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2 Commits
11 changed files with 133 additions and 244 deletions
@@ -1,10 +1,10 @@
package com.knecon.fforesight.service.layoutparser.internal.api.queue;
public enum LayoutParsingType {
REDACT_MANAGER,
REDACT_MANAGER_OLD,
TAAS,
DOCUMINE,
DOCSTRUM,
DOCSTRUM_XY
REDACT_MANAGER
}
@@ -100,35 +100,28 @@ public class LayoutParsingPipeline {
log.info("Starting layout parsing for {}", layoutParsingRequest.identifier());
File originFile = layoutParsingStorageService.getOriginFile(layoutParsingRequest.originFileStorageId());
File viewerDocumentFile = layoutParsingStorageService.getViewerDocFile(layoutParsingRequest.viewerDocumentStorageId())
.orElse(originFile);
File viewerDocumentFile = layoutParsingStorageService.getViewerDocFile(layoutParsingRequest.viewerDocumentStorageId()).orElse(originFile);
VisualLayoutParsingResponse visualLayoutParsingResponse = new VisualLayoutParsingResponse();
if (layoutParsingRequest.visualLayoutParsingFileId()
.isPresent()) {
visualLayoutParsingResponse = layoutParsingStorageService.getVisualLayoutParsingFile(layoutParsingRequest.visualLayoutParsingFileId()
.get());
if (layoutParsingRequest.visualLayoutParsingFileId().isPresent()) {
visualLayoutParsingResponse = layoutParsingStorageService.getVisualLayoutParsingFile(layoutParsingRequest.visualLayoutParsingFileId().get());
}
ImageServiceResponse imageServiceResponse = new ImageServiceResponse();
if (layoutParsingRequest.imagesFileStorageId()
.isPresent()) {
imageServiceResponse = layoutParsingStorageService.getImagesFile(layoutParsingRequest.imagesFileStorageId()
.get());
if (layoutParsingRequest.imagesFileStorageId().isPresent()) {
imageServiceResponse = layoutParsingStorageService.getImagesFile(layoutParsingRequest.imagesFileStorageId().get());
}
TableServiceResponse tableServiceResponse = new TableServiceResponse();
if (layoutParsingRequest.tablesFileStorageId()
.isPresent()) {
tableServiceResponse = layoutParsingStorageService.getTablesFile(layoutParsingRequest.tablesFileStorageId()
.get());
if (layoutParsingRequest.tablesFileStorageId().isPresent()) {
tableServiceResponse = layoutParsingStorageService.getTablesFile(layoutParsingRequest.tablesFileStorageId().get());
}
ClassificationDocument classificationDocument = parseLayout(layoutParsingRequest.layoutParsingType(),
originFile,
imageServiceResponse,
tableServiceResponse,
visualLayoutParsingResponse,
originFile,
imageServiceResponse,
tableServiceResponse,
visualLayoutParsingResponse,
layoutParsingRequest.identifier().toString());
log.info("Building document graph for {}", layoutParsingRequest.identifier());
@@ -161,25 +154,25 @@ public class LayoutParsingPipeline {
.numberOfPages(documentGraph.getNumberOfPages())
.duration(System.currentTimeMillis() - start)
.message(format("""
Layout parsing has finished in %.02f s.
identifiers: %s
%s
Files have been saved with Ids:
Structure: %s
Text: %s
Positions: %s
PageData: %s
Simplified Text: %s
Viewer Doc: %s""",
((float) (System.currentTimeMillis() - start)) / 1000,
layoutParsingRequest.identifier(),
buildSemanticNodeCountMessage(documentGraph.getNumberOfPages(), documentGraph.buildSemanticNodeCounts()),
layoutParsingRequest.structureFileStorageId(),
layoutParsingRequest.textBlockFileStorageId(),
layoutParsingRequest.positionBlockFileStorageId(),
layoutParsingRequest.pageFileStorageId(),
layoutParsingRequest.simplifiedTextStorageId(),
layoutParsingRequest.viewerDocumentStorageId()))
Layout parsing has finished in %.02f s.
