public ContentStructureCitationPositions findReferences(
ContentStructure structure, List<BibEntry> citations) {
List<Integer> indexes = new ArrayList<Integer>();
Map<Integer, Integer> paragraphIndex = new HashMap<Integer, Integer>();
Map<Integer, DocumentSection> sectionIndex = new HashMap<Integer, DocumentSection>();
List<DocumentSection> sections = toSectionList(structure);
StringBuilder sb = new StringBuilder();
int length = 0;
int index = 0;
for (DocumentSection section : sections) {
for (int i = 0; i < section.getParagraphs().size(); i++) {
indexes.add(length);
paragraphIndex.put(index, i);
sectionIndex.put(index, section);
sb.append(section.getParagraphs().get(i));
length += section.getParagraphs().get(i).length();
index++;
}
}
String fullText = sb.toString();
CitationPositionFinder finder = new CitationPositionFinder();
List<List<CitationPosition>> positions = finder.findReferences(fullText, citations);
ContentStructureCitationPositions contentPositions = new ContentStructureCitationPositions();
for (int i = 0; i < positions.size(); i++) {
List<CitationPosition> citationPositions = positions.get(i);
for (CitationPosition pos : citationPositions) {
int start = findIndex(pos.getStartRefPosition(), indexes);
int end = findIndex(pos.getEndRefPosition(), indexes);
if (start != end) {
continue;
}
CitationPosition shifted = new CitationPosition();
shifted.setStartRefPosition(pos.getStartRefPosition() - indexes.get(start));
shifted.setEndRefPosition(pos.getEndRefPosition() - indexes.get(start));
contentPositions.addPosition(
sectionIndex.get(start), paragraphIndex.get(start), i, shifted);
}
}
return contentPositions;
}
private void addSections(List<DocumentSection> sectionList, DocumentSection section) {
sectionList.add(section);
for (DocumentSection subsection : section.getSubsections()) {
addSections(sectionList, subsection);
}
}