deepresearch-flow 0.3.0__py3-none-any.whl → 0.4.1__py3-none-any.whl

deepresearch_flow/paper/web/constants.py

@@ -0,0 +1,23 @@
+"""Constants for paper web UI."""
+
+from pathlib import Path
+
+# CDN URLs for external libraries
+CDN_ECHARTS = "https://cdn.jsdelivr.net/npm/echarts@5/dist/echarts.min.js"
+CDN_MERMAID = "https://cdn.jsdelivr.net/npm/mermaid@11/dist/mermaid.min.js"
+CDN_KATEX = "https://cdn.jsdelivr.net/npm/katex@0.16.27/dist/katex.min.css"
+CDN_KATEX_JS = "https://cdn.jsdelivr.net/npm/katex@0.16.27/dist/katex.min.js"
+CDN_KATEX_AUTO = "https://cdn.jsdelivr.net/npm/katex@0.16.27/dist/contrib/auto-render.min.js"
+
+# Use legacy builds to ensure `pdfjsLib` is available as a global.
+CDN_PDFJS = "https://cdn.jsdelivr.net/npm/pdfjs-dist@3.11.174/legacy/build/pdf.min.js"
+CDN_PDFJS_WORKER = "https://cdn.jsdelivr.net/npm/pdfjs-dist@3.11.174/legacy/build/pdf.worker.min.js"
+
+# PDF.js viewer configuration
+PDFJS_VIEWER_PATH = "/pdfjs/web/viewer.html"
+PDFJS_STATIC_DIR = Path(__file__).resolve().parent / "pdfjs"
+STATIC_DIR = Path(__file__).resolve().parent / "static"
+TEMPLATES_DIR = Path(__file__).resolve().parent / "templates"
+
+# Metadata
+REPO_URL = "https://github.com/nerdneilsfield/ai-deepresearch-flow"

deepresearch_flow/paper/web/filters.py

@@ -0,0 +1,255 @@
+"""Filter, query, and statistics utilities for paper web UI."""
+
+from __future__ import annotations
+
+from typing import Any
+
+from starlette.requests import Request
+
+from deepresearch_flow.paper.db_ops import PaperIndex
+from deepresearch_flow.paper.utils import stable_hash
+
+
+BOOL_TRUE = {"1", "true", "yes", "with", "has"}
+BOOL_FALSE = {"0", "false", "no", "without"}
+
+
+def tokenize_filter_query(text: str) -> list[str]:
+    """Tokenize a filter query string, respecting quoted phrases."""
+    out: list[str] = []
+    buf: list[str] = []
+    in_quote = False
+
+    for ch in text:
+        if ch == '"':
+            in_quote = not in_quote
+            continue
+        if not in_quote and ch.isspace():
+            token = "".join(buf).strip()
+            if token:
+                out.append(token)
+            buf = []
+            continue
+        buf.append(ch)
+
+    token = "".join(buf).strip()
+    if token:
+        out.append(token)
+    return out
+
+
+def normalize_presence_value(value: str) -> str | None:
+    """Normalize a presence filter value to 'with' or 'without'."""
+    token = value.strip().lower()
+    if token in BOOL_TRUE:
+        return "with"
+    if token in BOOL_FALSE:
+        return "without"
+    return None
+
+
+def parse_filter_query(text: str) -> dict[str, set[str]]:
+    """Parse a filter query string into structured filters."""
