olifog.com
Embeddable hybrid graph-vector database in OCaml
graph vis paper demo
author
olifog
date
(Apr 30, 2026, 11:15 AM +0100)
commit
542c8413
542c841334aa13ce62c83a53b79957f217cb801b
parent
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694c6e3d8dd8c00004affe509fd7f3ea29aab849
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-45
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.gitignore
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.gitignore
···
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*.prof
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callgrind*
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datasets/
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demo/frontend/node_modules/
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demo/frontend/dist/
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bun.lock
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demo/backend/__pycache__/
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demo/backend/src/arxiv_demo/__pycache__/
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demo/backend/.venv/
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demo/backend/*.egg-info/
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demo/data/
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ingest_state.json
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*.pyc
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.mypy_cache/
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.ruff_cache/
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gvecdb.cap
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demo/README.md
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demo/README.md
···
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# arXiv Explorer
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full-stack demo for gvecdb, ingests arXiv papers as a graph with vector embeddings, provides a web UI for semantic search and interactive graph exploration
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## Architecture
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```
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[React/TypeScript frontend] <--REST--> [FastAPI backend] <--Cap'n Proto RPC--> [gvecdb-server]
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```
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## Data model
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**Nodes:** `paper` (title, abstract, year, arxiv_id, categories, doi, journal_ref, submitted_date, page_count, figure_count, version_count, comments), `author` (name, paper_count)
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**Edges:** `authored` (author -> paper, with position), `cites` (paper -> paper)
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**Vectors:** `abstract_embedding` and `title_embedding` (384-dim, all-MiniLM-L6-v2)
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## Setup
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### Prerequisites
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- OCaml with opam
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- Python 3.12+ with [uv](https://github.com/astral-sh/uv)
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- [Bun](https://bun.sh)
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- arXiv metadata snapshot (JSON lines from [Kaggle](https://www.kaggle.com/datasets/Cornell-University/arxiv))
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### 1. Start gvecdb-server
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```bash
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dune build
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dune exec server/main.exe -- --db demo/data/arxiv.db \
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--capnp-listen-address unix:/tmp/gvecdb.sock \
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--capnp-secret-key-file "" --capnp-disable-tls
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```
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### 2. Ingest data
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```bash
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cd demo/backend
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uv sync
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uv run python -m arxiv_demo.ingest \
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--arxiv-json ~/data/arxiv-metadata-oai-snapshot.json \
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--limit 50000 \
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--socket /tmp/gvecdb.sock
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```
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### 3. Start backend
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```bash
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cd demo/backend
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uv run uvicorn arxiv_demo.api:app --port 8000
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```
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### 4. Start frontend
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```bash
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cd demo/frontend
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bun install
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bun run dev
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```
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demo/backend/pyproject.toml
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demo/backend/pyproject.toml
···
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[project]
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name = "arxiv-demo"
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version = "0.1.0"
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description = "arXiv research paper explorer demo for gvecdb"
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requires-python = ">=3.12"
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dependencies = [
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"fastapi>=0.115",
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"uvicorn[standard]>=0.32",
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"pycapnp>=2.0.0",
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"sentence-transformers>=3.0",
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"pydantic>=2.9",
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"httpx>=0.28",
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"rich>=13.0",
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]
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[project.scripts]
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ingest = "arxiv_demo.ingest:main"
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[build-system]
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requires = ["hatchling"]
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build-backend = "hatchling.build"
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[tool.hatch.build.targets.wheel]
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packages = ["src/arxiv_demo"]
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[tool.ruff]
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line-length = 100
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target-version = "py312"
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[tool.ruff.lint]
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select = ["E", "F", "I", "N", "UP", "B", "A", "SIM", "TCH"]
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[tool.mypy]
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python_version = "3.12"
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strict = true
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warn_return_any = true
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warn_unused_configs = true
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demo/backend/schemas/arxiv.capnp
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demo/backend/schemas/arxiv.capnp
···
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@0xb8e3f4a1c2d5e6f7;
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struct Paper {
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title @0 :Text;
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abstract @1 :Text;
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year @2 :UInt16;
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arxivId @3 :Text;
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categories @4 :Text;
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doi @5 :Text;
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journalRef @6 :Text;
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submittedDate @7 :Text;
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pageCount @8 :UInt16;
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figureCount @9 :UInt16;
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versionCount @10 :UInt8;
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comments @11 :Text;
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}
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struct Author {
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name @0 :Text;
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paperCount @1 :UInt32;
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}
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struct Authored {
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position @0 :UInt8;
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}
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struct Cites {
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context @0 :Text;
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}
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demo/backend/schemas/gvecdb_api.capnp
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demo/backend/schemas/gvecdb_api.capnp
···
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../../../server/gvecdb_api.capnp
demo/backend/src/arxiv_demo/__init__.py
demo/backend/src/arxiv_demo/__init__.py
This is a binary file and will not be displayed.
