Addressing requested changes(#14085)

Removing all accidentally changed files and only commiting related work files

Author: jsochava

jablib/src/main/java/org/jabref/logic/importer/RelatedWorkAnnotator.java

@@ -0,0 +1,33 @@
+package org.jabref.logic.importer;
+
+import java.util.Optional;
+
+import org.jabref.model.entry.BibEntry;
+import org.jabref.model.entry.field.Field;
+import org.jabref.model.entry.field.FieldFactory;
+
+public class RelatedWorkAnnotator {
+
+    public static void appendSummaryToEntry(
+            BibEntry entry,
+            String username,
+            String citingPaperKey,
+            String summarySentence
+    ) {
+        String fieldName = "comment-" + username;
+        Field commentField = FieldFactory.parseField(fieldName);
+
+        String cleaned = summarySentence.strip();
+        if (!cleaned.endsWith(".")) {
+            cleaned = cleaned + ".";
+        }
+        String formattedBlock = "[" + citingPaperKey + "]: " + cleaned;
+
+        Optional<String> existing = entry.getField(commentField);
+        String newValue = existing
+                .map(old -> old.strip() + "\n\n" + formattedBlock)
+                .orElse(formattedBlock);
+
+        entry.setField(commentField, newValue);
+    }
+}

jablib/src/main/java/org/jabref/logic/importer/relatedwork/HeuristicExtractorAdapter.java

@@ -0,0 +1,41 @@
+package org.jabref.logic.importer.relatedwork;
+
+import java.util.ArrayList;
+import java.util.HashMap;
+import java.util.List;
+import java.util.Map;
+
+import org.jabref.model.entry.BibEntry;
+
+/**
+ * Adapts HeuristicRelatedWorkExtractor (citationKey -> snippet) to the
+ * RelatedWorkEvaluationRunner.Extractor interface (BibEntry -> snippets).
+ */
+public final class HeuristicExtractorAdapter implements RelatedWorkEvaluationRunner.Extractor {
+
+    private final HeuristicRelatedWorkExtractor delegate;
+
+    public HeuristicExtractorAdapter(HeuristicRelatedWorkExtractor delegate) {
+        this.delegate = delegate;
+    }
+
+    @Override
+    public Map<BibEntry, List<String>> apply(String relatedWorkText, List<BibEntry> candidates) {
+        Map<String, String> byKey = delegate.extract(relatedWorkText, candidates);
+
+        Map<String, BibEntry> entryByKey = new HashMap<>();
+        for (BibEntry be : candidates) {
+            be.getCitationKey().ifPresent(k -> entryByKey.put(k, be));
+        }
+
+        Map<BibEntry, List<String>> out = new HashMap<>();
+        for (Map.Entry<String, String> e : byKey.entrySet()) {
+            BibEntry be = entryByKey.get(e.getKey());
+            if (be == null) {
+                continue; // no match for that citation key among candidates
+            }
+            out.computeIfAbsent(be, k -> new ArrayList<>()).add(e.getValue());
+        }
+        return out;
+    }
+}

jablib/src/main/java/org/jabref/logic/importer/relatedwork/HeuristicRelatedWorkExtractor.java