+    parsed = {
+        "pdf": set(),
+        "source": set(),
+        "summary": set(),
+        "translated": set(),
+        "template": set(),
+    }
+    for token in tokenize_filter_query(text):
+        if ":" not in token:
+            continue
+        key, raw_value = token.split(":", 1)
+        key = key.strip().lower()
+        raw_value = raw_value.strip()
+        if not raw_value:
+            continue
+        if key in {"tmpl", "template"}:
+            for part in raw_value.split(","):
+                tag = part.strip()
+                if tag:
+                    parsed["template"].add(tag.lower())
+            continue
+        if key in {"pdf", "source", "summary", "translated"}:
+            for part in raw_value.split(","):
+                normalized = normalize_presence_value(part)
+                if normalized:
+                    parsed[key].add(normalized)
+            continue
+        if key in {"has", "no"}:
+            targets = [part.strip().lower() for part in raw_value.split(",") if part.strip()]
+            for target in targets:
+                if target not in {"pdf", "source", "summary", "translated"}:
+                    continue
+                parsed[target].add("with" if key == "has" else "without")
+    return parsed
+
+
+def presence_filter(values: list[str]) -> set[str] | None:
+    """Convert a list of presence filter values to a normalized set."""
+    normalized = set()
+    for value in values:
+        token = normalize_presence_value(value)
+        if token:
+            normalized.add(token)
+    if not normalized or normalized == {"with", "without"}:
+        return None
+    return normalized
+
+
+def merge_filter_set(primary: set[str] | None, secondary: set[str] | None) -> set[str] | None:
+    """Merge two filter sets with AND logic."""
+    if not primary:
+        return secondary
+    if not secondary:
+        return primary
+    return primary & secondary
+
+
+def matches_presence(allowed: set[str] | None, has_value: bool) -> bool:
+    """Check if a value matches a presence filter."""
+    if not allowed:
+        return True
+    if has_value and "with" in allowed:
+        return True
+    if not has_value and "without" in allowed:
+        return True
+    return False
+
+
+def template_tag_map(index: PaperIndex) -> dict[str, str]:
+    """Create a mapping from lowercase template tags to display tags."""
+    return {tag.lower(): tag for tag in index.template_tags}
+
+
+def compute_counts(index: PaperIndex, ids: set[int]) -> dict[str, Any]:
+    """Compute statistics for a set of paper IDs."""
+    template_order = list(index.template_tags)
+    template_counts = {tag: 0 for tag in template_order}
+    pdf_count = 0
+    source_count = 0
+    summary_count = 0
+    translated_count = 0
+    total_count = 0
+    tag_map = template_tag_map(index)
+
+    for idx in ids:
+        paper = index.papers[idx]
+        if paper.get("_is_pdf_only"):
+            continue
+        total_count += 1
+        source_hash = str(paper.get("source_hash") or stable_hash(str(paper.get("source_path") or idx)))
+        has_source = source_hash in index.md_path_by_hash
+        has_pdf = source_hash in index.pdf_path_by_hash
+        has_summary = bool(paper.get("_has_summary"))
+        has_translated = bool(index.translated_md_by_hash.get(source_hash))
+        if has_source:
+            source_count += 1
+        if has_pdf:
+            pdf_count += 1
+        if has_summary:
+            summary_count += 1
+        if has_translated:
+            translated_count += 1
+        for tag_lc in paper.get("_template_tags_lc") or []:
+            display = tag_map.get(tag_lc)
+            if display:
+                template_counts[display] = template_counts.get(display, 0) + 1
+
+    return {
+        "total": total_count,
+        "pdf": pdf_count,
+        "source": source_count,
+        "summary": summary_count,
+        "translated": translated_count,
+        "templates": template_counts,
+        "template_order": template_order,
+    }
+
+
+def parse_filters(request: Request) -> dict[str, list[str] | str | int]:
+    """Parse filters from request query parameters."""