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demo/backend/src/arxiv_demo/api.py
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demo/backend/src/arxiv_demo/api.py
···
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from __future__ import annotations
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import asyncio
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import logging
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import os
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from collections import deque
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from contextlib import asynccontextmanager
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from typing import AsyncIterator
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import capnp
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from fastapi import FastAPI, HTTPException, Query
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from fastapi.middleware.cors import CORSMiddleware
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from arxiv_demo.embeddings import embed_to_bytes
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from arxiv_demo.gvecdb_client import (
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EdgeInfo,
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GvecdbClient,
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KnnResult,
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METRIC_COSINE,
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PaperProps,
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)
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from arxiv_demo.models import (
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AuthorDetail,
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AuthorRef,
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GraphData,
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GraphEdge,
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GraphNode,
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PaperDetail,
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PaperRef,
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PaperSummary,
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SearchResponse,
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)
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logger = logging.getLogger(__name__)
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SOCKET_PATH = os.environ.get("GVECDB_SOCKET", "/tmp/gvecdb.sock")
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VALID_TAGS = {"abstract_embedding", "title_embedding"}
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MAX_NEIGHBOURHOOD_NODES = 200
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_client: GvecdbClient | None = None
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_client_lock = asyncio.Lock()
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async def get_client() -> GvecdbClient:
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global _client # noqa: PLW0603
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if _client is not None:
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return _client
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async with _client_lock:
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if _client is not None:
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return _client
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_client = await GvecdbClient.connect(SOCKET_PATH)
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return _client
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@asynccontextmanager
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async def lifespan(_app: FastAPI) -> AsyncIterator[None]:
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async with capnp.kj_loop(): # type: ignore[no-untyped-call]
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yield
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global _client # noqa: PLW0603
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_client = None
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app = FastAPI(title="arXiv gvecdb Demo", version="0.1.0", lifespan=lifespan)
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app.add_middleware(
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CORSMiddleware,
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allow_origins=["*"],
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allow_methods=["*"],
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allow_headers=["*"],
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)
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def _validate_tag(tag: str) -> None:
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if tag not in VALID_TAGS:
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raise HTTPException(
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status_code=400,
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detail=f"Invalid tag '{tag}'. Must be one of: {', '.join(sorted(VALID_TAGS))}",
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)
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def _paper_summary_fields(data: PaperProps) -> dict[str, str | int]:
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return {
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"doi": data["doi"],
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"journal_ref": data["journal_ref"],
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"submitted_date": data["submitted_date"],
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"page_count": data["page_count"],
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"figure_count": data["figure_count"],
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"version_count": data["version_count"],
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}
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async def _get_paper_authors(client: GvecdbClient, paper_node_id: int) -> list[AuthorRef]:
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inbound = await client.get_inbound_edges(paper_node_id)
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authored_edges = [e for e in inbound if e.edge_type == "authored"]
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if not authored_edges:
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return []
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async def _fetch_one(edge: EdgeInfo) -> AuthorRef | None:
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try:
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author_props, edge_props = await asyncio.gather(
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client.get_node_props(edge.src),
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client.get_edge_props(edge.id),
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)
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author_data = GvecdbClient.decode_author_props(author_props)
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authored_data = GvecdbClient.decode_authored_props(edge_props)
