scripts/common.py

from __future__ import annotations

import hashlib
import json
import mimetypes
import re
import unicodedata
from dataclasses import dataclass, field
from pathlib import Path
from typing import Any, Iterable


DOI_RE = re.compile(r"10\.\d{4,9}/[-._;()/:A-Z0-9]+", re.IGNORECASE)
HEADING_RE = re.compile(
    r"\\(?P<kind>part|chapter|section|subsection|subsubsection)\*?\s*\{",
    re.IGNORECASE,
)
ENV_TOKEN_RE = re.compile(r"\\(?P<op>begin|end)\s*\{(?P<env>[^{}]+)\}")
PROTECTED_ENVS = {
    "equation",
    "equation*",
    "align",
    "align*",
    "alignat",
    "alignat*",
    "gather",
    "gather*",
    "multline",
    "multline*",
    "displaymath",
    "math",
    "theorem",
    "lemma",
    "proposition",
    "corollary",
    "definition",
    "assumption",
    "remark",
    "example",
    "proof",
    "axiom",
    "verbatim",
    "lstlisting",
}
HEADING_LEVELS = {
    "part": 0,
    "chapter": 0,
    "section": 1,
    "subsection": 2,
    "subsubsection": 3,
}
SECRET_PATTERNS = {
    "openai_key": re.compile(r"(?<![A-Za-z0-9])sk-[A-Za-z0-9_-]{20,}"),
    "huggingface_token": re.compile(r"(?<![A-Za-z0-9])hf_[A-Za-z0-9]{20,}"),
    "github_token": re.compile(r"(?<![A-Za-z0-9])gh[pousr]_[A-Za-z0-9]{20,}"),
    "private_key": re.compile(
        r"-----BEGIN (?:RSA |OPENSSH |EC )?PRIVATE KEY-----"
    ),
}


def sha256_bytes(data: bytes) -> str:
    return hashlib.sha256(data).hexdigest()


def sha256_file(path: Path, chunk_size: int = 1024 * 1024) -> str:
    digest = hashlib.sha256()
    with path.open("rb") as stream:
        while chunk := stream.read(chunk_size):
            digest.update(chunk)
    return digest.hexdigest()


def canonical_json(data: Any) -> str:
    return json.dumps(
        data,
        ensure_ascii=False,
        indent=2,
        sort_keys=True,
        separators=(",", ": "),
    ) + "\n"


def write_text_lf(path: Path, text: str) -> None:
    path.parent.mkdir(parents=True, exist_ok=True)
    path.write_text(text.replace("\r\n", "\n"), encoding="utf-8", newline="\n")


def strip_tex_comments(text: str) -> str:
    output: list[str] = []
    for line in text.splitlines(keepends=True):
        cut = None
        for index, char in enumerate(line):
            if char != "%":
                continue
            backslashes = 0
            cursor = index - 1
            while cursor >= 0 and line[cursor] == "\\":
                backslashes += 1
                cursor -= 1
            if backslashes % 2 == 0:
                cut = index
                break
        if cut is None:
            output.append(line)
        else:
            newline = "\n" if line.endswith("\n") else ""
            output.append(line[:cut] + newline)
    return "".join(output)


def extract_braced_command(text: str, command: str) -> str:
    match = re.search(rf"\\{re.escape(command)}\s*\{{", text)
    if not match:
        return ""
    start = match.end()
    cursor = start
    depth = 1
    while cursor < len(text) and depth:
        char = text[cursor]
        escaped = cursor > 0 and text[cursor - 1] == "\\"
        if char == "{" and not escaped:
            depth += 1
        elif char == "}" and not escaped:
            depth -= 1
        cursor += 1
    if depth:
        return ""
    return text[start : cursor - 1]


def clean_tex_label(text: str) -> str:
    cleaned = strip_tex_comments(text)
    cleaned = re.sub(r"\\\\(?:\[[^\]]*\])?", " ", cleaned)
    cleaned = re.sub(r"\\(?:href)\s*\{[^{}]*\}\s*\{([^{}]*)\}", r"\1", cleaned)
    cleaned = re.sub(r"\\(?:url)\s*\{([^{}]*)\}", r"\1", cleaned)
    cleaned = re.sub(r"\\[A-Za-z@]+\*?(?:\[[^\]]*\])?", " ", cleaned)
    cleaned = cleaned.replace("{", " ").replace("}", " ").replace("~", " ")
    cleaned = re.sub(r"\s+", " ", cleaned)
    return cleaned.strip()


def normalize_title(text: str) -> str:
    normalized = unicodedata.normalize("NFKD", clean_tex_label(text)).lower()
    normalized = normalized.replace("–", "-").replace("—", "-")
    normalized = re.sub(r"[^a-z0-9]+", " ", normalized)
    return " ".join(normalized.split())


def archive_stem_title(name: str) -> str:
    stem = Path(name).stem
    stem = re.sub(r"\s+\(\d+\)$", "", stem)
    return stem.replace("__", " ").replace("_", " ").strip()