identifiers: %s
%s
Files have been saved with Ids:
Structure: %s
Text: %s
Positions: %s
PageData: %s
Simplified Text: %s
Viewer Doc: %s""",
((float) (System.currentTimeMillis() - start)) / 1000,
layoutParsingRequest.identifier(),
buildSemanticNodeCountMessage(documentGraph.getNumberOfPages(), documentGraph.buildSemanticNodeCounts()),
layoutParsingRequest.structureFileStorageId(),
layoutParsingRequest.textBlockFileStorageId(),
layoutParsingRequest.positionBlockFileStorageId(),
layoutParsingRequest.pageFileStorageId(),
layoutParsingRequest.simplifiedTextStorageId(),
layoutParsingRequest.viewerDocumentStorageId()))
.build();
}
@@ -200,14 +193,14 @@ public class LayoutParsingPipeline {
private String buildSemanticNodeCountMessage(int numberOfPages, Map<NodeType, Long> semanticNodeCounts) {
return String.format("%d pages with %d sections, %d headlines, %d paragraphs, %d tables with %d cells, %d headers, and %d footers parsed",
numberOfPages,
semanticNodeCounts.get(NodeType.SECTION) == null ? 0 : semanticNodeCounts.get(NodeType.SECTION),
semanticNodeCounts.get(NodeType.HEADLINE) == null ? 0 : semanticNodeCounts.get(NodeType.HEADLINE),
semanticNodeCounts.get(NodeType.PARAGRAPH) == null ? 0 : semanticNodeCounts.get(NodeType.PARAGRAPH),
semanticNodeCounts.get(NodeType.TABLE) == null ? 0 : semanticNodeCounts.get(NodeType.TABLE),
semanticNodeCounts.get(NodeType.TABLE_CELL) == null ? 0 : semanticNodeCounts.get(NodeType.TABLE_CELL),
semanticNodeCounts.get(NodeType.HEADER) == null ? 0 : semanticNodeCounts.get(NodeType.HEADER),
semanticNodeCounts.get(NodeType.FOOTER) == null ? 0 : semanticNodeCounts.get(NodeType.FOOTER));
numberOfPages,
semanticNodeCounts.get(NodeType.SECTION) == null ? 0 : semanticNodeCounts.get(NodeType.SECTION),
semanticNodeCounts.get(NodeType.HEADLINE) == null ? 0 : semanticNodeCounts.get(NodeType.HEADLINE),
semanticNodeCounts.get(NodeType.PARAGRAPH) == null ? 0 : semanticNodeCounts.get(NodeType.PARAGRAPH),
semanticNodeCounts.get(NodeType.TABLE) == null ? 0 : semanticNodeCounts.get(NodeType.TABLE),
semanticNodeCounts.get(NodeType.TABLE_CELL) == null ? 0 : semanticNodeCounts.get(NodeType.TABLE_CELL),
semanticNodeCounts.get(NodeType.HEADER) == null ? 0 : semanticNodeCounts.get(NodeType.HEADER),
semanticNodeCounts.get(NodeType.FOOTER) == null ? 0 : semanticNodeCounts.get(NodeType.FOOTER));
}
@@ -266,11 +259,12 @@ public class LayoutParsingPipeline {
List<Cell> emptyTableCells = tableExtractionService.findCells(cleanRulings.getHorizontal(), cleanRulings.getVertical());
ClassificationPage classificationPage = switch (layoutParsingType) {
case REDACT_MANAGER -> redactManagerBlockificationService.blockify(stripper.getTextPositionSequences(), cleanRulings.getHorizontal(), cleanRulings.getVertical());
case REDACT_MANAGER_OLD ->
redactManagerBlockificationService.blockify(stripper.getTextPositionSequences(), cleanRulings.getHorizontal(), cleanRulings.getVertical());
case TAAS -> taasBlockificationService.blockify(stripper.getTextPositionSequences(), cleanRulings.getHorizontal(), cleanRulings.getVertical());
case DOCUMINE -> docuMineBlockificationService.blockify(stripper.getTextPositionSequences(), cleanRulings.getHorizontal(), cleanRulings.getVertical());
case DOCSTRUM -> docstrumBlockificationService.blockify(stripper.getTextPositionSequences(), emptyTableCells, false);
case DOCSTRUM_XY -> docstrumBlockificationService.blockify(stripper.getTextPositionSequences(), emptyTableCells, true);
case REDACT_MANAGER -> docstrumBlockificationService.blockify(stripper.getTextPositionSequences(), emptyTableCells, true);
};
classificationPage.setCleanRulings(cleanRulings);
classificationPage.setRotation(rotation);
@@ -298,7 +292,7 @@ public class LayoutParsingPipeline {
