ruleSetId);
long rulesVersion = droolsExecutionService.getRulesVersion();
Dictionary dictionary = dictionaryService.getDeepCopyDictionary();
Dictionary dictionary = dictionaryService.getDeepCopyDictionary(ruleSetId);
Set<Entity> documentEntities = new HashSet<>(findEntities(classifiedDoc, manualRedactions, dictionary, false, null));
Set<Entity> documentEntities = new HashSet<>(findEntities(classifiedDoc, container, manualRedactions, dictionary, false, null));
if (dictionary.hasLocalEntries()) {
@@ -64,12 +67,12 @@ public class EntityRedactionService {
}
});
Set<Entity> foundByLocal = findEntities(classifiedDoc, manualRedactions, dictionary, true, hintsPerSectionNumber);
Set<Entity> foundByLocal = findEntities(classifiedDoc, container, manualRedactions, dictionary, true, hintsPerSectionNumber);
// HashSet keeps the older value, but we want the new only.
documentEntities.removeAll(foundByLocal);
documentEntities.addAll(foundByLocal);
removeEntitiesContainedInLarger(documentEntities);
EntitySearchUtils.removeEntitiesContainedInLarger(documentEntities);
}
for (Entity entity : documentEntities) {
@@ -88,99 +91,39 @@ public class EntityRedactionService {
}
}
dictionaryService.updateExternalDictionary(dictionary);
dictionaryService.updateExternalDictionary(dictionary, ruleSetId);
classifiedDoc.setDictionaryVersion(dictionary.getVersion());
classifiedDoc.setRulesVersion(rulesVersion);
}
private Set<Entity> findEntities(Document classifiedDoc, ManualRedactions manualRedactions, Dictionary dictionary,
boolean local, Map<Integer, Set<Entity>> hintsPerSectionNumber) {
private Set<Entity> findEntities(Document classifiedDoc, KieContainer kieContainer,
ManualRedactions manualRedactions, Dictionary dictionary, boolean local,
Map<Integer, Set<Entity>> hintsPerSectionNumber) {
Set<Entity> documentEntities = new HashSet<>();
int sectionNumber = 1;
AtomicInteger sectionNumber = new AtomicInteger(1);
List<SectionSearchableTextPair> sectionSearchableTextPairs = new ArrayList<>();
for (Paragraph paragraph : classifiedDoc.getParagraphs()) {
SearchableText searchableText = paragraph.getSearchableText();
List<Table> tables = paragraph.getTables();
for (Table table : tables) {
boolean singleCellTable = table.getRowCount() == 1 && table.getColCount() == 1;
for (List<Cell> row : table.getRows()) {
SearchableText searchableRow = new SearchableText();
Map<String, CellValue> tabularData = new HashMap<>();
int start = 0;
List<Integer> cellStarts = new ArrayList<>();
for (Cell cell : row) {
if (!singleCellTable && cell.isHeaderCell() || CollectionUtils.isEmpty(cell.getTextBlocks())) {
continue;
}
addSectionToManualRedactions(cell.getTextBlocks(), manualRedactions, table.getHeadline(), sectionNumber);
int cellStart = start;
cell.getHeaderCells().forEach(headerCell -> {
StringBuilder headerBuilder = new StringBuilder();
headerCell.getTextBlocks().forEach(textBlock -> headerBuilder.append(textBlock.getText()));
String headerName = headerBuilder.toString()
.replaceAll("\n", "")
.replaceAll(" ", "")
.replaceAll("-", "");
tabularData.put(headerName, new CellValue(cell.getTextBlocks(), cellStart));
});
for (TextBlock textBlock : cell.getTextBlocks()) {
// TODO avoid cell overlap merging.
searchableRow.addAll(textBlock.getSequences());
}
cellStarts.add(cellStart);
start = start + cell.toString().trim().length() + 1;
}
Set<Entity> rowEntities = findEntities(searchableRow, table.getHeadline(), sectionNumber, dictionary
.getDictionaryModels(), local);
surroundingWordsService.addSurroundingText(rowEntities, searchableRow, dictionary, cellStarts);
sectionSearchableTextPairs.add(new SectionSearchableTextPair(Section.builder()
.isLocal(local)
.dictionaryTypes(dictionary.getTypes())
.entities(hintsPerSectionNumber != null && hintsPerSectionNumber.containsKey(sectionNumber) ? Stream
.concat(rowEntities.stream(), hintsPerSectionNumber.get(sectionNumber).stream())
.collect(Collectors.toSet()) : rowEntities)
.text(searchableRow.getAsStringWithLinebreaks())
.searchText(searchableRow.toString())
.headline(table.getHeadline())
.sectionNumber(sectionNumber)
.tabularData(tabularData)
.build(), searchableRow));
sectionNumber++;
if (table.getColCount() == 2) {
sectionSearchableTextPairs.addAll(processTableAsOneText(table, manualRedactions, sectionNumber, dictionary, local, hintsPerSectionNumber));
} else {
sectionSearchableTextPairs.addAll(processTablePerRow(table, manualRedactions, sectionNumber, dictionary, local, hintsPerSectionNumber));
}
sectionNumber++;
sectionNumber.incrementAndGet();
}
addSectionToManualRedactions(paragraph.getTextBlocks(), manualRedactions, paragraph.getHeadline(), sectionNumber);
Set<Entity> entities = findEntities(searchableText, paragraph.getHeadline(), sectionNumber, dictionary.getDictionaryModels(), local);
surroundingWordsService.addSurroundingText(entities, searchableText, dictionary);
sectionSearchableTextPairs.add(new SectionSearchableTextPair(Section.builder()
.isLocal(local)
.dictionaryTypes(dictionary.getTypes())
.entities(hintsPerSectionNumber != null && hintsPerSectionNumber.containsKey(sectionNumber) ? Stream
.concat(entities.stream(), hintsPerSectionNumber.get(sectionNumber).stream())
.collect(Collectors.toSet()) : entities)
.text(searchableText.getAsStringWithLinebreaks())
.searchText(searchableText.toString())
.headline(paragraph.getHeadline())
.sectionNumber(sectionNumber)
.build(), searchableText));
sectionNumber++;
sectionSearchableTextPairs.add(processText(paragraph, manualRedactions, sectionNumber, dictionary, local, hintsPerSectionNumber));
sectionNumber.incrementAndGet();
}
sectionSearchableTextPairs.forEach(sectionSearchableTextPair -> {
Section analysedRowSection = droolsExecutionService.executeRules(sectionSearchableTextPair.getSection());
documentEntities.addAll(clearAndFindPositions(analysedRowSection.getEntities(), sectionSearchableTextPair.getSearchableText(), dictionary));
Section analysedRowSection = droolsExecutionService.executeRules(kieContainer, sectionSearchableTextPair.getSection());
documentEntities.addAll(analysedRowSection.getEntities());
analysedRowSection.getLocalDictionaryAdds().keySet().forEach(key -> {
if (dictionary.isRecommendation(key)) {
@@ -211,23 +154,132 @@ public class EntityRedactionService {
}
private Set<Entity> clearAndFindPositions(Set<Entity> entities, SearchableText text, Dictionary dictionary) {
private List<SectionSearchableTextPair> processTablePerRow(Table table, ManualRedactions manualRedactions,
AtomicInteger sectionNumber, Dictionary dictionary,
boolean local,
Map<Integer, Set<Entity>> hintsPerSectionNumber) {
removeEntitiesContainedInLarger(entities);
List<SectionSearchableTextPair> sectionSearchableTextPairs = new ArrayList<>();
for (List<Cell> row : table.getRows()) {
SearchableText searchableRow = new SearchableText();
Map<String, CellValue> tabularData = new HashMap<>();
int start = 0;
List<Integer> cellStarts = new ArrayList<>();
for (Cell cell : row) {
if (CollectionUtils.isEmpty(cell.getTextBlocks())) {
continue;
}
addSectionToManualRedactions(cell.getTextBlocks(), manualRedactions, table.getHeadline(), sectionNumber.intValue());
int cellStart = start;
cell.getHeaderCells().forEach(headerCell -> {
StringBuilder headerBuilder = new StringBuilder();
headerCell.getTextBlocks().forEach(textBlock -> headerBuilder.append(textBlock.getText()));
String headerName = headerBuilder.toString()
.replaceAll("\n", "")
.replaceAll(" ", "")
.replaceAll("-", "");
tabularData.put(headerName, new CellValue(cell.getTextBlocks(), cellStart));
});
for (Entity entity : entities) {
if (entity.getPositionSequences().isEmpty()) {
entity.setPositionSequences(text.getSequences(entity.getWord(), dictionary.isCaseInsensitiveDictionary(entity
.getType()), entity.getTargetSequences()));
for (TextBlock textBlock : cell.getTextBlocks()) {
// TODO avoid cell overlap merging.