@@ -0,0 +1,262 @@
+package org.jabref.logic.importer.relatedwork;
+
+import java.text.Normalizer;
+import java.util.HashMap;
+import java.util.LinkedHashMap;
+import java.util.List;
+import java.util.Locale;
+import java.util.Map;
+import java.util.Optional;
+import java.util.regex.Matcher;
+import java.util.regex.Pattern;
+
+import org.jabref.model.entry.BibEntry;
+import org.jabref.model.entry.field.StandardField;
+
+/**
+ * Deterministic extractor for author–year style citations in "Related Work" sections.
+ * Handles single and multi-citation parentheticals, including diacritics and all-caps acronyms (e.g., CIA, Šimić).
+ */
+public class HeuristicRelatedWorkExtractor implements RelatedWorkExtractor {
+
+    // Headings like "1.4 Related work", "RELATED WORK", etc. (case-insensitive)
+    private static final Pattern RELATED_WORK_HEADING =
+            Pattern.compile("(?im)^(\\d+(?:\\.\\d+)*)?\\s*related\\s+work[s]?\\s*[:\\-]?$");
+
+    // Any parenthetical block; author-year pairs are mined inside it.
+    private static final Pattern PAREN_BLOCK = Pattern.compile("\\(([^)]+)\\)");
+
+    // Unicode-aware author–year inside a parenthetical.
+    // Allows all-caps acronyms like "CIA" and Unicode surnames like "Šimić".
+    // \p{Lu} = uppercase letter, \p{L} = any letter, \p{M} = combining mark.
+    private static final Pattern AUTHOR_YEAR_INNER = Pattern.compile(
+            "(?U)"                               // enable Unicode character classes
+                    + "(\\p{Lu}[\\p{L}\\p{M}'\\-]*)"       // 1: first author token (can be acronym or surname)
+                    + "(?:\\s+(?:et\\s+al\\.)|\\s*(?:&|and)\\s+\\p{Lu}[\\p{L}\\p{M}'\\-]+)?"
+                    + "\\s*,?\\s*"
+                    + "(\\d{4})([a-z]?)"                  // 2: year, 3: optional trailing letter
+    );
+
+    /**
+     * Extract a mapping from cited entry key to a short contextual snippet.
+     *
+     * <p>The returned map uses the cited entry's citation key (for example, {@code Smith2021})
+     * as the key, and a sentence-like snippet taken from around the in-text citation as the value.</p>
+     *
+     * @param fullText the full (plain) text of the paper or section to scan
+     * @param bibliography candidate entries that may be cited; used to resolve author/year to a citation key
+     * @return a {@code Map} from citation key to snippet; never {@code null}, possibly empty
+     */
+    @Override
+    public Map<String, String> extract(String fullText, List<BibEntry> bibliography) {
+        String related = sliceRelatedWorkSection(fullText);
+        Map<String, BibEntry> index = buildIndex(bibliography);
+        Map<String, String> out = new LinkedHashMap<>();
+
+        Matcher paren = PAREN_BLOCK.matcher(related);
+        while (paren.find()) {
+            String inner = paren.group(1);
+            Matcher cite = AUTHOR_YEAR_INNER.matcher(inner);
+
+            while (cite.find()) {
+                String citedToken = normalizeSurname(cite.group(1)); // e.g., "cia" or "nash"
+                String yearDigits = cite.group(2);                   // ignore group(3) letter
+                String citedKey = findKeyFor(citedToken, yearDigits, index);
+                if (citedKey == null || out.containsKey(citedKey)) {
+                    continue;
+                }
+
+                String snippet = expandToSentenceLikeSpan(related, paren.start(), paren.end());
+                snippet = pruneTrailingCitationTail(snippet).trim();
+
+                if (!snippet.endsWith(".")) {
+                    snippet = snippet + ".";
+                }
+                if (snippet.length() > 300) {
+                    snippet = snippet.substring(0, 300) + "...";
+                }
+
+                out.put(citedKey, snippet);
+            }
+        }
+
+        return out;
+    }
+
+    /**
+     * Try to isolate the "Related work" section; fallback to full text.
+     */
+    private String sliceRelatedWorkSection(String text) {
+        Matcher start = RELATED_WORK_HEADING.matcher(text);
+        int begin = -1;
+        while (start.find()) {
+            begin = start.end();
+            break;
+        }
+        if (begin < 0) {
+            return text; // fallback: whole text
+        }
+
+        // Next likely section heading AFTER begin (numbered or ALL-CAPS)
+        Pattern nextSection = Pattern.compile(
+                "(?m)^(?:\\d+(?:\\.\\d+)*)\\s+[A-Z][A-Z\\s\\-]{3,}$|^[A-Z][A-Z\\s\\-]{3,}$");
+        Matcher end = nextSection.matcher(text);
+        int stop = text.length();
+        while (end.find()) {
+            if (end.start() > begin) {
+                stop = end.start();
+                break;
+            }
+        }
+        return text.substring(begin, stop);
+    }
+
+    private Map<String, BibEntry> buildIndex(List<BibEntry> bibs) {
+        Map<String, BibEntry> idx = new HashMap<>();
+        for (BibEntry b : bibs) {
+            Optional<String> y = b.getField(StandardField.YEAR);
+            if (y.isEmpty()) {
+                Optional<String> date = b.getField(StandardField.DATE);