tableExtractionService.extractTables(emptyTableCells, classificationPage);
if (layoutParsingType == LayoutParsingType.DOCSTRUM || layoutParsingType == LayoutParsingType.DOCSTRUM_XY) {
if (layoutParsingType == LayoutParsingType.DOCSTRUM || layoutParsingType == LayoutParsingType.REDACT_MANAGER) {
docstrumBlockificationService.combineBlocks(classificationPage);
}
@@ -316,8 +310,8 @@ public class LayoutParsingPipeline {
switch (layoutParsingType) {
case TAAS -> taasClassificationService.classifyDocument(classificationDocument);
case DOCUMINE -> docuMineClassificationService.classifyDocument(classificationDocument);
case REDACT_MANAGER_OLD -> redactManagerClassificationService.classifyDocument(classificationDocument);
case REDACT_MANAGER -> redactManagerClassificationService.classifyDocument(classificationDocument);
case DOCSTRUM_XY -> redactManagerClassificationService.classifyDocument(classificationDocument);
case DOCSTRUM -> redactManagerClassificationService.classifyDocument(classificationDocument);
}
@@ -18,7 +18,7 @@ public class NearestNeighbourService {
public void findNearestNeighbors(List<Character> characters) {
if (characters.isEmpty()) {
if (characters.isEmpty() || characters.size() == 1) {
return;
}
@@ -95,7 +95,7 @@ public class HeadlinesGoldStandardIntegrationTest {
goldStandardLog.getRedactionLogEntry().removeIf(r -> !r.isRedacted() || r.getChanges().get(r.getChanges().size() - 1).getType().equals(ChangeType.REMOVED));
goldStandardLog.getRedactionLogEntry().forEach(e -> goldStandardHeadlines.add(new Headline(e.getPositions().get(0).getPage(), e.getValue())));
Document documentGraph = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER,
Document documentGraph = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER_OLD,
pdfFileResource.getFile(),
new ImageServiceResponse(),
new TableServiceResponse(),
@@ -26,7 +26,7 @@ public class LayoutparserEnd2EndTest extends AbstractTest {
public void testLayoutParserEndToEnd() {
prepareStorage("files/bdr/Wie weiter bei Kristeneinrichtungen.pdf");
LayoutParsingRequest layoutParsingRequest = buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER);
LayoutParsingRequest layoutParsingRequest = buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER_OLD);
LayoutParsingFinishedEvent finishedEvent = layoutParsingPipeline.parseLayoutAndSaveFilesToStorage(layoutParsingRequest);
Arrays.stream(finishedEvent.message().split("\n")).forEach(log::info);
}
@@ -55,7 +55,7 @@ public class DocumentGraphJsonWritingTest extends BuildDocumentTest {
@SneakyThrows
private void writeJsons(Path filename) {
Document documentGraph = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER,
Document documentGraph = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER_OLD,
filename.toFile(),
new ImageServiceResponse(),
new TableServiceResponse(),
@@ -33,7 +33,7 @@ public class ViewerDocumentTest extends BuildDocumentTest {
ViewerDocumentService viewerDocumentService = new ViewerDocumentService(null);
LayoutGridService layoutGridService = new LayoutGridService(viewerDocumentService);
Document document = buildGraph(fileName, LayoutParsingType.DOCSTRUM_XY);
Document document = buildGraph(fileName, LayoutParsingType.REDACT_MANAGER);
long start = System.currentTimeMillis();
layoutGridService.addLayoutGrid(documentFile, document, new File(tmpFileName), true);
System.out.printf("Total time: %.2fs%n", ((float) (System.currentTimeMillis() - start)) / 1000);
@@ -56,12 +56,12 @@ public class PdfSegmentationServiceTest extends AbstractTest {
@SneakyThrows
public ClassificationDocument buildClassificationDocument(File originDocument, TableServiceResponse tableServiceResponse) {
ClassificationDocument classificationDocument = layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER,