searchableRow.addAll(textBlock.getSequences());
}
cellStarts.add(cellStart);
start = start + cell.toString().trim().length() + 1;
}
Set<Entity> rowEntities = findEntities(searchableRow, table.getHeadline(), sectionNumber.intValue(), dictionary, local);
surroundingWordsService.addSurroundingText(rowEntities, searchableRow, dictionary, cellStarts);
sectionSearchableTextPairs.add(new SectionSearchableTextPair(Section.builder()
.isLocal(local)
.dictionaryTypes(dictionary.getTypes())
.entities(hintsPerSectionNumber != null && hintsPerSectionNumber.containsKey(sectionNumber.intValue()) ? Stream
.concat(rowEntities.stream(), hintsPerSectionNumber.get(sectionNumber.intValue()).stream())
.collect(Collectors.toSet()) : rowEntities)
.text(searchableRow.getAsStringWithLinebreaks())
.searchText(searchableRow.toString())
.headline(table.getHeadline())
.sectionNumber(sectionNumber.intValue())
.tabularData(tabularData)
.searchableText(searchableRow)
.dictionary(dictionary)
.build(), searchableRow));
sectionNumber.incrementAndGet();
}
return sectionSearchableTextPairs;
}
private List<SectionSearchableTextPair> processTableAsOneText(Table table, ManualRedactions manualRedactions,
AtomicInteger sectionNumber, Dictionary dictionary,
boolean local,
Map<Integer, Set<Entity>> hintsPerSectionNumber) {
List<SectionSearchableTextPair> sectionSearchableTextPairs = new ArrayList<>();
SearchableText entireTableText = new SearchableText();
for (List<Cell> row : table.getRows()) {
for (Cell cell : row) {
if (CollectionUtils.isEmpty(cell.getTextBlocks())) {
continue;
}
for (TextBlock textBlock : cell.getTextBlocks()) {
entireTableText.addAll(textBlock.getSequences());
}
addSectionToManualRedactions(cell.getTextBlocks(), manualRedactions, table.getHeadline(), sectionNumber.intValue());
}
}
return entities;
Set<Entity> rowEntities = findEntities(entireTableText, table.getHeadline(), sectionNumber.intValue(), dictionary, local);
surroundingWordsService.addSurroundingText(rowEntities, entireTableText, dictionary);
sectionSearchableTextPairs.add(new SectionSearchableTextPair(Section.builder()
.isLocal(local)
.dictionaryTypes(dictionary.getTypes())
.entities(hintsPerSectionNumber != null && hintsPerSectionNumber.containsKey(sectionNumber.intValue()) ? Stream
.concat(rowEntities.stream(), hintsPerSectionNumber.get(sectionNumber.intValue()).stream())
.collect(Collectors.toSet()) : rowEntities)
.text(entireTableText.getAsStringWithLinebreaks())
.searchText(entireTableText.toString())
.headline(table.getHeadline())
.sectionNumber(sectionNumber.intValue())
.searchableText(entireTableText)
.dictionary(dictionary)
.build(), entireTableText));
return sectionSearchableTextPairs;
}
private SectionSearchableTextPair processText(Paragraph paragraph, ManualRedactions manualRedactions,
AtomicInteger sectionNumber, Dictionary dictionary, boolean local,
Map<Integer, Set<Entity>> hintsPerSectionNumber) {
SearchableText searchableText = paragraph.getSearchableText();
addSectionToManualRedactions(paragraph.getTextBlocks(), manualRedactions, paragraph.getHeadline(), sectionNumber
.intValue());
Set<Entity> entities = findEntities(searchableText, paragraph.getHeadline(), sectionNumber.intValue(), dictionary, local);
surroundingWordsService.addSurroundingText(entities, searchableText, dictionary);
return new SectionSearchableTextPair(Section.builder()
.isLocal(local)
.dictionaryTypes(dictionary.getTypes())
.entities(hintsPerSectionNumber != null && hintsPerSectionNumber.containsKey(sectionNumber.intValue()) ? Stream
.concat(entities.stream(), hintsPerSectionNumber.get(sectionNumber.intValue()).stream())
.collect(Collectors.toSet()) : entities)
.text(searchableText.getAsStringWithLinebreaks())
.searchText(searchableText.toString())
.headline(paragraph.getHeadline())
.sectionNumber(sectionNumber.intValue())
.searchableText(searchableText)
.dictionary(dictionary)
.build(), searchableText);
}
private Set<Entity> findEntities(SearchableText searchableText, String headline, int sectionNumber,
List<DictionaryModel> dictionary, boolean local) {
Dictionary dictionary, boolean local) {
Set<Entity> found = new HashSet<>();
String searchableString = searchableText.toString();
@@ -236,15 +288,15 @@ public class EntityRedactionService {
}
String lowercaseInputString = searchableString.toLowerCase();
for (DictionaryModel model : dictionary) {
for (DictionaryModel model : dictionary.getDictionaryModels()) {
if (model.isCaseInsensitive()) {
found.addAll(find(lowercaseInputString, model.getValues(local), model.getType(), headline, sectionNumber, local));
} else {
found.addAll(find(searchableString, model.getValues(local), model.getType(), headline, sectionNumber, local));
}
}
removeEntitiesContainedInLarger(found);
return found;
return EntitySearchUtils.clearAndFindPositions(found, searchableText, dictionary);
}
@@ -282,22 +334,6 @@ public class EntityRedactionService {
}
public void removeEntitiesContainedInLarger(Set<Entity> entities) {
List<Entity> wordsToRemove = new ArrayList<>();
for (Entity word : entities) {
for (Entity inner : entities) {
if (inner.getWord().length() < word.getWord()
.length() && inner.getStart() >= word.getStart() && inner.getEnd() <= word.getEnd() && word != inner && word
.getSectionNumber() == inner.getSectionNumber()) {
wordsToRemove.add(inner);
}
}
}
entities.removeAll(wordsToRemove);
}
private void addSectionToManualRedactions(List<TextBlock> textBlocks, ManualRedactions manualRedactions,
String section, int sectionNumber) {
@@ -1,17 +1,15 @@
package com.iqser.red.service.redaction.v1.server.redaction.service;
import java.util.List;
import java.util.Set;
import org.springframework.stereotype.Service;
import com.iqser.red.service.redaction.v1.server.redaction.model.Dictionary;
import com.iqser.red.service.redaction.v1.server.redaction.model.Entity;
import com.iqser.red.service.redaction.v1.server.redaction.model.SearchableText;
import com.iqser.red.service.redaction.v1.server.settings.RedactionServiceSettings;
import lombok.RequiredArgsConstructor;
import lombok.extern.slf4j.Slf4j;
import org.springframework.stereotype.Service;
import java.util.List;
import java.util.Set;
@Slf4j
@Service
@@ -94,7 +92,7 @@ public class SurroundingWordsService {
int numberOfWordsBefore = wordsBefore.length > redactionServiceSettings.getNumberOfSurroundingWords() ? redactionServiceSettings
.getNumberOfSurroundingWords() : wordsBefore.length;
if (wordsBefore.length > 0) {
entity.setTextBefore(concatWordsBefore(wordsBefore, numberOfWordsBefore));
entity.setTextBefore(concatWordsBefore(wordsBefore, numberOfWordsBefore, textBefore.endsWith(" ")));
}
}
@@ -106,13 +104,13 @@ public class SurroundingWordsService {
int numberOfWordsAfter = wordsAfter.length > redactionServiceSettings.getNumberOfSurroundingWords() ? redactionServiceSettings
.getNumberOfSurroundingWords() : wordsAfter.length;
if (wordsAfter.length > 0) {
entity.setTextAfter(concatWordsAfter(wordsAfter, numberOfWordsAfter));
entity.setTextAfter(concatWordsAfter(wordsAfter, numberOfWordsAfter, textAfter.startsWith(" ")));
}
}
}
private String concatWordsBefore(String[] words, int number) {
private String concatWordsBefore(String[] words, int number, boolean endWithSpace) {
StringBuilder sb = new StringBuilder();
@@ -122,11 +120,12 @@ public class SurroundingWordsService {
sb.append(words[i]).append(" ");
}
return sb.toString().trim();
String result = sb.toString().trim();
return endWithSpace ? result + " " : result;
}
private String concatWordsAfter(String[] words, int number) {
private String concatWordsAfter(String[] words, int number, boolean startWithSpace) {
StringBuilder sb = new StringBuilder();
@@ -134,7 +133,8 @@ public class SurroundingWordsService {
sb.append(words[i]).append(" ");
}
return sb.toString().trim();
String result = sb.toString().trim();
return startWithSpace ? " " + result : result;
}
}
@@ -0,0 +1,107 @@
package com.iqser.red.service.redaction.v1.server.redaction.utils;
import java.util.ArrayList;
import java.util.Comparator;
import java.util.HashMap;
import java.util.HashSet;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.regex.Pattern;
import java.util.stream.Collectors;
import com.iqser.red.service.redaction.v1.server.redaction.model.Dictionary;
import com.iqser.red.service.redaction.v1.server.redaction.model.Entity;