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return AuthorRef(
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node_id=edge.src,
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name=author_data["name"],
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position=authored_data["position"],
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)
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except RuntimeError:
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logger.warning("failed to fetch author for edge %d", edge.id)
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return None
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results = await asyncio.gather(*[_fetch_one(e) for e in authored_edges])
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authors = [a for a in results if a is not None]
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authors.sort(key=lambda a: a.position)
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return authors
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async def _get_paper_summary(
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client: GvecdbClient, node_id: int, score: float = 0.0
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) -> PaperSummary:
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props = await client.get_node_props(node_id)
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data = GvecdbClient.decode_paper_props(props)
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authors = await _get_paper_authors(client, node_id)
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return PaperSummary(
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node_id=node_id,
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arxiv_id=data["arxiv_id"],
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title=data["title"],
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authors=[a.name for a in authors],
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year=data["year"],
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categories=data["categories"],
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score=score,
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**_paper_summary_fields(data),
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)
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async def _fetch_paper_ref(client: GvecdbClient, node_id: int) -> PaperRef | None:
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try:
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props = await client.get_node_props(node_id)
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data = GvecdbClient.decode_paper_props(props)
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return PaperRef(
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node_id=node_id,
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arxiv_id=data["arxiv_id"],
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title=data["title"],
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year=data["year"],
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)
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except RuntimeError:
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logger.warning("failed to fetch paper ref for node %d", node_id)
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return None
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def _apply_filters(
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papers: list[PaperSummary],
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year_min: int | None,
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year_max: int | None,
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category: str | None,
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published_only: bool,
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) -> list[PaperSummary]:
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result = papers
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if year_min is not None:
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result = [p for p in result if p.year >= year_min]
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if year_max is not None:
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result = [p for p in result if p.year <= year_max]
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if category:
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cats = set(category.split(","))
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result = [p for p in result if set(p.categories.split()) & cats]
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if published_only:
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result = [p for p in result if p.doi]
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return result
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@app.get("/api/search", response_model=SearchResponse)
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async def search(
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q: str,
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k: int = Query(default=20, ge=1, le=100),
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tag: str = Query(default="abstract_embedding"),
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year_min: int | None = Query(default=None),
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year_max: int | None = Query(default=None),
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category: str | None = Query(default=None),
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published_only: bool = Query(default=False),
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) -> SearchResponse:
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_validate_tag(tag)
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client = await get_client()
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query_vec = await asyncio.to_thread(embed_to_bytes, q)
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# overfetch when filtering so we still return k results after post-filter
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fetch_k = k * 3 if (year_min or year_max or category or published_only) else k
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results = await client.knn_hnsw(
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vector_tag=tag,
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query=query_vec,
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k=min(fetch_k, 100),
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ef=max(fetch_k * 4, 64),
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metric=METRIC_COSINE,
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)
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async def _fetch_result(r: KnnResult) -> PaperSummary | None:
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try:
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return await _get_paper_summary(client, r.owner_id, score=1.0 - r.distance)
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except RuntimeError:
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logger.warning("failed to fetch paper for knn result owner %d", r.owner_id)