originDocument,
new ImageServiceResponse(),
tableServiceResponse,
new VisualLayoutParsingResponse(),
"document");
ClassificationDocument classificationDocument = layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER_OLD,
originDocument,
new ImageServiceResponse(),
tableServiceResponse,
new VisualLayoutParsingResponse(),
"document");
redactManagerClassificationService.classifyDocument(classificationDocument);
@@ -112,16 +112,8 @@ public class PdfSegmentationServiceTest extends AbstractTest {
var tableServiceResponse = objectMapper.readValue(cvTablesResource.getInputStream(), TableServiceResponse.class);
ClassificationDocument document = buildClassificationDocument(pdfFileResource.getFile(), tableServiceResponse);
assertThat(document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.collect(Collectors.toList())).isNotEmpty();
var tables = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList();
assertThat(document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).collect(Collectors.toList())).isNotEmpty();
var tables = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList();
// Quality of the table parsing is not good, because the file is rotated at scanning.
// We only asset that the table border is not the page border.
@@ -143,12 +135,12 @@ public class PdfSegmentationServiceTest extends AbstractTest {
imageServiceResponse.getData()
.forEach(imageMetadata -> images.computeIfAbsent(imageMetadata.getPosition().getPageNumber(), x -> new ArrayList<>())
.add(new ClassifiedImage(new Rectangle2D.Double(imageMetadata.getPosition().getX1(),
imageMetadata.getPosition().getY1(),
imageMetadata.getGeometry().getWidth(),
imageMetadata.getGeometry().getHeight()),
ImageType.valueOf(imageMetadata.getClassification().getLabel().toUpperCase(Locale.ROOT)),
imageMetadata.isAlpha(),
imageMetadata.getPosition().getPageNumber())));
imageMetadata.getPosition().getY1(),
imageMetadata.getGeometry().getWidth(),
imageMetadata.getGeometry().getHeight()),
ImageType.valueOf(imageMetadata.getClassification().getLabel().toUpperCase(Locale.ROOT)),
imageMetadata.isAlpha(),
imageMetadata.getPosition().getPageNumber())));
System.out.println("object");
}
@@ -160,22 +152,11 @@ public class PdfSegmentationServiceTest extends AbstractTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Spanning Cells.pdf");
ClassificationDocument document = buildClassificationDocument(pdfFileResource.getFile());
assertThat(document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.collect(Collectors.toList())).isNotEmpty();
TablePageBlock table = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(0);
assertThat(document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).collect(Collectors.toList())).isNotEmpty();
TablePageBlock table = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(0);
assertThat(table.getColCount()).isEqualTo(6);
assertThat(table.getRowCount()).isEqualTo(13);
assertThat(table.getRows()
.stream()
.mapToInt(List::size).sum()).isEqualTo(6 * 13);
assertThat(table.getRows().stream().mapToInt(List::size).sum()).isEqualTo(6 * 13);
}
@@ -185,37 +166,15 @@ public class PdfSegmentationServiceTest extends AbstractTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Merge Table.pdf");
ClassificationDocument document = buildClassificationDocument(pdfFileResource.getFile());
assertThat(document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.collect(Collectors.toList())).isNotEmpty();
TablePageBlock firstTable = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(0);
assertThat(document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).collect(Collectors.toList())).isNotEmpty();
TablePageBlock firstTable = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(0);