+                if (date.isPresent()) {
+                    Matcher m = Pattern.compile("(\\d{4})").matcher(date.get());
+                    if (m.find()) {
+                        y = Optional.of(m.group(1));
+                    }
+                }
+            }
+            Optional<String> a = b.getField(StandardField.AUTHOR);
+            if (y.isEmpty() || a.isEmpty()) {
+                continue;
+            }
+            String yearDigits = y.get().replaceAll("[^0-9]", "");
+            if (yearDigits.isEmpty()) {
+                continue;
+            }
+
+            String firstAuthor = firstAuthorRaw(a.get());
+            String firstSurname = extractFirstSurnameFromRaw(firstAuthor);
+            if (!firstSurname.isEmpty()) {
+                idx.put(normalizeSurname(firstSurname) + yearDigits, b);
+            }
+
+            // Also index acronym for corporate/multi-word first author without comma.
+            String acronym = maybeAcronym(firstAuthor);
+            if (!acronym.isEmpty()) {
+                idx.put(acronym + yearDigits, b);
+            }
+        }
+        return idx;
+    }
+
+    /**
+     * Get the raw first author string (before surname extraction).
+     */
+    private String firstAuthorRaw(String authorField) {
+        return authorField.split("\\s+and\\s+")[0].trim();
+    }
+
+    /**
+     * Extract the first author surname from a raw first-author token.
+     */
+    private String extractFirstSurnameFromRaw(String firstAuthor) {
+        if (firstAuthor.contains(",")) {
+            return firstAuthor.substring(0, firstAuthor.indexOf(',')).trim();
+        }
+        if (firstAuthor.startsWith("{") && firstAuthor.endsWith("}")) {
+            String inner = firstAuthor.substring(1, firstAuthor.length() - 1).trim();
+            String[] parts = inner.split("\\s+");
+            return parts.length == 0 ? "" : parts[parts.length - 1];
+        }
+        String[] parts = firstAuthor.split("\\s+");
+        return parts.length == 0 ? "" : parts[parts.length - 1];
+    }
+
+    private String maybeAcronym(String firstAuthor) {
+        if (firstAuthor.contains(",")) {
+            return ""; // likely "Surname, Given" → skip acronym
+        }
+        String unbraced = firstAuthor;
+        if (unbraced.startsWith("{") && unbraced.endsWith("}")) {
+            unbraced = unbraced.substring(1, unbraced.length() - 1);
+        }
+        String[] parts = unbraced.trim().split("\\s+");
+        if (parts.length < 2) {
+            return ""; // single token → not helpful
+        }
+        StringBuilder sb = new StringBuilder();
+        for (String p : parts) {
+            if (p.isEmpty()) {
+                continue;
+            }
+            char c = p.charAt(0);
+            if (Character.isLetter(c)) {
+                sb.append(Character.toLowerCase(c));
+            }
+        }
+        return sb.toString();
+    }
+
+    /**
+     * Normalize token: remove braces, strip diacritics, lowercase.
+     */
+    private String normalizeSurname(String s) {
+        String noBraces = s.replace("{", "").replace("}", "");
+        String normalized = Normalizer.normalize(noBraces, Normalizer.Form.NFD)
+                                      .replaceAll("\\p{M}+", "");
+        return normalized.toLowerCase(Locale.ROOT);
+    }
+
+    /**
+     * Lookup by normalized token (surname or acronym) + 4-digit year.
+     */
+    private String findKeyFor(String lowerToken, String yearDigits, Map<String, BibEntry> index) {
+        BibEntry entry = index.get(lowerToken + yearDigits);
+        return (entry != null) ? entry.getCitationKey().orElse(null) : null; // null signals "not found"
+    }
+
+    /**
+     * Expand to a sentence-like span around the parenthetical match.
+     */
+    private String expandToSentenceLikeSpan(String text, int matchStart, int matchEnd) {
+        int left = matchStart;
+        while (left > 0) {
+            char c = text.charAt(left - 1);
+            if (c == '.' || c == '!' || c == '?' || c == '\n') {
+                break;
+            }
+            left--;
+        }
+        int right = matchEnd;
+        int len = text.length();
+        while (right < len) {
+            char c = text.charAt(right);
+            if (c == '.' || c == '!' || c == '?' || c == '\n') {
+                right++; // include the boundary char
+                break;
+            }
+            right++;
+        }
+        if (right > len) {
+            right = len;
+        }
+        return text.substring(left, right);
+    }
+
+    /**
+     * Heuristically remove trailing citation trains at the end of a snippet
+     */
+    private String pruneTrailingCitationTail(String s) {
+        int lastParen = s.lastIndexOf(')');
+        if (lastParen > -1 && lastParen >= s.length() - 3) {
+            String head = s.substring(0, lastParen + 1).trim();
+            if (head.endsWith(").")) {
+                return head;
+            }
+            if (head.endsWith(")")) {
+                return head + ".";
+            }
+            return head;
+        }
+        return s;
+    }
+}