+    qp = request.query_params
+    page = int(qp.get("page", "1"))
+    page_size = int(qp.get("page_size", "30"))
+    page = max(1, page)
+    page_size = min(max(1, page_size), 200)
+
+    q = qp.get("q", "").strip()
+    filter_query = qp.get("fq", "").strip()
+    pdf_filters = [item for item in qp.getlist("pdf") if item]
+    source_filters = [item for item in qp.getlist("source") if item]
+    summary_filters = [item for item in qp.getlist("summary") if item]
+    translated_filters = [item for item in qp.getlist("translated") if item]
+    template_filters = [item for item in qp.getlist("template") if item]
+    sort_by = qp.get("sort_by", "").strip()
+    sort_dir = qp.get("sort_dir", "desc").strip().lower()
+    if sort_dir not in {"asc", "desc"}:
+        sort_dir = "desc"
+
+    return {
+        "page": page,
+        "page_size": page_size,
+        "q": q,
+        "filter_query": filter_query,
+        "pdf": pdf_filters,
+        "source": source_filters,
+        "summary": summary_filters,
+        "translated": translated_filters,
+        "template": template_filters,
+        "sort_by": sort_by,
+        "sort_dir": sort_dir,
+    }
+
+
+def safe_int(value: Any) -> int:
+    """Safely convert a value to int, returning 0 on error."""
+    try:
+        return int(value)
+    except (TypeError, ValueError):
+        return 0
+
+
+def normalize_sort_value(value: Any) -> str:
+    """Normalize a value for sorting."""
+    return str(value or "").strip().lower()
+
+
+def sorted_ids(
+    index: PaperIndex,
+    ids: set[int],
+    sort_by: str,
+    sort_dir: str,
+) -> list[int]:
+    """Sort paper IDs according to sort criteria."""
+    if not sort_by:
+        return [idx for idx in index.ordered_ids if idx in ids]
+    reverse = sort_dir == "desc"
+
+    def sort_value(idx: int) -> tuple[Any, bool]:
+        paper = index.papers[idx]
+        if sort_by == "year":
+            year = safe_int(paper.get("_year"))
+            month = safe_int(paper.get("_month"))
+            return (year, month), year == 0
+        if sort_by == "title":
+            value = normalize_sort_value(paper.get("paper_title"))
+            return value, not bool(value)
+        if sort_by == "venue":
+            value = normalize_sort_value(paper.get("_venue"))
+            return value, not bool(value)
+        if sort_by == "author":
+            authors = paper.get("_authors") or paper.get("authors") or []
+            value = normalize_sort_value(authors[0] if authors else "")
+            return value, not bool(value)
+        return normalize_sort_value(paper.get("paper_title")), False
+
+    def key_fn(idx: int) -> tuple[int, Any, int]:
+        value, missing = sort_value(idx)
+        missing_score = 0 if missing else 1
+        if not reverse:
+            missing_score = 1 if missing else 0
+        return (missing_score, value, idx)
+
+    return sorted(ids, key=key_fn, reverse=reverse)

deepresearch_flow/paper/web/handlers/__init__.py

@@ -0,0 +1,14 @@
+"""Route handlers for paper web UI."""
+
+from .api import api_papers, api_pdf, api_stats
+from .pages import index_page, paper_detail, robots_txt, stats_page
+
+__all__ = [
+    "api_papers",
+    "api_pdf",
+    "api_stats",
+    "index_page",
+    "paper_detail",
+    "robots_txt",
+    "stats_page",
+]

deepresearch_flow/paper/web/handlers/api.py

@@ -0,0 +1,217 @@
+"""API route handlers for paper web UI."""
+
+from __future__ import annotations
+
+from pathlib import Path
+from typing import Any
+
+from starlette.requests import Request
+from starlette.responses import FileResponse, JSONResponse, Response
+
+from deepresearch_flow.paper.db_ops import PaperIndex
+from deepresearch_flow.paper.utils import stable_hash
+from deepresearch_flow.paper.web.filters import (
+    compute_counts,
+    matches_presence,
+    merge_filter_set,
+    parse_filters,
+    parse_filter_query,
+    presence_filter,
+    sorted_ids,
+)
+from deepresearch_flow.paper.web.text import extract_summary_snippet, normalize_title, normalize_venue
+from deepresearch_flow.paper.web.query import Query, QueryTerm, parse_query
+
+
+def _ensure_under_roots(path: Path, roots: list[Path]) -> bool:
+    """Check if path is under one of the allowed root directories."""