import com.iqser.red.service.redaction.v1.server.redaction.model.EntityPositionSequence;
import com.iqser.red.service.redaction.v1.server.redaction.model.SearchableText;
import lombok.experimental.UtilityClass;
import lombok.extern.slf4j.Slf4j;
@Slf4j
@UtilityClass
public class EntitySearchUtils {
public Set<Entity> find(String inputString, Set<String> values, String type, String headline, int sectionNumber,
boolean local) {
Set<Entity> found = new HashSet<>();
for (String value : values) {
String cleanValue = value.trim();
if (cleanValue.length() <= 2) {
continue;
}
int startIndex;
int stopIndex = 0;
do {
startIndex = inputString.indexOf(cleanValue, stopIndex);
stopIndex = startIndex + cleanValue.length();
if (startIndex > -1 && (startIndex == 0 || Character.isWhitespace(inputString.charAt(startIndex - 1)) || isSeparator(inputString
.charAt(startIndex - 1))) && (stopIndex == inputString.length() || isSeparator(inputString.charAt(stopIndex)))) {
found.add(new Entity(inputString.substring(startIndex, stopIndex), type, startIndex, stopIndex, headline, sectionNumber, !local));
}
} while (startIndex > -1);
}
return found;
}
private boolean isSeparator(char c) {
return Character.isWhitespace(c) || Pattern.matches("\\p{Punct}", String.valueOf(c)) || c == '\"' || c == '‘' || c == '’';
}
public Set<Entity> clearAndFindPositions(Set<Entity> entities, SearchableText text, Dictionary dictionary) {
Map<String, List<Entity>> entitiesByWord = new HashMap<>();
for (Entity entity : entities) {
entitiesByWord.computeIfAbsent(entity.getWord(), (x) -> new ArrayList<>()).add(entity);
}
for (String word : entitiesByWord.keySet()) {
List<Entity> orderedEntities = entitiesByWord.get(word)
.stream()
.sorted(Comparator.comparing(Entity::getStart))
.collect(Collectors.toList());
Entity firstEntity = orderedEntities.get(0);
List<EntityPositionSequence> positionSequences = text.getSequences(firstEntity.getWord().trim(), dictionary.isCaseInsensitiveDictionary(firstEntity
.getType()), firstEntity.getTargetSequences());
for (int i = 0; i <= orderedEntities.size() - 1; i++) {
try {
orderedEntities.get(i).setPositionSequences(List.of(positionSequences.get(i)));
} catch (Exception e) {
log.warn("Mismatch between EntityPositionSequence and found Entity!");
}
}
}
removeEntitiesContainedInLarger(entities);
return entities;
}
public void removeEntitiesContainedInLarger(Set<Entity> entities) {
List<Entity> wordsToRemove = new ArrayList<>();
for (Entity word : entities) {
for (Entity inner : entities) {
if (inner.getWord().length() < word.getWord()
.length() && inner.getStart() >= word.getStart() && inner.getEnd() <= word.getEnd() && word != inner && word
.getSectionNumber() == inner.getSectionNumber()) {
wordsToRemove.add(inner);
}
}
}
entities.removeAll(wordsToRemove);
}
}
@@ -1,12 +1,28 @@
package com.iqser.red.service.redaction.v1.server.redaction.utils;
import java.util.regex.Pattern;
import lombok.experimental.UtilityClass;
import java.util.HashMap;
import java.util.Map;
import java.util.regex.Pattern;
@UtilityClass
public class Patterns {
public static Map<String, Pattern> patternCache = new HashMap<>();
public static Pattern AUTHOR_TABLE_SPITTER = Pattern.compile("((((di)|(van)) )|[A-Z]’)?[A-ZÄÖÜ][\\wäöüéèê]{2,}( ?[A-ZÄÖÜ]{1,2}\\.)+|((((di)|(van)) )|[A-Z]’)?[A-ZÄÖÜ][\\wäöüéèê]{2,}( ?[A-ZÄÖÜ]{1,2} )+");
public Pattern getCompiledPattern(String pattern, boolean caseInsensitive) {
String patternKey = pattern + caseInsensitive;
if (patternCache.containsKey(patternKey)) {
return patternCache.get(patternKey);
}
Pattern compiledPattern = Pattern.compile(pattern, caseInsensitive ? Pattern.CASE_INSENSITIVE : 0);
patternCache.put(patternKey, compiledPattern);
return compiledPattern;
}
}
@@ -1,28 +1,5 @@
package com.iqser.red.service.redaction.v1.server.visualization.service;
import java.awt.Color;
import java.io.IOException;
import java.util.ArrayList;
import java.util.GregorianCalendar;
import java.util.HashSet;
import java.util.List;
import java.util.Set;
import java.util.stream.Collectors;
import org.apache.commons.collections4.CollectionUtils;
import org.apache.pdfbox.pdmodel.PDDocument;
import org.apache.pdfbox.pdmodel.PDPage;
import org.apache.pdfbox.pdmodel.PDPageContentStream;
import org.apache.pdfbox.pdmodel.common.PDRectangle;
import org.apache.pdfbox.pdmodel.font.PDType1Font;
import org.apache.pdfbox.pdmodel.graphics.color.PDColor;
import org.apache.pdfbox.pdmodel.graphics.color.PDDeviceRGB;
import org.apache.pdfbox.pdmodel.interactive.annotation.PDAnnotation;
import org.apache.pdfbox.pdmodel.interactive.annotation.PDAnnotationText;
import org.apache.pdfbox.pdmodel.interactive.annotation.PDAnnotationTextMarkup;
import org.apache.pdfbox.text.TextPosition;
import org.springframework.stereotype.Service;
import com.iqser.red.service.redaction.v1.model.CellRectangle;
import com.iqser.red.service.redaction.v1.model.Comment;
import com.iqser.red.service.redaction.v1.model.IdRemoval;
@@ -44,8 +21,29 @@ import com.iqser.red.service.redaction.v1.server.redaction.service.DictionarySer
import com.iqser.red.service.redaction.v1.server.tableextraction.model.AbstractTextContainer;
import com.iqser.red.service.redaction.v1.server.tableextraction.model.Cell;
import com.iqser.red.service.redaction.v1.server.tableextraction.model.Table;
import lombok.RequiredArgsConstructor;
import org.apache.commons.collections4.CollectionUtils;
import org.apache.pdfbox.pdmodel.PDDocument;
import org.apache.pdfbox.pdmodel.PDPage;
import org.apache.pdfbox.pdmodel.PDPageContentStream;
import org.apache.pdfbox.pdmodel.common.PDRectangle;
import org.apache.pdfbox.pdmodel.font.PDType1Font;
import org.apache.pdfbox.pdmodel.graphics.color.PDColor;
import org.apache.pdfbox.pdmodel.graphics.color.PDDeviceRGB;
import org.apache.pdfbox.pdmodel.interactive.annotation.PDAnnotation;
import org.apache.pdfbox.pdmodel.interactive.annotation.PDAnnotationText;
import org.apache.pdfbox.pdmodel.interactive.annotation.PDAnnotationTextMarkup;
import org.apache.pdfbox.text.TextPosition;
import org.springframework.stereotype.Service;
import java.awt.Color;
import java.io.IOException;
import java.util.ArrayList;
import java.util.GregorianCalendar;
import java.util.HashSet;
import java.util.List;
import java.util.Set;
import java.util.stream.Collectors;
@Service
@RequiredArgsConstructor
@@ -55,7 +53,7 @@ public class AnnotationHighlightService {
public void highlight(PDDocument document, Document classifiedDoc, boolean flatRedaction,
ManualRedactions manualRedactions) throws IOException {
ManualRedactions manualRedactions, String ruleSetId) throws IOException {
Set<Integer> manualRedactionPages = getManualRedactionPages(manualRedactions);
@@ -66,11 +64,11 @@ public class AnnotationHighlightService {
drawSectionFrames(document, classifiedDoc, flatRedaction, pdPage, page);
if (classifiedDoc.getEntities().get(page) != null) {
addAnnotations(pdPage, classifiedDoc, flatRedaction, manualRedactions, page);
addAnnotations(pdPage, classifiedDoc, flatRedaction, manualRedactions, page, ruleSetId);
}
if (manualRedactionPages.contains(page)) {
addManualAnnotations(pdPage, classifiedDoc, manualRedactions, page);
addManualAnnotations(pdPage, classifiedDoc, manualRedactions, page, ruleSetId);
}
}
}
@@ -94,7 +92,7 @@ public class AnnotationHighlightService {
private void addAnnotations(PDPage pdPage, Document classifiedDoc, boolean flatRedaction,
ManualRedactions manualRedactions, int page) throws IOException {
ManualRedactions manualRedactions, int page, String ruleSetId) throws IOException {
List<PDAnnotation> annotations = pdPage.getAnnotations();
@@ -104,7 +102,7 @@ public class AnnotationHighlightService {
entityLoop:
for (Entity entity : classifiedDoc.getEntities().get(page)) {
if (flatRedaction && !isRedactionType(entity)) {
if (flatRedaction && !isRedactionType(entity, ruleSetId)) {
continue;
}
@@ -113,7 +111,7 @@ public class AnnotationHighlightService {
for (EntityPositionSequence entityPositionSequence : entity.getPositionSequences()) {
RedactionLogEntry redactionLogEntry = createRedactionLogEntry(entity);
RedactionLogEntry redactionLogEntry = createRedactionLogEntry(entity, ruleSetId);
if (processedIds.contains(entityPositionSequence.getId())) {
// TODO refactor this outer loop jump as soon as we have the time.