assertThat(firstTable.getColCount()).isEqualTo(8);
assertThat(firstTable.getRowCount()).isEqualTo(1);
TablePageBlock secondTable = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(1);
TablePageBlock secondTable = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(1);
assertThat(secondTable.getColCount()).isEqualTo(8);
assertThat(secondTable.getRowCount()).isEqualTo(2);
List<List<Cell>> firstTableHeaderCells = firstTable.getRows()
.get(0)
.stream()
.map(Collections::singletonList)
.collect(Collectors.toList());
assertThat(secondTable.getRows()
.stream()
.allMatch(row -> row.stream()
.map(Cell::getHeaderCells)
.toList().equals(firstTableHeaderCells))).isTrue();
List<List<Cell>> firstTableHeaderCells = firstTable.getRows().get(0).stream().map(Collections::singletonList).collect(Collectors.toList());
assertThat(secondTable.getRows().stream().allMatch(row -> row.stream().map(Cell::getHeaderCells).toList().equals(firstTableHeaderCells))).isTrue();
}
@@ -225,37 +184,15 @@ public class PdfSegmentationServiceTest extends AbstractTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Merge Multi Page Table.pdf");
ClassificationDocument document = buildClassificationDocument(pdfFileResource.getFile());
assertThat(document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.collect(Collectors.toList())).isNotEmpty();
TablePageBlock firstTable = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(0);
assertThat(document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).collect(Collectors.toList())).isNotEmpty();
TablePageBlock firstTable = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(0);
assertThat(firstTable.getColCount()).isEqualTo(9);
assertThat(firstTable.getRowCount()).isEqualTo(5);
TablePageBlock secondTable = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(1);
TablePageBlock secondTable = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(1);
assertThat(secondTable.getColCount()).isEqualTo(9);
assertThat(secondTable.getRowCount()).isEqualTo(6);
List<List<Cell>> firstTableHeaderCells = firstTable.getRows()
.get(firstTable.getRowCount() - 1)
.stream()
.map(Cell::getHeaderCells)
.collect(Collectors.toList());
assertThat(secondTable.getRows()
.stream()
.allMatch(row -> row.stream()
.map(Cell::getHeaderCells)
.toList().equals(firstTableHeaderCells))).isTrue();
List<List<Cell>> firstTableHeaderCells = firstTable.getRows().get(firstTable.getRowCount() - 1).stream().map(Cell::getHeaderCells).collect(Collectors.toList());
assertThat(secondTable.getRows().stream().allMatch(row -> row.stream().map(Cell::getHeaderCells).toList().equals(firstTableHeaderCells))).isTrue();
}
@@ -265,37 +202,15 @@ public class PdfSegmentationServiceTest extends AbstractTest {
ClassPathResource pdfFileResource = new ClassPathResource("files/Minimal Examples/Rotated Table Headers.pdf");
ClassificationDocument document = buildClassificationDocument(pdfFileResource.getFile());
assertThat(document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.collect(Collectors.toList())).isNotEmpty();
TablePageBlock firstTable = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(0);
assertThat(document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).collect(Collectors.toList())).isNotEmpty();
TablePageBlock firstTable = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(0);
assertThat(firstTable.getColCount()).isEqualTo(8);
assertThat(firstTable.getRowCount()).isEqualTo(1);
TablePageBlock secondTable = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(1);
TablePageBlock secondTable = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(1);
assertThat(secondTable.getColCount()).isEqualTo(8);
assertThat(secondTable.getRowCount()).isEqualTo(6);
List<List<Cell>> firstTableHeaderCells = firstTable.getRows()