+    resolved = path.resolve()
+    for root in roots:
+        try:
+            resolved.relative_to(root.resolve())
+            return True
+        except Exception:
+            continue
+    return False
+
+
+def _apply_query(index: PaperIndex, query: Query) -> set[int]:
+    """Apply a search query to the paper index and return matching IDs."""
+    all_ids = set(index.ordered_ids)
+
+    def ids_for_term(term: QueryTerm, base: set[int]) -> set[int]:
+        value_lc = term.value.lower()
+        if term.field is None:
+            return {idx for idx in base if value_lc in str(index.papers[idx].get("_search_lc") or "")}
+        if term.field == "title":
+            return {idx for idx in base if value_lc in str(index.papers[idx].get("_title_lc") or "")}
+        if term.field == "venue":
+            return {idx for idx in base if value_lc in str(index.papers[idx].get("_venue") or "").lower()}
+        if term.field == "tag":
+            exact = index.by_tag.get(value_lc)
+            if exact is not None:
+                return exact & base
+            return {idx for idx in base if any(value_lc in t.lower() for t in (index.papers[idx].get("_tags") or []))}
+        if term.field == "author":
+            exact = index.by_author.get(value_lc)
+            if exact is not None:
+                return exact & base
+            return {idx for idx in base if any(value_lc in a.lower() for a in (index.papers[idx].get("_authors") or []))}
+        if term.field == "month":
+            exact = index.by_month.get(value_lc)
+            if exact is not None:
+                return exact & base
+            return {idx for idx in base if value_lc == str(index.papers[idx].get("_month") or "").lower()}
+        if term.field == "year":
+            if ".." in term.value:
+                start_str, end_str = term.value.split("..", 1)
+                if start_str.strip().isdigit() and end_str.strip().isdigit():
+                    start = int(start_str.strip())
+                    end = int(end_str.strip())
+                    ids: set[int] = set()
+                    for y in range(min(start, end), max(start, end) + 1):
+                        ids |= index.by_year.get(str(y), set())
+                    return ids & base
+            exact = index.by_year.get(value_lc)
+            if exact is not None:
+                return exact & base
+            return {idx for idx in base if value_lc in str(index.papers[idx].get("_year") or "").lower()}
+        return set()
+
+    result: set[int] = set()
+    for group in query.groups:
+        group_ids = set(all_ids)
+        for term in group:
+            matched = ids_for_term(term, group_ids if not term.negated else all_ids)
+            if term.negated:
+                group_ids -= matched
+            else:
+                group_ids &= matched
+        result |= group_ids
+
+    return result
+
+
+async def api_papers(request: Request) -> JSONResponse:
+    """API endpoint for paper list with filtering, sorting, and pagination."""