@@ -127,7 +125,7 @@ public class AnnotationHighlightService {
if (manualRemoval.getId().equals(entityPositionSequence.getId())) {
comments = manualRedactions.getComments().get(manualRemoval.getId());
String manualOverrideReason = null;
if (manualRemoval.getStatus().equals(Status.APPROVED)) {
if (manualRemoval.getStatus().equals(Status.APPROVED) && manualRemoval.isRemoveFromDictionary()) {
entity.setRedaction(false);
redactionLogEntry.setRedacted(false);
redactionLogEntry.setStatus(Status.APPROVED);
@@ -161,7 +159,7 @@ public class AnnotationHighlightService {
redactionLogEntry.getPositions().addAll(rectanglesPerLine);
annotations.addAll(createAnnotation(rectanglesPerLine, entityPositionSequence.getId(), createAnnotationContent(entity), getColor(entity, requestedToRemove), comments, !isHint(entity)));
annotations.addAll(createAnnotation(rectanglesPerLine, entityPositionSequence.getId(), createAnnotationContent(entity), getColor(entity, ruleSetId, requestedToRemove), comments, !isHint(entity, ruleSetId)));
}
redactionLogEntry.setId(entityPositionSequence.getId());
@@ -203,7 +201,7 @@ public class AnnotationHighlightService {
private void addManualAnnotations(PDPage pdPage, Document classifiedDoc, ManualRedactions manualRedactions,
int page) throws IOException {
int page, String ruleSetId) throws IOException {
if (manualRedactions == null) {
return;
@@ -215,7 +213,7 @@ public class AnnotationHighlightService {
String id = manualRedactionEntry.getId();
RedactionLogEntry redactionLogEntry = createRedactionLogEntry(manualRedactionEntry, id);
RedactionLogEntry redactionLogEntry = createRedactionLogEntry(manualRedactionEntry, id, ruleSetId);
List<Rectangle> rectanglesOnPage = new ArrayList<>();
for (Rectangle rectangle : manualRedactionEntry.getPositions()) {
@@ -227,7 +225,7 @@ public class AnnotationHighlightService {
if (!rectanglesOnPage.isEmpty() && !approvedAndShouldBeInDictionary(manualRedactionEntry)) {
annotations.addAll(createAnnotation(rectanglesOnPage, id, createAnnotationContent(manualRedactionEntry), getColorForManualAdd(manualRedactionEntry
.getType(), manualRedactionEntry.getStatus()), manualRedactions.getComments().get(id), true));
.getType(), ruleSetId, manualRedactionEntry.getStatus()), manualRedactions.getComments().get(id), true));
classifiedDoc.getRedactionLogEntities().add(redactionLogEntry);
}
}
@@ -240,11 +238,11 @@ public class AnnotationHighlightService {
}
private RedactionLogEntry createRedactionLogEntry(ManualRedactionEntry manualRedactionEntry, String id) {
private RedactionLogEntry createRedactionLogEntry(ManualRedactionEntry manualRedactionEntry, String id, String ruleSetId) {
return RedactionLogEntry.builder()
.id(id)
.color(getColor(manualRedactionEntry.getType()))
.color(getColor(manualRedactionEntry.getType(), ruleSetId))
.reason(manualRedactionEntry.getReason())
.legalBasis(manualRedactionEntry.getLegalBasis())
.value(manualRedactionEntry.getValue())
@@ -261,17 +259,17 @@ public class AnnotationHighlightService {
}
private RedactionLogEntry createRedactionLogEntry(Entity entity) {
private RedactionLogEntry createRedactionLogEntry(Entity entity, String ruleSetId) {
return RedactionLogEntry.builder()
.color(getColor(entity, false))
.color(getColor(entity, ruleSetId, false))
.reason(entity.getRedactionReason())
.legalBasis(entity.getLegalBasis())
.value(entity.getWord())
.type(entity.getType())
.redacted(entity.isRedaction())
.isHint(isHint(entity))
.isRecommendation(isRecommendation(entity))
.isHint(isHint(entity, ruleSetId))
.isRecommendation(isRecommendation(entity, ruleSetId))
.section(entity.getHeadline())
.sectionNumber(entity.getSectionNumber())
.matchedRule(entity.getMatchedRule())
@@ -389,49 +387,49 @@ public class AnnotationHighlightService {
}
private boolean isRedactionType(Entity entity) {
private boolean isRedactionType(Entity entity, String ruleSetId) {
if (!entity.isRedaction()) {
return false;
}
return !isHint(entity);
return !isHint(entity, ruleSetId);
}
private float[] getColor(Entity entity, boolean requestedToRemove) {
private float[] getColor(Entity entity, String ruleSetId, boolean requestedToRemove) {
if (requestedToRemove) {
return dictionaryService.getRequestRemoveColor();
return dictionaryService.getRequestRemoveColor(ruleSetId);
}
if (!entity.isRedaction() && !isHint(entity)) {
return dictionaryService.getNotRedactedColor();
if (!entity.isRedaction() && !isHint(entity, ruleSetId)) {
return dictionaryService.getNotRedactedColor(ruleSetId);
}
return dictionaryService.getColor(entity.getType());
return dictionaryService.getColor(entity.getType(), ruleSetId);
}
private float[] getColorForManualAdd(String type, Status status) {
private float[] getColorForManualAdd(String type, String ruleSetId, Status status) {
if (status.equals(Status.REQUESTED)) {
return dictionaryService.getRequestAddColor();
return dictionaryService.getRequestAddColor(ruleSetId);
} else if (status.equals(Status.DECLINED)) {
return dictionaryService.getNotRedactedColor();
return dictionaryService.getNotRedactedColor(ruleSetId);
}
return getColor(type);
return getColor(type, ruleSetId);
}
private float[] getColor(String type) {
return dictionaryService.getColor(type);
private float[] getColor(String type, String ruleSetId) {
return dictionaryService.getColor(type, ruleSetId);
}
private boolean isHint(Entity entity) {
return dictionaryService.isHint(entity.getType());
private boolean isHint(Entity entity, String ruleSetId) {
return dictionaryService.isHint(entity.getType(), ruleSetId);
}
private boolean isRecommendation(Entity entity) {
return dictionaryService.isRecommendation(entity.getType());
private boolean isRecommendation(Entity entity, String ruleSetId) {
return dictionaryService.isRecommendation(entity.getType(), ruleSetId);
}
@@ -0,0 +1,4 @@
server:
port: 8083
configuration-service.url: "http://localhost:8081"
@@ -1,6 +1,8 @@
info:
description: Redaction Service Server V1
configuration-service.url: "http://configuration-service-v1:8080"
server:
port: 8080
@@ -1,45 +1,5 @@
package com.iqser.red.service.redaction.v1.server;
import static org.assertj.core.api.Assertions.assertThat;
import static org.mockito.Mockito.when;
import static org.springframework.boot.test.context.SpringBootTest.WebEnvironment.DEFINED_PORT;
import java.io.BufferedReader;
import java.io.ByteArrayInputStream;
import java.io.File;
import java.io.FileInputStream;
import java.io.FileOutputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.net.URL;
import java.nio.charset.StandardCharsets;
import java.time.OffsetDateTime;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.UUID;
import java.util.stream.Collectors;
import org.apache.commons.io.IOUtils;
import org.junit.Before;
import org.junit.Test;
import org.junit.runner.RunWith;
import org.kie.api.KieServices;
import org.kie.api.builder.KieBuilder;
import org.kie.api.builder.KieFileSystem;
import org.kie.api.builder.KieModule;
import org.kie.api.runtime.KieContainer;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.boot.test.context.SpringBootTest;
import org.springframework.boot.test.context.TestConfiguration;
import org.springframework.boot.test.mock.mockito.MockBean;
import org.springframework.context.annotation.Bean;
import org.springframework.core.io.ClassPathResource;
import org.springframework.test.context.junit4.SpringRunner;
import com.iqser.red.service.configuration.v1.api.model.Colors;
import com.iqser.red.service.configuration.v1.api.model.DictionaryResponse;
import com.iqser.red.service.configuration.v1.api.model.RulesResponse;
@@ -60,9 +20,48 @@ import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.controller.RedactionController;
import com.iqser.red.service.redaction.v1.server.redaction.utils.ResourceLoader;
import com.iqser.red.service.redaction.v1.server.redaction.utils.TextNormalizationUtilities;
import org.apache.commons.io.IOUtils;
import org.junit.Before;
import org.junit.Test;
import org.junit.runner.RunWith;
import org.kie.api.KieServices;
import org.kie.api.builder.KieBuilder;
import org.kie.api.builder.KieFileSystem;
import org.kie.api.builder.KieModule;
import org.kie.api.runtime.KieContainer;
import org.springframework.beans.factory.annotation.Autowired;
import org.springframework.boot.test.context.SpringBootTest;
import org.springframework.boot.test.context.TestConfiguration;
import org.springframework.boot.test.mock.mockito.MockBean;
import org.springframework.context.annotation.Bean;
import org.springframework.core.io.ClassPathResource;
import org.springframework.test.context.junit4.SpringRunner;
import java.io.BufferedReader;
import java.io.ByteArrayInputStream;
import java.io.File;
import java.io.FileInputStream;
import java.io.FileOutputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.net.URL;
import java.nio.charset.StandardCharsets;
import java.time.OffsetDateTime;
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import java.util.Map;
import java.util.Set;
import java.util.UUID;
import java.util.stream.Collectors;
import static org.assertj.core.api.Assertions.assertThat;
import static org.mockito.Mockito.when;
import static org.springframework.boot.test.context.SpringBootTest.WebEnvironment.RANDOM_PORT;
@RunWith(SpringRunner.class)
@SpringBootTest(webEnvironment = DEFINED_PORT)
@SpringBootTest(webEnvironment = RANDOM_PORT)
public class RedactionIntegrationTest {
private static final String RULES = loadFromClassPath("drools/rules.drl");
@@ -100,6 +99,8 @@ public class RedactionIntegrationTest {
private final Map<String, Boolean> recommendationTypeMap = new HashMap<>();
private final Colors colors = new Colors();
private final static String TEST_RULESET_ID = "123";
@TestConfiguration
public static class RedactionIntegrationTestConfiguration {
@@ -125,28 +126,28 @@ public class RedactionIntegrationTest {
@Before
public void stubClients() {
when(rulesClient.getVersion()).thenReturn(0L);
when(rulesClient.getRules()).thenReturn(new RulesResponse(RULES));
when(rulesClient.getVersion(TEST_RULESET_ID)).thenReturn(0L);
when(rulesClient.getRules(TEST_RULESET_ID)).thenReturn(new RulesResponse(RULES));
loadDictionaryForTest();
loadTypeForTest();
when(dictionaryClient.getVersion()).thenReturn(0L);
when(dictionaryClient.getAllTypes()).thenReturn(TypeResponse.builder().types(getTypeResponse()).build());