.get(0)
.stream()
.map(Collections::singletonList)
.collect(Collectors.toList());
assertThat(secondTable.getRows()
.stream()
.allMatch(row -> row.stream()
.map(Cell::getHeaderCells)
.toList().equals(firstTableHeaderCells))).isTrue();
List<List<Cell>> firstTableHeaderCells = firstTable.getRows().get(0).stream().map(Collections::singletonList).collect(Collectors.toList());
assertThat(secondTable.getRows().stream().allMatch(row -> row.stream().map(Cell::getHeaderCells).toList().equals(firstTableHeaderCells))).isTrue();
}
@@ -345,30 +260,29 @@ public class PdfSegmentationServiceTest extends AbstractTest {
validateTable(document, 0, 8, 8, 0, 0);
List<List<String>> values = Arrays.asList(Arrays.asList("Annex point Reference within DAR/RAR",
"Author, date",
"Study title",
"Analytical method Author, date, No.",
"Technique, LOQ of the method, validated working range",
"Method meets analytical validation criteria",
"Remarks (in case validation criteria are not met)",
"Acceptability of the method"),
Arrays.asList(
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies"),
Arrays.asList("CA 7.1.2.1.1 DAR (2009)",
"Evans P.G. 2001 TMJ4569B, VV-323245",
"Azoxystrobin Laboratory Degradation Study in Three Soil Types, Sampled from Holland and the United Kingdom",
"Method: RAM 269 Johnson R.I., Tummon O.J., Earl M. 1995 RJ1864B, VV-377731 Johnson R.I., Tummon O.J., Earl M. 1998 RAM 269/02, VV-124072 Johnson R.I., Tummon O.J., Earl M. 2000 RAM 269/03, VV-123986 Validation: Robinson N.J. 2001 TMJ4617B, VV-895845",
"LC-MS/MS LOQ: 0.01 mg/kg (R401553 (SYN50165 7), R402173 (SYN501114 )) or 0.02 mg/kg (azoxystrobin, R230310, R234886) Working range: 0.02-1.0 or 0.01-0.5 mg/kg (depending on analyte) Other supporting quantificati on methods: HPLC-UV GC-MSD",
"Y",
"N/A",
"Y"));
"Author, date",
"Study title",
"Analytical method Author, date, No.",
"Technique, LOQ of the method, validated working range",
"Method meets analytical validation criteria",
"Remarks (in case validation criteria are not met)",
"Acceptability of the method"),
Arrays.asList("Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies",
"Part (a) Methods in soil, water, sediment, air and any additional matrices used in support of environmental fate studies"),
Arrays.asList("CA 7.1.2.1.1 DAR (2009)",
"Evans P.G. 2001 TMJ4569B, VV-323245",
"Azoxystrobin Laboratory Degradation Study in Three Soil Types, Sampled from Holland and the United Kingdom",
"Method: RAM 269 Johnson R.I., Tummon O.J., Earl M. 1995 RJ1864B, VV-377731 Johnson R.I., Tummon O.J., Earl M. 1998 RAM 269/02, VV-124072 Johnson R.I., Tummon O.J., Earl M. 2000 RAM 269/03, VV-123986 Validation: Robinson N.J. 2001 TMJ4617B, VV-895845",
"LC-MS/MS LOQ: 0.01 mg/kg (R401553 (SYN50165 7), R402173 (SYN501114 )) or 0.02 mg/kg (azoxystrobin, R230310, R234886) Working range: 0.02-1.0 or 0.01-0.5 mg/kg (depending on analyte) Other supporting quantificati on methods: HPLC-UV GC-MSD",
"Y",
"N/A",
"Y"));
validateTable(document, 0, values);
@@ -757,11 +671,7 @@ public class PdfSegmentationServiceTest extends AbstractTest {
@SneakyThrows
private void toHtml(ClassificationDocument document, String filename) {
var tables = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList();
var tables = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList();
StringBuilder sb = new StringBuilder();
int currentPage = 1;
@@ -782,19 +692,9 @@ public class PdfSegmentationServiceTest extends AbstractTest {
private void validateTable(ClassificationDocument document, int tableIndex, int colCount, int rowCount, int emptyCellsCountCorrect, int emptyCellsCountIncorrect) {
TablePageBlock table = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(tableIndex);