+    index: PaperIndex = request.app.state.index
+    filters = parse_filters(request)
+    page = int(filters["page"])
+    page_size = int(filters["page_size"])
+    q = str(filters["q"])
+    filter_query = str(filters["filter_query"])
+    sort_by = str(filters["sort_by"]).strip().lower()
+    sort_dir = str(filters["sort_dir"]).strip().lower()
+    if sort_by not in {"year", "title", "venue", "author"}:
+        sort_by = ""
+    query = parse_query(q)
+    candidate = _apply_query(index, query)
+    filter_terms = parse_filter_query(filter_query)
+    pdf_filter = merge_filter_set(presence_filter(filters["pdf"]), presence_filter(list(filter_terms["pdf"])))
+    source_filter = merge_filter_set(
+        presence_filter(filters["source"]), presence_filter(list(filter_terms["source"]))
+    )
+    summary_filter = merge_filter_set(
+        presence_filter(filters["summary"]), presence_filter(list(filter_terms["summary"]))
+    )
+    translated_filter = merge_filter_set(
+        presence_filter(filters["translated"]), presence_filter(list(filter_terms["translated"]))
+    )
+    template_selected = {item.lower() for item in filters["template"] if item}
+    template_filter = merge_filter_set(
+        template_selected or None,
+        filter_terms["template"] or None,
+    )
+
+    if candidate:
+        filtered: set[int] = set()
+        for idx in candidate:
+            paper = index.papers[idx]
+            source_hash = str(paper.get("source_hash") or stable_hash(str(paper.get("source_path") or idx)))
+            has_source = source_hash in index.md_path_by_hash
+            has_pdf = source_hash in index.pdf_path_by_hash
+            has_summary = bool(paper.get("_has_summary"))
+            has_translated = bool(index.translated_md_by_hash.get(source_hash))
+            if not matches_presence(pdf_filter, has_pdf):
+                continue
+            if not matches_presence(source_filter, has_source):
+                continue
+            if not matches_presence(summary_filter, has_summary):
+                continue
+            if not matches_presence(translated_filter, has_translated):
+                continue
+            if template_filter:
+                tags = paper.get("_template_tags_lc") or []
+                if not any(tag in template_filter for tag in tags):
+                    continue
+            filtered.add(idx)
+        candidate = filtered
+    ordered = sorted_ids(index, candidate, sort_by, sort_dir)
+    total = len(ordered)
+    start = (page - 1) * page_size
+    end = min(start + page_size, total)
+    page_ids = ordered[start:end]
+    stats_payload = None
+    if page == 1:
+        all_ids = set(index.ordered_ids)
+        stats_payload = {
+            "all": compute_counts(index, all_ids),
+            "filtered": compute_counts(index, candidate),
+        }
+
+    items: list[dict[str, Any]] = []
+    for idx in page_ids:
+        paper = index.papers[idx]
+        source_hash = str(paper.get("source_hash") or stable_hash(str(paper.get("source_path") or idx)))
+        translations = index.translated_md_by_hash.get(source_hash, {})
+        translation_languages = sorted(translations.keys(), key=str.lower)
+        items.append(
+            {
+                "source_hash": source_hash,
+                "title": normalize_title(paper.get("paper_title") or ""),
+                "summary_excerpt": extract_summary_snippet(paper),
+                "summary_full": paper.get("summary") or "",
+                "authors": paper.get("_authors") or [],
+                "year": paper.get("_year") or "",
+                "month": paper.get("_month") or "",
+                "venue": normalize_venue(paper.get("_venue") or ""),
+                "tags": paper.get("_tags") or [],
+                "template_tags": paper.get("_template_tags") or [],
+                "has_source": source_hash in index.md_path_by_hash,
+                "has_translation": bool(translation_languages),
+                "has_pdf": source_hash in index.pdf_path_by_hash,
+                "has_summary": bool(paper.get("_has_summary")),
+                "is_pdf_only": bool(paper.get("_is_pdf_only")),
+                "translation_languages": translation_languages,
+            }
+        )
+
+    return JSONResponse(
+        {
+            "page": page,
+            "page_size": page_size,
+            "total": total,
+            "has_more": end < total,
+            "items": items,
+            "stats": stats_payload,
+        }
+    )
+
+
+async def api_stats(request: Request) -> JSONResponse:
+    """API endpoint for database statistics."""
+    index: PaperIndex = request.app.state.index
+    return JSONResponse(index.stats)
+
+
+async def api_pdf(request: Request) -> Response:
+    """API endpoint to serve PDF files."""
+    index: PaperIndex = request.app.state.index
+    source_hash = request.path_params["source_hash"]
+    pdf_path = index.pdf_path_by_hash.get(source_hash)
+    if not pdf_path:
+        return Response("PDF not found", status_code=404)
+    allowed_roots: list[Path] = request.app.state.pdf_roots
+    if allowed_roots and not _ensure_under_roots(pdf_path, allowed_roots):
+        return Response("Forbidden", status_code=403)
+    return FileResponse(pdf_path)