when(dictionaryClient.getDictionaryForType(VERTEBRATE)).thenReturn(getDictionaryResponse(VERTEBRATE));
when(dictionaryClient.getDictionaryForType(ADDRESS)).thenReturn(getDictionaryResponse(ADDRESS));
when(dictionaryClient.getDictionaryForType(AUTHOR)).thenReturn(getDictionaryResponse(AUTHOR));
when(dictionaryClient.getDictionaryForType(SPONSOR)).thenReturn(getDictionaryResponse(SPONSOR));
when(dictionaryClient.getDictionaryForType(NO_REDACTION_INDICATOR)).thenReturn(getDictionaryResponse(NO_REDACTION_INDICATOR));
when(dictionaryClient.getDictionaryForType(REDACTION_INDICATOR)).thenReturn(getDictionaryResponse(REDACTION_INDICATOR));
when(dictionaryClient.getDictionaryForType(HINT_ONLY)).thenReturn(getDictionaryResponse(HINT_ONLY));
when(dictionaryClient.getDictionaryForType(MUST_REDACT)).thenReturn(getDictionaryResponse(MUST_REDACT));
when(dictionaryClient.getDictionaryForType(PUBLISHED_INFORMATION)).thenReturn(getDictionaryResponse(PUBLISHED_INFORMATION));
when(dictionaryClient.getDictionaryForType(TEST_METHOD)).thenReturn(getDictionaryResponse(TEST_METHOD));
when(dictionaryClient.getDictionaryForType(PII)).thenReturn(getDictionaryResponse(PII));
when(dictionaryClient.getDictionaryForType(RECOMMENDATION_AUTHOR)).thenReturn(getDictionaryResponse(RECOMMENDATION_AUTHOR));
when(dictionaryClient.getDictionaryForType(RECOMMENDATION_ADDRESS)).thenReturn(getDictionaryResponse(RECOMMENDATION_ADDRESS));
when(dictionaryClient.getDictionaryForType(FALSE_POSITIVE)).thenReturn(getDictionaryResponse(FALSE_POSITIVE));
when(dictionaryClient.getColors()).thenReturn(colors);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(0L);
when(dictionaryClient.getAllTypes(TEST_RULESET_ID)).thenReturn(TypeResponse.builder().types(getTypeResponse()).build());
when(dictionaryClient.getDictionaryForType(VERTEBRATE, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(VERTEBRATE));
when(dictionaryClient.getDictionaryForType(ADDRESS, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(ADDRESS));
when(dictionaryClient.getDictionaryForType(AUTHOR, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(AUTHOR));
when(dictionaryClient.getDictionaryForType(SPONSOR, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(SPONSOR));
when(dictionaryClient.getDictionaryForType(NO_REDACTION_INDICATOR, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(NO_REDACTION_INDICATOR));
when(dictionaryClient.getDictionaryForType(REDACTION_INDICATOR, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(REDACTION_INDICATOR));
when(dictionaryClient.getDictionaryForType(HINT_ONLY, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(HINT_ONLY));
when(dictionaryClient.getDictionaryForType(MUST_REDACT, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(MUST_REDACT));
when(dictionaryClient.getDictionaryForType(PUBLISHED_INFORMATION, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(PUBLISHED_INFORMATION));
when(dictionaryClient.getDictionaryForType(TEST_METHOD, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(TEST_METHOD));
when(dictionaryClient.getDictionaryForType(PII, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(PII));
when(dictionaryClient.getDictionaryForType(RECOMMENDATION_AUTHOR, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(RECOMMENDATION_AUTHOR));
when(dictionaryClient.getDictionaryForType(RECOMMENDATION_ADDRESS, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(RECOMMENDATION_ADDRESS));
when(dictionaryClient.getDictionaryForType(FALSE_POSITIVE, TEST_RULESET_ID)).thenReturn(getDictionaryResponse(FALSE_POSITIVE));
when(dictionaryClient.getColors(TEST_RULESET_ID)).thenReturn(colors);
}
@@ -306,6 +307,7 @@ public class RedactionIntegrationTest {
.stream()
.map(typeColor -> TypeResult.builder()
.type(typeColor.getKey())
.ruleSetId(TEST_RULESET_ID)
.hexColor(typeColor.getValue())
.isHint(hintTypeMap.get(typeColor.getKey()))
.isCaseInsensitive(caseInSensitiveMap.get(typeColor.getKey()))
@@ -342,6 +344,7 @@ public class RedactionIntegrationTest {
}
for (File path : input) {
RedactionRequest request = RedactionRequest.builder()
.ruleSetId(TEST_RULESET_ID)
.document(IOUtils.toByteArray(new FileInputStream(path)))
.build();
System.out.println("Redacting file : " + path.getName());
@@ -387,9 +390,10 @@ public class RedactionIntegrationTest {
System.out.println("redactionTest");
long start = System.currentTimeMillis();
ClassPathResource pdfFileResource = new ClassPathResource("files/Metolachlor/S-Metolachlor_RAR_01_Volume_1_2018-09-06.pdf");
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Applicant Producer Table.pdf");
RedactionRequest request = RedactionRequest.builder()
.ruleSetId(TEST_RULESET_ID)
.document(IOUtils.toByteArray(pdfFileResource.getInputStream()))
.build();
request.setFlatRedaction(false);
@@ -420,6 +424,7 @@ public class RedactionIntegrationTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Metolachlor/S-Metolachlor_RAR_02_Volume_2_2018-09-06.pdf");
RedactionRequest request = RedactionRequest.builder()
.ruleSetId(TEST_RULESET_ID)
.document(IOUtils.toByteArray(pdfFileResource.getInputStream()))
.build();
@@ -471,6 +476,7 @@ public class RedactionIntegrationTest {
manualRedactions.getEntriesToAdd().add(manualRedactionEntry);
RedactionRequest request = RedactionRequest.builder()
.ruleSetId(TEST_RULESET_ID)
.document(IOUtils.toByteArray(pdfFileResource.getInputStream()))
.manualRedactions(manualRedactions)
.build();
@@ -565,6 +571,7 @@ public class RedactionIntegrationTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Phantom Cells.pdf");
RedactionRequest request = RedactionRequest.builder()
.ruleSetId(TEST_RULESET_ID)
.document(IOUtils.toByteArray(pdfFileResource.getInputStream()))
.build();
request.setFlatRedaction(false);
@@ -586,9 +593,10 @@ public class RedactionIntegrationTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/sponsor_companies.pdf");
RedactionRequest request = RedactionRequest.builder()
.ruleSetId(TEST_RULESET_ID)
.flatRedaction(false)
.document(IOUtils.toByteArray(pdfFileResource.getInputStream()))
.build();
request.setFlatRedaction(false);
RedactionResult result = redactionController.redact(request);
@@ -1,25 +1,18 @@
package com.iqser.red.service.redaction.v1.server.redaction.service;
import static org.assertj.core.api.Assertions.assertThat;
import static org.mockito.Mockito.when;
import java.io.BufferedReader;
import java.io.ByteArrayInputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.net.URL;
import java.nio.charset.StandardCharsets;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.HashSet;
import java.util.List;
import java.util.Set;
import java.util.concurrent.atomic.AtomicLong;
import java.util.regex.Matcher;
import java.util.regex.Pattern;
import com.iqser.red.service.configuration.v1.api.model.Colors;
import com.iqser.red.service.configuration.v1.api.model.DictionaryResponse;
import com.iqser.red.service.configuration.v1.api.model.RulesResponse;
import com.iqser.red.service.configuration.v1.api.model.TypeResponse;
import com.iqser.red.service.configuration.v1.api.model.TypeResult;
import com.iqser.red.service.redaction.v1.model.RedactionRequest;
import com.iqser.red.service.redaction.v1.server.classification.model.Document;
import com.iqser.red.service.redaction.v1.server.client.DictionaryClient;
import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.redaction.model.Entity;
import com.iqser.red.service.redaction.v1.server.redaction.utils.EntitySearchUtils;
import com.iqser.red.service.redaction.v1.server.redaction.utils.ResourceLoader;
import com.iqser.red.service.redaction.v1.server.segmentation.PdfSegmentationService;
import org.apache.commons.io.IOUtils;
import org.apache.pdfbox.pdmodel.PDDocument;
import org.junit.Before;
@@ -38,18 +31,25 @@ import org.springframework.context.annotation.Bean;
import org.springframework.core.io.ClassPathResource;
import org.springframework.test.context.junit4.SpringRunner;
import com.iqser.red.service.configuration.v1.api.model.Colors;
import com.iqser.red.service.configuration.v1.api.model.DictionaryResponse;
import com.iqser.red.service.configuration.v1.api.model.RulesResponse;
import com.iqser.red.service.configuration.v1.api.model.TypeResponse;
import com.iqser.red.service.configuration.v1.api.model.TypeResult;
import com.iqser.red.service.redaction.v1.model.RedactionRequest;
import com.iqser.red.service.redaction.v1.server.classification.model.Document;
import com.iqser.red.service.redaction.v1.server.client.DictionaryClient;
import com.iqser.red.service.redaction.v1.server.client.RulesClient;
import com.iqser.red.service.redaction.v1.server.redaction.model.Entity;
import com.iqser.red.service.redaction.v1.server.redaction.utils.ResourceLoader;
import com.iqser.red.service.redaction.v1.server.segmentation.PdfSegmentationService;
import java.io.BufferedReader;
import java.io.ByteArrayInputStream;
import java.io.IOException;
import java.io.InputStream;
import java.io.InputStreamReader;
import java.net.URL;
import java.nio.charset.StandardCharsets;
import java.util.ArrayList;
import java.util.Arrays;
import java.util.Collections;
import java.util.HashSet;
import java.util.List;
import java.util.Set;
import java.util.concurrent.atomic.AtomicLong;
import java.util.regex.Matcher;
import java.util.regex.Pattern;
import static org.assertj.core.api.Assertions.assertThat;
import static org.mockito.Mockito.when;
@SpringBootTest
@RunWith(SpringRunner.class)
@@ -78,6 +78,8 @@ public class EntityRedactionServiceTest {
@Autowired
private DroolsExecutionService droolsExecutionService;
private final static String TEST_RULESET_ID = "123";
@TestConfiguration
public static class RedactionIntegrationTestConfiguration {
@@ -108,7 +110,7 @@ public class EntityRedactionServiceTest {
Entity nesting = new Entity("nesting nested", "fake type", 2, 16, "fake headline", 0, false);
entities.add(nested);
entities.add(nesting);
entityRedactionService.removeEntitiesContainedInLarger(entities);
EntitySearchUtils.removeEntitiesContainedInLarger(entities);
assertThat(entities.size()).isEqualTo(1);
assertThat(entities).contains(nesting);
@@ -128,21 +130,21 @@ public class EntityRedactionServiceTest {
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.entries(Arrays.asList("Casey, H.W.", "O’Loughlin, C.K.", "Salamon, C.M.", "Smith, S.H."))