TablePageBlock table = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(tableIndex);
List<List<Cell>> rows = table.getRows();
int emptyCellsFoundFound = rows.stream()
.flatMap(List::stream)
.toList()
.stream()
.filter(f -> f.toString().isEmpty())
.toList().size();
int emptyCellsFoundFound = rows.stream().flatMap(List::stream).toList().stream().filter(f -> f.toString().isEmpty()).toList().size();
for (List<Cell> row : table.getRows()) {
row.forEach(r -> System.out.println(r.toString()));
@@ -809,20 +709,11 @@ public class PdfSegmentationServiceTest extends AbstractTest {
private void validateTable(ClassificationDocument document, int tableIndex, List<List<String>> values) {
TablePageBlock table = document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList()
.get(tableIndex);
TablePageBlock table = document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().get(tableIndex);
List<List<Cell>> rows = table.getRows();
List<Cell> rowsFlattened = rows.stream()
.flatMap(List::stream)
.toList();
List<String> valuesFlattened = values.stream()
.flatMap(List::stream)
.toList();
List<Cell> rowsFlattened = rows.stream().flatMap(List::stream).toList();
List<String> valuesFlattened = values.stream().flatMap(List::stream).toList();
for (int i = 0; i < valuesFlattened.size(); i++) {
Cell cell = rowsFlattened.get(i);
@@ -835,11 +726,7 @@ public class PdfSegmentationServiceTest extends AbstractTest {
private void validateTableSize(ClassificationDocument document, int tableSize) {
assertThat(document.getSections()
.stream()
.flatMap(paragraph -> paragraph.getTables()
.stream())
.toList().size()).isEqualTo(tableSize);
assertThat(document.getSections().stream().flatMap(paragraph -> paragraph.getTables().stream()).toList().size()).isEqualTo(tableSize);
}
@@ -74,7 +74,7 @@ public class RulingCleaningServiceTest extends BuildDocumentTest {
cleanRulingsPerPage.add(rulingCleaningService.getCleanRulings(Collections.emptyList(), pageContent.getRulings()));
}
var cleanRulings = cleanRulingsPerPage.stream().map(CleanRulings::getVertical).collect(Collectors.toList());
PdfDraw.drawLinesPerPage(fileName, cleanRulings, lineFileName);
PdfDraw.drawLinesPerPage(fileName, cleanRulings, lineFileName);
}
@@ -99,13 +99,13 @@ public class RulingCleaningServiceTest extends BuildDocumentTest {
@SneakyThrows
private void writeJsons(Path filename) {
Document documentGraphBefore = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER,
Document documentGraphBefore = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER_OLD,
filename.toFile(),
new ImageServiceResponse(),
new TableServiceResponse(),
new VisualLayoutParsingResponse(),
filename.toFile().toString()));
Document documentGraphAfter = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER,
Document documentGraphAfter = DocumentGraphFactory.buildDocumentGraph(layoutParsingPipeline.parseLayout(LayoutParsingType.REDACT_MANAGER_OLD,
filename.toFile(),
new ImageServiceResponse(),
new TableServiceResponse(),
@@ -20,7 +20,6 @@ import org.springframework.context.annotation.Import;
import org.springframework.context.annotation.Primary;
import org.springframework.core.io.ClassPathResource;
import org.springframework.test.context.junit.jupiter.SpringExtension;
import org.xmlunit.builder.Input;
import com.iqser.red.commons.jackson.ObjectMapperFactory;
import com.iqser.red.storage.commons.service.StorageService;
@@ -68,7 +67,7 @@ public abstract class AbstractTest {
protected LayoutParsingRequest buildStandardLayoutParsingRequest() {
return LayoutParsingRequest.builder()
.layoutParsingType(LayoutParsingType.REDACT_MANAGER)
.layoutParsingType(LayoutParsingType.REDACT_MANAGER_OLD)
.originFileStorageId(ORIGIN_FILE_ID)
.tablesFileStorageId(Optional.of(TABLE_FILE_ID))