def extract_document_body(text: str) -> str:
    begin = re.search(r"\\begin\s*\{document\}", text)
    end_matches = list(re.finditer(r"\\end\s*\{document\}", text))
    if not begin:
        return strip_tex_comments(text).strip()
    end = end_matches[-1].start() if end_matches else len(text)
    return strip_tex_comments(text[begin.end() : end]).strip()


def brace_balance(text: str) -> int:
    balance = 0
    stripped = strip_tex_comments(text)
    for index, char in enumerate(stripped):
        if char not in "{}":
            continue
        backslashes = 0
        cursor = index - 1
        while cursor >= 0 and stripped[cursor] == "\\":
            backslashes += 1
            cursor -= 1
        if backslashes % 2:
            continue
        balance += 1 if char == "{" else -1
    return balance


def mime_type_for(name: str) -> str:
    extension = Path(name).suffix.lower()
    overrides = {
        ".tex": "application/x-tex",
        ".bib": "application/x-bibtex",
        ".json": "application/json",
        ".py": "text/x-python",
        ".zip": "application/zip",
    }
    return overrides.get(extension) or mimetypes.guess_type(name)[0] or "application/octet-stream"


def find_secret_patterns(text: str) -> list[str]:
    return sorted(name for name, pattern in SECRET_PATTERNS.items() if pattern.search(text))


def find_unsafe_tex_references(text: str) -> list[str]:
    unsafe: list[str] = []
    pattern = re.compile(
        r"\\(?:input|include|includegraphics|lstinputlisting)\s*"
        r"(?:\[[^\]]*\])?\s*\{([^}]+)\}"
    )
    for match in pattern.finditer(text):
        candidate = match.group(1)
        if (
            re.match(r"^[A-Za-z]:", candidate)
            or candidate.startswith(("/", "\\\\"))
            or ".." in Path(candidate).parts
        ):
            unsafe.append(candidate)
    return sorted(set(unsafe))


def readable_tex(text: str) -> tuple[str, list[str]]:
    flags: list[str] = []
    try:
        from pylatexenc.latex2text import LatexNodes2Text

        converter = LatexNodes2Text(
            math_mode="verbatim",
            keep_comments=False,
            strict_latex_spaces=False,
        )
        rendered = converter.latex_to_text(text)
    except Exception:
        flags.append("latex_to_text_fallback")
        rendered = clean_tex_label(text)
    rendered = re.sub(r"[ \t]+\n", "\n", rendered)
    rendered = re.sub(r"\n{3,}", "\n\n", rendered)
    return rendered.strip(), flags


@dataclass(slots=True)
class TexEntry:
    path: str
    size: int
    compressed_size: int
    crc32: str
    sha256: str
    text: str
    title_raw: str
    title_clean: str
    author_raw: str
    author_clean: str
    date_raw: str
    doi_candidates: list[str]
    content_status: str
    quality_flags: list[str] = field(default_factory=list)


@dataclass(slots=True)
class Archive:
    filename: str
    source_path: Path
    raw_path: str
    size: int
    sha256: str
    entries: list[dict[str, Any]]
    tex_entries: list[TexEntry]
    primary_tex_index: int | None
    mapped_dois: list[str] = field(default_factory=list)
    mapping_method: str = "unresolved"
    mapping_score: float = 0.0
    mapping_status: str = "archive_only"
    candidate_dois: list[str] = field(default_factory=list)
    duplicate_of_archive: str = ""
    quality_flags: list[str] = field(default_factory=list)

    @property
    def primary_tex(self) -> TexEntry | None:
        if self.primary_tex_index is None:
            return None
        return self.tex_entries[self.primary_tex_index]

    @property
    def content_status(self) -> str:
        primary = self.primary_tex
        if primary is None:
            return "invalid_source"
        if self.duplicate_of_archive:
            return "exact_duplicate"
        return primary.content_status


@dataclass(slots=True)
class Block:
    start: int
    end: int
    text: str
    section_path: tuple[str, ...]
    kind: str


def _protected_spans(text: str) -> list[tuple[int, int]]:
    spans: list[tuple[int, int]] = []
    stack: list[tuple[str, int]] = []
    for match in ENV_TOKEN_RE.finditer(text):
        env = match.group("env").strip().lower()
        if env not in PROTECTED_ENVS:
            continue
        if match.group("op") == "begin":
            stack.append((env, match.start()))
            continue
        for index in range(len(stack) - 1, -1, -1):
            open_env, open_start = stack[index]
            if open_env != env:
                continue
            is_outer = index == 0
            del stack[index:]
            if is_outer:
                spans.append((open_start, match.end()))
            break
    return sorted(spans)


def _heading_title(block_text: str) -> tuple[int | None, str]:
    match = HEADING_RE.search(block_text)
    if not match:
        return None, ""
    command = match.group("kind").lower()
    start = match.end()
    cursor = start
    depth = 1
    while cursor < len(block_text) and depth:
        char = block_text[cursor]
        escaped = cursor > 0 and block_text[cursor - 1] == "\\"
        if char == "{" and not escaped:
            depth += 1
        elif char == "}" and not escaped:
            depth -= 1
        cursor += 1
    raw = block_text[start : cursor - 1] if depth == 0 else ""
    return HEADING_LEVELS[command], clean_tex_label(raw)