.build();
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(Collections.singletonList("Toxigenics, Inc., Decatur, IL 62526, USA"))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(new ByteArrayInputStream(redactionRequest.getDocument()))) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1)).hasSize(7);// 3 author cells, 1 address, 1 Y and 2 N entities
}
@@ -161,20 +163,20 @@ public class EntityRedactionServiceTest {
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.entries(Arrays.asList("Casey, H.W.", "O’Loughlin, C.K.", "Salamon, C.M.", "Smith, S.H."))
.build();
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(Collections.singletonList("Toxigenics, Inc., Decatur, IL 62526, USA"))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(new ByteArrayInputStream(redactionRequest.getDocument()))) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1)).hasSize(7);// 3 author cells, 1 address, 1 Y and 2 N entities
}
@@ -186,22 +188,22 @@ public class EntityRedactionServiceTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Cyprodinil/40 Cyprodinil - EU AIR3 - LCA Section 1" +
" Supplement - Identity of the active substance - Reference list.pdf");
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_author.txt")))
.build();
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_address.txt")))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()
.entrySet()
.stream()
@@ -211,7 +213,7 @@ public class EntityRedactionServiceTest {
"the plant protection product.pdf");
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()
.entrySet()
.stream()
@@ -223,22 +225,22 @@ public class EntityRedactionServiceTest {
public void testFalsePositiveInWrongCell() throws IOException {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Row With Ambiguous Redaction.pdf");
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_author.txt")))
.build();
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_address.txt")))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_sponsor.txt")))
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1).stream()
.filter(entity -> entity.getMatchedRule() == 9)
@@ -287,31 +289,31 @@ public class EntityRedactionServiceTest {
"\"Reg (EC) No 1107/2009 Art. 63 (2g)\");\n" +
" section.redactBetween(\"Contact:\", \"Tel.:\", \"address\", 6,true, \"Applicant information was found\", \"Reg (EC) No 1107/2009 Art. 63 (2g)\");\n" +
" end";
when(rulesClient.getVersion()).thenReturn(RULES_VERSION.incrementAndGet());
when(rulesClient.getRules()).thenReturn(new RulesResponse(tableRules));
droolsExecutionService.updateRules();
when(rulesClient.getVersion(TEST_RULESET_ID)).thenReturn(RULES_VERSION.incrementAndGet());
when(rulesClient.getRules(TEST_RULESET_ID)).thenReturn(new RulesResponse(tableRules));
droolsExecutionService.updateRules(TEST_RULESET_ID);
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Applicant Producer Table.pdf");
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_author.txt")))
.build();
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_address.txt")))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1).stream()
.filter(entity -> entity.getMatchedRule() == 6)
.count()).isEqualTo(18);
.count()).isEqualTo(13);
}
}
@@ -328,27 +330,27 @@ public class EntityRedactionServiceTest {
"Section(searchText.toLowerCase().contains(\"batches produced at\"))\n" + " then\n" + " section" +
".redactIfPrecededBy(\"batches produced at\", \"sponsor\", 11, \"Redacted because it represents a " +
"sponsor company\", \"Reg (EC) No 1107/2009 Art. 63 (2g)\");\n" + " end";
when(rulesClient.getVersion()).thenReturn(RULES_VERSION.incrementAndGet());
when(rulesClient.getRules()).thenReturn(new RulesResponse(tableRules));
droolsExecutionService.updateRules();
when(rulesClient.getVersion(TEST_RULESET_ID)).thenReturn(RULES_VERSION.incrementAndGet());
when(rulesClient.getRules(TEST_RULESET_ID)).thenReturn(new RulesResponse(tableRules));
droolsExecutionService.updateRules(TEST_RULESET_ID);
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/batches_new_line.pdf");
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse authorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(authorResponse);
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(authorResponse);
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.entries(new ArrayList<>(ResourceLoader.load("dictionaries/CBI_sponsor.txt")))
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1).stream()
.filter(entity -> entity.getMatchedRule() == 11)
@@ -367,20 +369,20 @@ public class EntityRedactionServiceTest {
.entries(Arrays.asList("Bissig R.", "Thanei P."))
.build();
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(Collections.singletonList("Novartis Crop Protection AG, Basel, Switzerland"))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(2); // two pages
assertThat(classifiedDoc.getEntities().get(1).stream().filter(entity -> entity.getMatchedRule() == 9).count()).isEqualTo(8);
assertThat(classifiedDoc.getEntities().get(2).stream().filter(entity -> entity.getMatchedRule() == 9).count()).isEqualTo(5); // 2 names, 1 address, 2 Y
@@ -392,16 +394,16 @@ public class EntityRedactionServiceTest {
.entries(Arrays.asList("Tribolet, R.", "Muir, G.", "Kühne-Thu, H.", "Close, C."))
.build();
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
addressResponse = DictionaryResponse.builder()
.entries(Collections.singletonList("Novartis Crop Protection AG, Basel, Switzerland"))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1).stream().filter(entity -> entity.getMatchedRule() == 9).count()).isEqualTo(3);
assertThat(classifiedDoc.getEntities().get(1).stream().filter(entity -> entity.getMatchedRule() == 8).count()).isEqualTo(9);
@@ -418,20 +420,20 @@ public class EntityRedactionServiceTest {
.entries(Collections.singletonList("Aldershof S."))