.imagesFileStorageId(Optional.of(IMAGE_FILE_ID))
@@ -99,7 +98,7 @@ public abstract class AbstractTest {
@SneakyThrows
protected LayoutParsingRequest prepareStorage(String file) {
return prepareStorage(file, "cv_table_parsing_response/empty.json", "image_service_response/empty.json","visual_layout_parsing_response/empty.json");
return prepareStorage(file, "cv_table_parsing_response/empty.json", "image_service_response/empty.json", "visual_layout_parsing_response/empty.json");
}
@@ -107,7 +106,7 @@ public abstract class AbstractTest {
protected LayoutParsingRequest prepareStorage(InputStream fileInputStream) {
storageService.storeObject(TenantContext.getTenantId(), ORIGIN_FILE_ID, fileInputStream);
return buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER);
return buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER_OLD);
}
@@ -140,6 +139,7 @@ public abstract class AbstractTest {
return prepareStorage(pdfFileResource.getInputStream(), cvServiceResponseFileResource.getInputStream(), imageInfoFileResource.getInputStream());
}
@SneakyThrows
protected LayoutParsingRequest prepareStorage(String file, String cvServiceResponseFile, String imageInfoFile, String visualLayoutParsingResponseFile) {
@@ -148,9 +148,13 @@ public abstract class AbstractTest {
ClassPathResource imageInfoFileResource = new ClassPathResource(imageInfoFile);
ClassPathResource visualLayoutParsingResponseResource = new ClassPathResource(visualLayoutParsingResponseFile);
return prepareStorage(pdfFileResource.getInputStream(), cvServiceResponseFileResource.getInputStream(), imageInfoFileResource.getInputStream(), visualLayoutParsingResponseResource.getInputStream());
return prepareStorage(pdfFileResource.getInputStream(),
cvServiceResponseFileResource.getInputStream(),
imageInfoFileResource.getInputStream(),
visualLayoutParsingResponseResource.getInputStream());
}
@SneakyThrows
protected LayoutParsingRequest prepareStorage(InputStream fileStream, InputStream cvServiceResponseFileStream, InputStream imageInfoStream) {
@@ -158,18 +162,22 @@ public abstract class AbstractTest {
storageService.storeObject(TenantContext.getTenantId(), TABLE_FILE_ID, cvServiceResponseFileStream);
storageService.storeObject(TenantContext.getTenantId(), ORIGIN_FILE_ID, fileStream);
return buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER);
return buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER_OLD);
}
@SneakyThrows
protected LayoutParsingRequest prepareStorage(InputStream fileStream, InputStream cvServiceResponseFileStream, InputStream imageInfoStream, InputStream visualLayoutParsingResponseFileStream) {
protected LayoutParsingRequest prepareStorage(InputStream fileStream,
InputStream cvServiceResponseFileStream,
InputStream imageInfoStream,
InputStream visualLayoutParsingResponseFileStream) {
storageService.storeObject(TenantContext.getTenantId(), IMAGE_FILE_ID, imageInfoStream);
storageService.storeObject(TenantContext.getTenantId(), TABLE_FILE_ID, cvServiceResponseFileStream);
storageService.storeObject(TenantContext.getTenantId(), ORIGIN_FILE_ID, fileStream);
storageService.storeObject(TenantContext.getTenantId(),VISUAL_LAYOUT_FILE,visualLayoutParsingResponseFileStream );
storageService.storeObject(TenantContext.getTenantId(), VISUAL_LAYOUT_FILE, visualLayoutParsingResponseFileStream);
return buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER);
return buildDefaultLayoutParsingRequest(LayoutParsingType.REDACT_MANAGER_OLD);
}
@@ -38,7 +38,7 @@ public abstract class BuildDocumentTest extends AbstractTest {
@SneakyThrows
protected Document buildGraph(String filename) {
return buildGraph(filename, LayoutParsingType.REDACT_MANAGER);
return buildGraph(filename, LayoutParsingType.REDACT_MANAGER_OLD);
}