def latex_blocks(body: str) -> list[Block]:
    spans = _protected_spans(body)
    raw_parts: list[tuple[int, int, str]] = []
    cursor = 0
    for start, end in spans:
        if start > cursor:
            raw_parts.append((cursor, start, "text"))
        raw_parts.append((start, end, "environment"))
        cursor = end
    if cursor < len(body):
        raw_parts.append((cursor, len(body), "text"))

    pieces: list[tuple[int, int, str]] = []
    for start, end, kind in raw_parts:
        if kind == "environment":
            pieces.append((start, end, kind))
            continue
        segment = body[start:end]
        paragraph_starts = [0]
        for match in re.finditer(r"\n\s*\n", segment):
            paragraph_starts.append(match.end())
        paragraph_starts.append(len(segment))
        for left, right in zip(paragraph_starts, paragraph_starts[1:]):
            absolute_left = start + left
            absolute_right = start + right
            content = body[absolute_left:absolute_right]
            if not content.strip():
                continue
            heading_positions = [m.start() for m in HEADING_RE.finditer(content)]
            if not heading_positions:
                pieces.append((absolute_left, absolute_right, "text"))
                continue
            split_points = sorted(set([0, *heading_positions, len(content)]))
            for local_left, local_right in zip(split_points, split_points[1:]):
                if local_right <= local_left:
                    continue
                piece_start = absolute_left + local_left
                piece_end = absolute_left + local_right
                if body[piece_start:piece_end].strip():
                    pieces.append((piece_start, piece_end, "heading_or_text"))

    section_stack: list[str] = []
    blocks: list[Block] = []
    for start, end, kind in sorted(pieces):
        text = body[start:end]
        level, title = _heading_title(text)
        block_kind = kind
        if level is not None:
            section_stack = section_stack[:level]
            while len(section_stack) < level:
                section_stack.append("")
            if level == 0:
                section_stack = [title]
            else:
                section_stack.append(title)
            block_kind = "heading"
        blocks.append(
            Block(
                start=start,
                end=end,
                text=text,
                section_path=tuple(item for item in section_stack if item),
                kind=block_kind,
            )
        )
    return blocks


def make_chunks(
    body: str,
    target_chars: int = 4000,
    max_chars: int = 6000,
    overlap_chars: int = 400,
    min_chars: int = 1500,
) -> list[dict[str, Any]]:
    blocks = latex_blocks(body)
    if not blocks and body.strip():
        blocks = [Block(0, len(body), body, tuple(), "text")]
    chunks: list[dict[str, Any]] = []
    current: list[Block] = []

    def emit(selected: list[Block]) -> None:
        if not selected:
            return
        start = selected[0].start
        end = selected[-1].end
        tex = body[start:end].strip()
        if not tex:
            return
        flags: list[str] = []
        if len(tex) > max_chars:
            flags.append("oversize_block")
        plain, render_flags = readable_tex(tex)
        flags.extend(render_flags)
        path = selected[0].section_path
        chunks.append(
            {
                "char_start": start,
                "char_end": end,
                "chunk_tex": tex,
                "chunk_text": plain,
                "section_path": list(path),
                "section_title": path[-1] if path else "",
                "quality_flags": sorted(set(flags)),
            }
        )

    for block in blocks:
        block_length = block.end - block.start
        if block_length > max_chars:
            emit(current)
            current = []
            emit([block])
            continue
        current_length = current[-1].end - current[0].start if current else 0
        starts_new_section = block.kind == "heading" and bool(current)
        would_exceed = current and block.end - current[0].start > max_chars
        target_reached = current_length >= min_chars and (
            starts_new_section or current_length >= target_chars
        )
        if current and (would_exceed or target_reached):
            previous = list(current)
            emit(previous)
            overlap: list[Block] = []
            overlap_size = 0
            for candidate in reversed(previous):
                candidate_size = candidate.end - candidate.start
                if overlap and overlap_size + candidate_size > overlap_chars:
                    break
                if candidate.kind == "heading" and overlap:
                    break
                overlap.insert(0, candidate)
                overlap_size += candidate_size
                if overlap_size >= overlap_chars:
                    break
            current = [] if starts_new_section else overlap
        current.append(block)
    emit(current)
    return chunks


def content_size_category(count: int) -> str:
    if count < 1000:
        return "n<1K"
    if count < 10_000:
        return "1K<n<10K"
    if count < 100_000:
        return "10K<n<100K"
    if count < 1_000_000:
        return "100K<n<1M"
    return "n>1M"


def batched(items: Iterable[Any], size: int) -> Iterable[list[Any]]:
    batch: list[Any] = []
    for item in items:
        batch.append(item)
        if len(batch) == size:
            yield batch
            batch = []
    if batch:
        yield batch