.build();
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.entries(Collections.singletonList("Novartis Crop Protection AG, Basel, Switzerland"))
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.entries(Collections.emptyList())
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
try (PDDocument pdDocument = PDDocument.load(pdfFileResource.getInputStream())) {
Document classifiedDoc = pdfSegmentationService.parseDocument(pdDocument);
entityRedactionService.processDocument(classifiedDoc, null);
entityRedactionService.processDocument(classifiedDoc, TEST_RULESET_ID, null);
assertThat(classifiedDoc.getEntities()).hasSize(1); // one page
assertThat(classifiedDoc.getEntities().get(1).stream().filter(entity -> entity.getMatchedRule() == 8).count()).isEqualTo(6);
}
@@ -463,27 +465,27 @@ public class EntityRedactionServiceTest {
" 1107/2009 Art. 63 (2g)\");\n" +
" section.highlightCell(\"Vertebrate study Y/N\", 9, \"must_redact\");\n" +
" end";
when(rulesClient.getVersion()).thenReturn(RULES_VERSION.incrementAndGet());
when(rulesClient.getRules()).thenReturn(new RulesResponse(tableRules));
when(rulesClient.getVersion(TEST_RULESET_ID)).thenReturn(RULES_VERSION.incrementAndGet());
when(rulesClient.getRules(TEST_RULESET_ID)).thenReturn(new RulesResponse(tableRules));
TypeResponse typeResponse = TypeResponse.builder()
.types(Arrays.asList(
TypeResult.builder().type(AUTHOR_CODE).hexColor("#ffff00").build(),
TypeResult.builder().type(ADDRESS_CODE).hexColor("#ff00ff").build(),
TypeResult.builder().type(SPONSOR_CODE).hexColor("#00ffff").build()))
TypeResult.builder().ruleSetId(TEST_RULESET_ID).type(AUTHOR_CODE).hexColor("#ffff00").build(),
TypeResult.builder().ruleSetId(TEST_RULESET_ID).type(ADDRESS_CODE).hexColor("#ff00ff").build(),
TypeResult.builder().ruleSetId(TEST_RULESET_ID).type(SPONSOR_CODE).hexColor("#00ffff").build()))
.build();
when(dictionaryClient.getVersion()).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getAllTypes()).thenReturn(typeResponse);
when(dictionaryClient.getVersion(TEST_RULESET_ID)).thenReturn(DICTIONARY_VERSION.incrementAndGet());
when(dictionaryClient.getAllTypes(TEST_RULESET_ID)).thenReturn(typeResponse);
// Default empty return to prevent NPEs
DictionaryResponse dictionaryResponse = DictionaryResponse.builder()
.build();
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE)).thenReturn(dictionaryResponse);
when(dictionaryClient.getDictionaryForType(AUTHOR_CODE, TEST_RULESET_ID)).thenReturn(dictionaryResponse);
DictionaryResponse addressResponse = DictionaryResponse.builder()
.build();
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE)).thenReturn(addressResponse);
when(dictionaryClient.getDictionaryForType(ADDRESS_CODE, TEST_RULESET_ID)).thenReturn(addressResponse);
DictionaryResponse sponsorResponse = DictionaryResponse.builder()
.build();
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE)).thenReturn(sponsorResponse);
when(dictionaryClient.getDictionaryForType(SPONSOR_CODE, TEST_RULESET_ID)).thenReturn(sponsorResponse);
Colors colors = new Colors();
colors.setDefaultColor("#acfc00");
@@ -491,7 +493,7 @@ public class EntityRedactionServiceTest {
colors.setRequestAdd("#04b093");
colors.setRequestRemove("#04b093");
when(dictionaryClient.getColors()).thenReturn(colors);
when(dictionaryClient.getColors(TEST_RULESET_ID)).thenReturn(colors);
}
@@ -513,28 +515,4 @@ public class EntityRedactionServiceTest {
}
}
@Test
public void testAuthorSplitting(){
String word = "Porch JR, " + "Kendall TZ, " + "Krueger HO";
word.replaceAll(",", " ").replaceAll(" ", " ");
Pattern pattern = Pattern.compile("[A-ZÄÖÜ][\\wäöüéèê]{2,}( [A-ZÄÖÜ]{1,2}\\.)+");
Matcher matcher = pattern.matcher(word);
List<String> allMatches = new ArrayList<>();
while (matcher.find()) {
allMatches.add(matcher.group());
}
for(String name: allMatches) {
if(name.length() >= 3) {
System.out.println(name);
// dictionaryService.addToLocalDictionary(type, name);
}
}
}
}
@@ -0,0 +1,95 @@
package com.iqser.red.service.redaction.v1.server.redaction.utils;
import org.junit.Test;
import java.util.ArrayList;
import java.util.List;
import java.util.regex.Matcher;
import java.util.regex.Pattern;
public class RegExPatternTest {
@Test
public void testEmailRegEx(){
String text = "Address: Schwarzwaldalle " +
"P.O.Box\n" +
"CH-4002 Basel\n" +
"Switzerland\n" +
"Contact: Christian Warmers\n" +
"Tel: +41 (61) 323 8044\n" +
"christian.warmers@syngenta.com";
Pattern p = Pattern.compile("\\b[A-Z0-9._%+-]+@[A-Z0-9.-]+\\.[A-Z]{2,4}\\b", Pattern.CASE_INSENSITIVE);
Matcher matcher = p.matcher(text);
while (matcher.find()) {
String match = matcher.group(0);
System.out.println(match);
}
}
@Test
public void testEtAlRegEx() {
String text = "To assess the potential of S-metolachlor to cause endocrine disruption (ED) a review (Charlton 2014,\n" +
"ASB2016-762) was submitted that summarises results from regulatory and open scientific literature\n" +
"studies covering in vitro and in vivo studies (level 2-5 of the OECD Conceptual Framework). According to this information metolachlor increased (1.5-fold) aromatase activity in JEG-3 cells (Laville et al.\n" +
"2006, ASB2010-14391) and induced weak anti-androgenic activity in the MDA-kb2 reporter cell line\n" +
"with a IC50 of 9.92 µM (IC50 of positive control flutamide: 0.51 µM) (Aït-Aïssa et al. 2010, ASB2015-\n" +
"9562). Data from the Tox21 high throughput screening revealed just few postive findings in assays to\n" +
"identify antagonists of the androgen receptor. An isolated result of this screening showed agonistic\n" +
"activity on the thyroid stimulating hormone receptor, while Dalton et al. (2003, ASB2018-2832)\n" +
"demonstrated that metolachlor induced CYP2B1/2 and CYP3A1/2 but did not affect T4, T3 or TSH.\n" +
"After prepubertal exposure of male Wistar rats to metolachlor (Mathias et al. 2012, ASB2016-9890) a\n" +
"statistically significant increase of serum hormone concentration was observed for testosterone (at the\n" +
"dose 50 mg/kg) as well as a statistically significant decrease in the age of preputial separation at a dose\n" +
"of 5 and 50 mg/kg. Furthermore a statistically significant increase for estradiol at a dose of 50 mg/kg\n" +
"and for FSH at a dose of 5 and 50 mg/kg and morphological alterations of the seminiferous epithelium\n" +
"were observed. Relative testicular weight was not altered. A statistically significant increase of relative\n" +
"weights was observed in long-term studies with rats (Tisdel et al. 1983, TOX9800328 ). This finding\n" +
"was attributed to lower terminal body weight. In mice a statistically significant decrease of the weight\n" +
"seminal vesicle (Tisdel et al. 1982, TOX9800327) was shown after 24 month treatment with\n" +
"metolachlor. In a mouse preimplantation embryo assay from open literature metolachlor increased the\n" +
"percentage of apoptosis significantly and reduced the mean number of cells per embryo significantly\n" +
"while the percentage of developing blastocytes was unaltered (Grennlee et al. 2004, ASB2016-9889).\n" +
"In reproduvtive toxicity studies a retarded body weight development of the pups was observed, while\n" +
"survival and normal morphological and functional development were not altered. No adverse effects\n" +
"on male fertility were seen, however important parameters to assess effects on female fertility like\n" +
"cyclicity, ovarian follicles as well as developmental landmarks in the offspring have not been investigated.";
Pattern p = Pattern.compile("([^\\s(]*?( \\w\\.?)?) et al\\.?");
Matcher matcher = p.matcher(text);
while (matcher.find()) {
String match = matcher.group(1);
System.out.println(match);
}
}
@Test
public void testAuthorSplitting(){
String word = "Porch JR, " + "Kendall TZ, " + "Krueger HO";
word.replaceAll(",", " ").replaceAll(" ", " ");
Pattern pattern = Pattern.compile("[A-ZÄÖÜ][\\wäöüéèê]{2,}( [A-ZÄÖÜ]{1,2}\\.)+");
Matcher matcher = pattern.matcher(word);
List<String> allMatches = new ArrayList<>();
while (matcher.find()) {
allMatches.add(matcher.group());
}
for(String name: allMatches) {
if(name.length() >= 3) {
System.out.println(name);
}
}
}
}
@@ -1,9 +1,9 @@
configuration-service.url: "http://configuration-service-v1:8080"
ribbon:
ConnectTimeout: 600000
ReadTimeout: 600000
spring:
main:
allow-bean-definition-overriding: true
@@ -8,48 +8,48 @@ global Section section
// --------------------------------------- CBI rules -------------------------------------------------------------------
rule "1: Redacted because Section contains Vertebrate"
when
Section(matchesType("vertebrate"))
then
section.redact("CBI_author", 1, "Vertebrate found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 1, "Vertebrate found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
end
when
Section(matchesType("vertebrate"))
then
section.redact("CBI_author", 1, "Vertebrate found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 1, "Vertebrate found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
end
rule "2: Not Redacted because Section contains no Vertebrate"
when
Section(!matchesType("vertebrate"))
then
section.redactNot("CBI_author", 2, "No Vertebrate found");
section.redactNot("CBI_address", 2, "No Vertebrate found");
end
when
Section(!matchesType("vertebrate"))
then
section.redactNot("CBI_author", 2, "No Vertebrate found");
section.redactNot("CBI_address", 2, "No Vertebrate found");
end
rule "3: Do not redact Names and Addresses if no redaction Indicator is contained"
when
Section(matchesType("vertebrate"), matchesType("no_redaction_indicator"))
then
section.redactNot("CBI_author", 3, "Vertebrate and No Redaction Indicator found");
section.redactNot("CBI_address", 3, "Vertebrate and No Redaction Indicator found");
end
when
Section(matchesType("vertebrate"), matchesType("no_redaction_indicator"))
then
section.redactNot("CBI_author", 3, "Vertebrate and No Redaction Indicator found");
section.redactNot("CBI_address", 3, "Vertebrate and No Redaction Indicator found");
end
rule "4: Do not redact Names and Addresses if no redaction Indicator is contained"
when
Section(matchesType("vertebrate"), matchesType("published_information"))
then
section.redactNot("CBI_author", 4, "Vertebrate and Published Information found");
section.redactNot("CBI_address", 4, "Vertebrate and Published Information found");
end
when
Section(matchesType("vertebrate"), matchesType("published_information"))
then
section.redactNot("CBI_author", 4, "Vertebrate and Published Information found");
section.redactNot("CBI_address", 4, "Vertebrate and Published Information found");
end
rule "5: Redact Names and Addresses if no_redaction_indicator and redaction_indicator is contained"
when
Section(matchesType("vertebrate"), matchesType("no_redaction_indicator"), matchesType("redaction_indicator"))
then
section.redact("CBI_author", 5, "Vertebrate and Redaction Indicator found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 5, "Vertebrate and Redaction Indicator found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
end
when
Section(matchesType("vertebrate"), matchesType("no_redaction_indicator"), matchesType("redaction_indicator"))
then
section.redact("CBI_author", 5, "Vertebrate and Redaction Indicator found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 5, "Vertebrate and Redaction Indicator found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
end
rule "6: Not redacted because Vertebrate Study = N"
@@ -64,12 +64,12 @@ rule "6: Not redacted because Vertebrate Study = N"
rule "7: Redact if must redact entry is found"
when
Section(matchesType("must_redact"))
then
section.redact("CBI_author", 7, "must_redact entry was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 7, "must_redact entry was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
end
when
Section(matchesType("must_redact"))
then
section.redact("CBI_author", 7, "must_redact entry was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 7, "must_redact entry was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
end
rule "8: Redact Authors and Addresses in Reference Table if it is a Vertebrate study"
@@ -92,55 +92,75 @@ rule "9: Redact sponsor company"
rule "10: Redact determination of residues"
when
Section(searchText.toLowerCase.contains("determination of residues") && (
searchText.toLowerCase.contains("livestock") ||
searchText.toLowerCase.contains("live stock") ||
searchText.toLowerCase.contains("tissue") ||
searchText.toLowerCase.contains("liver") ||
searchText.toLowerCase.contains("muscle") ||
searchText.toLowerCase.contains("bovine") ||
searchText.toLowerCase.contains("ruminant") ||
searchText.toLowerCase.contains("ruminants")
))
then
section.redact("CBI_author", 10, "Determination of residues was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 10, "Determination of residues was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.addHintAnnotation("determination of residues", "must_redact");
section.addHintAnnotation("livestock", "must_redact");
section.addHintAnnotation("live stock", "must_redact");
section.addHintAnnotation("tissue", "must_redact");
section.addHintAnnotation("liver", "must_redact");
section.addHintAnnotation("muscle", "must_redact");
section.addHintAnnotation("bovine", "must_redact");
section.addHintAnnotation("ruminant", "must_redact");
section.addHintAnnotation("ruminants", "must_redact");
end
when
Section((
searchText.toLowerCase.contains("determination of residues") ||
searchText.toLowerCase.contains("determination of total residues")
) && (
searchText.toLowerCase.contains("livestock") ||
searchText.toLowerCase.contains("live stock") ||
searchText.toLowerCase.contains("tissue") ||
searchText.toLowerCase.contains("tissues") ||
searchText.toLowerCase.contains("liver") ||
searchText.toLowerCase.contains("muscle") ||
searchText.toLowerCase.contains("bovine") ||
searchText.toLowerCase.contains("ruminant") ||
searchText.toLowerCase.contains("ruminants")
))
then
section.redact("CBI_author", 10, "Determination of residues was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 10, "Determination of residues was found.", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.addHintAnnotation("determination of residues", "must_redact");
section.addHintAnnotation("livestock", "must_redact");
section.addHintAnnotation("live stock", "must_redact");
section.addHintAnnotation("tissue", "must_redact");
section.addHintAnnotation("tissues", "must_redact");
section.addHintAnnotation("liver", "must_redact");
section.addHintAnnotation("muscle", "must_redact");
section.addHintAnnotation("bovine", "must_redact");
section.addHintAnnotation("ruminant", "must_redact");
section.addHintAnnotation("ruminants", "must_redact");
end
rule "11: Redact if CTL/* or BL/* was found"
when
Section(searchText.contains("CTL/") || searchText.contains("BL/"))
then
section.redact("CBI_author", 11, "Laboraty for vertebrate studies found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 11, "Laboraty for vertebrate studies found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.addHintAnnotation("CTL", "must_redact");
section.addHintAnnotation("BL", "must_redact");
section.redact("CBI_author", 11, "Laboraty for vertebrate studies found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.redact("CBI_address", 11, "Laboraty for vertebrate studies found", "Reg (EC) No 1107/2009 Art. 63 (2g)");
section.addHintAnnotation("CTL", "must_redact");
section.addHintAnnotation("BL", "must_redact");
end
rule "12: Add recommendation for et al. author"
when
Section(searchText.contains("et al."))
then
section.addRecommendationByRegEx("\\b([A-ZÄÖÜ][^\\s\\.,]+( [A-ZÄÖÜ]\\.?)?( [A-ZÄÖÜ]\\.?)?) et al\\.?", false, 1, "CBI_author");
end
// --------------------------------------- PII rules -------------------------------------------------------------------
rule "12: Redacted PII Personal Identification Information"
when
Section(matchesType("PII"))
then
section.redact("PII", 12, "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "13: Redacted PII Personal Identification Information"
when
Section(matchesType("PII"))
then
section.redact("PII", 13, "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "13: Redact contact information"
rule "14: Redact Emails by RegEx"
when
Section(searchText.contains("@"))
then
section.redactByRegEx("\\b[A-Z0-9._%+-]+@[A-Z0-9.-]+\\.[A-Z]{2,4}\\b", true, 0, "PII", 14, "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "15: Redact contact information"
when
Section(text.contains("Contact point:")
|| text.contains("Phone:")
@@ -158,96 +178,96 @@ rule "13: Redact contact information"
|| text.contains("Telephone:")
|| text.contains("European contact:"))
then
section.redactLineAfter("Contact point:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Phone:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel.:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Email:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("e-mail:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail address:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Alternative contact:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone number:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone No:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax number:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("No:", "Fax", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("Contact:", "Tel.:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("European contact:", "PII", 13, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact point:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Phone:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel.:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Email:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("e-mail:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail address:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Alternative contact:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone number:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone No:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax number:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("No:", "Fax", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("Contact:", "Tel.:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("European contact:", "PII", 15, true, "Contact information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "14: Redact contact information if applicant is found"
when
Section(headlineContainsWord("applicant") || text.contains("Applicant") || headlineContainsWord("Primary contact") || headlineContainsWord("Alternative contact") || text.contains("Contact:") || text.contains("Telephone number:"))
then
section.redactLineAfter("Contact point:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Phone:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel.:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Email:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("e-mail:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail address:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Alternative contact:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone number:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone No:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax number:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("No:", "Fax", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("Contact:", "Tel.:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("European contact:", "PII", 14, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "16: Redact contact information if applicant is found"
when
Section(headlineContainsWord("applicant") || text.contains("Applicant") || headlineContainsWord("Primary contact") || headlineContainsWord("Alternative contact") || text.contains("Telephone number:"))
then
section.redactLineAfter("Contact point:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Phone:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel.:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Email:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("e-mail:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail address:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Alternative contact:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone number:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone No:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax number:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("No:", "Fax", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("Contact:", "Tel.:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("European contact:", "PII", 16, true, "Applicant information was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "15: Redact contact information if Producer is found"
when
Section(text.toLowerCase().contains("producer of the plant protection") || text.toLowerCase().contains("producer of the active substance") || text.contains("Manufacturer of the active substance") || text.contains("Manufacturer:") || text.contains("Producer or producers of the active substance"))
then
section.redactLineAfter("Contact:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Phone:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax number:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone number:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel:", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("No:", "Fax", "PII", 15, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "17: Redact contact information if Producer is found"
when
Section(text.toLowerCase().contains("producer of the plant protection") || text.toLowerCase().contains("producer of the active substance") || text.contains("Manufacturer of the active substance") || text.contains("Manufacturer:") || text.contains("Producer or producers of the active substance"))
then
section.redactLineAfter("Contact:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Phone:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("E-mail:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Contact:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Fax number:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Telephone number:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLineAfter("Tel:", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("No:", "Fax", "PII", 17, true, "Producer was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "16: Redact AUTHOR(S)"
rule "18: Redact AUTHOR(S)"
when
Section(searchText.contains("AUTHOR(S):"))
then
section.redactLinesBetween("AUTHOR(S):", "COMPLETION DATE:", "PII", 16, true, "AUTHOR(S) was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactLinesBetween("AUTHOR(S):", "COMPLETION DATE:", "PII", 18, true, "AUTHOR(S) was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "17: Redact PERFORMING LABORATORY"
rule "19: Redact PERFORMING LABORATORY"
when
Section(searchText.contains("PERFORMING LABORATORY:"))
then
section.redactBetween("PERFORMING LABORATORY:", "LABORATORY PROJECT ID:", "PII", 17, true, "PERFORMING LABORATORY was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("PERFORMING LABORATORY:", "LABORATORY PROJECT ID:", "PII", 19, true, "PERFORMING LABORATORY was found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "18: Redact On behalf of Sequani Ltd.:"
rule "20: Redact On behalf of Sequani Ltd.:"
when
Section(searchText.contains("On behalf of Sequani Ltd.: Name Title"))
then
section.redactBetween("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", 18, false , "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("On behalf of Sequani Ltd.: Name Title", "On behalf of", "PII", 20, false , "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end
rule "19: Redact On behalf of Syngenta Ltd.:"
rule "21: Redact On behalf of Syngenta Ltd.:"
when
Section(searchText.contains("On behalf of Syngenta Ltd.: Name Title"))
then
section.redactBetween("On behalf of Syngenta Ltd.: Name Title", "Study dates", "PII", 19, false , "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
section.redactBetween("On behalf of Syngenta Ltd.: Name Title", "Study dates", "PII", 21, false , "PII (Personal Identification Information) found", "Reg (EC) No 1107/2009 Art. 63 (2e)");
end