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return None
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summaries = await asyncio.gather(*[_fetch_result(r) for r in results])
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papers = [p for p in summaries if p is not None]
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papers = _apply_filters(papers, year_min, year_max, category, published_only)
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return SearchResponse(query=q, tag=tag, results=papers[:k])
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@app.get("/api/paper/by-node/{node_id}", response_model=PaperDetail)
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async def get_paper_by_node(node_id: int) -> PaperDetail:
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client = await get_client()
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try:
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props = await client.get_node_props(node_id)
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except RuntimeError as e:
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raise HTTPException(status_code=404, detail=str(e)) from e
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data = GvecdbClient.decode_paper_props(props)
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authors, outbound, inbound = await asyncio.gather(
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_get_paper_authors(client, node_id),
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client.get_outbound_edges(node_id),
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client.get_inbound_edges(node_id),
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)
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cite_edges = [e for e in outbound if e.edge_type == "cites"]
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cited_by_edges = [e for e in inbound if e.edge_type == "cites"]
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all_refs = await asyncio.gather(
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*[_fetch_paper_ref(client, e.dst) for e in cite_edges],
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*[_fetch_paper_ref(client, e.src) for e in cited_by_edges],
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)
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n_cite = len(cite_edges)
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cites = [r for r in all_refs[:n_cite] if r is not None]
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cited_by = [r for r in all_refs[n_cite:] if r is not None]
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return PaperDetail(
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node_id=node_id,
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arxiv_id=data["arxiv_id"],
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title=data["title"],
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abstract=data["abstract"],
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authors=authors,
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year=data["year"],
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categories=data["categories"],
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cites=cites,
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cited_by=cited_by,
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doi=data["doi"],
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journal_ref=data["journal_ref"],
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submitted_date=data["submitted_date"],
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page_count=data["page_count"],
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figure_count=data["figure_count"],
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version_count=data["version_count"],
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comments=data["comments"],
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)
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@app.get("/api/author/{node_id}", response_model=AuthorDetail)
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async def get_author(node_id: int) -> AuthorDetail:
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client = await get_client()
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try:
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props = await client.get_node_props(node_id)
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except RuntimeError as e:
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raise HTTPException(status_code=404, detail=str(e)) from e
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+
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data = GvecdbClient.decode_author_props(props)
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outbound = await client.get_outbound_edges(node_id)
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authored_edges = [e for e in outbound if e.edge_type == "authored"]
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+
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results = await asyncio.gather(
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*[_fetch_paper_ref(client, e.dst) for e in authored_edges]
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)
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papers = [p for p in results if p is not None]
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+
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return AuthorDetail(
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node_id=node_id,
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name=data["name"],
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paper_count=data["paper_count"],
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+
papers=papers,
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+
)
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+
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+
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@app.get("/api/graph/neighbourhood/{node_id}", response_model=GraphData)
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async def get_neighbourhood(
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+
node_id: int,
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depth: int = Query(default=1, ge=1, le=3),
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) -> GraphData:
291
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client = await get_client()
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+
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visited_nodes: dict[int, GraphNode] = {}
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visited_edges: dict[int, GraphEdge] = {}
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queue: deque[tuple[int, int]] = deque([(node_id, 0)])
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seen: set[int] = {node_id}
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+
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+
while queue:
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if len(visited_nodes) >= MAX_NEIGHBOURHOOD_NODES:
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+
break
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+
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current_id, current_depth = queue.popleft()
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+
304
+
if current_id not in visited_nodes:
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+
try:
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+
info = await client.get_node_info(current_id)
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+
props = await client.get_node_props(current_id)
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+
if info.node_type == "paper":
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data = GvecdbClient.decode_paper_props(props)
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visited_nodes[current_id] = GraphNode(
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id=current_id,
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type="paper",
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label=data["title"][:60],
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metadata={
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"year": data["year"],
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"arxiv_id": data["arxiv_id"],
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"categories": data["categories"],
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},
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)
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elif info.node_type == "author":
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data = GvecdbClient.decode_author_props(props)
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visited_nodes[current_id] = GraphNode(
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id=current_id,
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type="author",
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label=data["name"],
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metadata={"paper_count": data["paper_count"]},
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)
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except RuntimeError:
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logger.warning("failed to fetch node %d in neighbourhood", current_id)
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+
continue
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+
332
+
if current_depth >= depth:
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+
continue
334
+
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+
try:
336
+
outbound, inbound = await asyncio.gather(
337
+
client.get_outbound_edges(current_id),
338
+
client.get_inbound_edges(current_id),
339
+
)
340
+
except RuntimeError:
341
+
logger.warning("failed to fetch edges for node %d", current_id)
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+
continue
343
+
344
+
for edge in outbound + inbound:
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+
if edge.id not in visited_edges:
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+
visited_edges[edge.id] = GraphEdge(
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id=edge.id, source=edge.src, target=edge.dst, type=edge.edge_type
348
+
)
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+
350
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neighbour = edge.dst if edge.src == current_id else edge.src
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+
if neighbour not in seen:
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seen.add(neighbour)
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+
queue.append((neighbour, current_depth + 1))
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+
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+
all_node_ids = set(visited_nodes.keys())
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+
filtered_edges = [
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+
e for e in visited_edges.values() if e.source in all_node_ids and e.target in all_node_ids
358
+
]
359
+
360
+
return GraphData(nodes=list(visited_nodes.values()), edges=filtered_edges)
361
+
362
+
363
+
@app.get("/api/similar/{node_id}", response_model=list[PaperSummary])
364
+
async def get_similar(
365
+
node_id: int,
366
+
k: int = Query(default=10, ge=1, le=50),
367
+
tag: str = Query(default="abstract_embedding"),
368
+
) -> list[PaperSummary]:
369
+
_validate_tag(tag)
370
+
client = await get_client()
371
+
372
+
props = await client.get_node_props(node_id)
373
+
data = GvecdbClient.decode_paper_props(props)
374
+
375
+
text = data["abstract"] if tag == "abstract_embedding" else data["title"]
376
+
query_vec = await asyncio.to_thread(embed_to_bytes, text)
377
+
378
+
results = await client.knn_hnsw(
379
+
vector_tag=tag, query=query_vec, k=k + 1, ef=max(k * 4, 64), metric=METRIC_COSINE
380
+
)
381
+
382
+
filtered = [r for r in results if r.owner_id != node_id][:k]
383
+
384
+
async def _fetch_similar(r: KnnResult) -> PaperSummary | None:
385
+
try:
386
+
return await _get_paper_summary(client, r.owner_id, score=1.0 - r.distance)
387
+
except RuntimeError:
388
+
logger.warning("failed to fetch similar paper %d", r.owner_id)
389
+
return None
390
+
391
+
summaries = await asyncio.gather(*[_fetch_similar(r) for r in filtered])
392
+
return [p for p in summaries if p is not None]
+41
demo/backend/src/arxiv_demo/embeddings.py
+41
demo/backend/src/arxiv_demo/embeddings.py
···
1
+
from __future__ import annotations
2
+
3
+
from typing import TYPE_CHECKING
4
+
5
+
from arxiv_demo.gvecdb_client import pack_float32_vector
6
+
7
+
if TYPE_CHECKING:
8
+
from sentence_transformers import SentenceTransformer
9
+
10
+
MODEL_NAME = "all-MiniLM-L6-v2"
11
+
EMBEDDING_DIM = 384
12
+
13
+
_model: SentenceTransformer | None = None
14
+
15
+
16
+
def get_model() -> SentenceTransformer:
17
+
global _model # noqa: PLW0603
18
+
if _model is None:
19
+
from sentence_transformers import SentenceTransformer
20
+
21
+
_model = SentenceTransformer(MODEL_NAME)
22
+
return _model
23
+
24
+
25
+
def embed_texts(texts: list[str]) -> list[list[float]]:
26
+
model = get_model()
27
+
embeddings = model.encode(texts, normalize_embeddings=True, show_progress_bar=False)
28
+
return [row.tolist() for row in embeddings]
29
+
30
+
31
+
def embed_single(text: str) -> list[float]:
32
+
return embed_texts([text])[0]
33
+
34
+
35
+
def embed_to_bytes(text: str) -> bytes:
36
+
return pack_float32_vector(embed_single(text))
37
+
38
+
39
+
def embed_batch_to_bytes(texts: list[str]) -> list[bytes]:
40
+
vecs = embed_texts(texts)
41
+
return [pack_float32_vector(v) for v in vecs]
+357
demo/backend/src/arxiv_demo/gvecdb_client.py
+357
demo/backend/src/arxiv_demo/gvecdb_client.py
···
1
+
from __future__ import annotations
2
+
3
+
import struct
4
+
from pathlib import Path
5
+
from typing import Any, TypedDict
6
+
7
+
import capnp
8
+
9
+
10
+
class PaperProps(TypedDict):
11
+
title: str
12
+
abstract: str
13
+
year: int
14
+
arxiv_id: str
15
+
categories: str
16
+
doi: str
17
+
journal_ref: str
18
+
submitted_date: str
19
+
page_count: int
20
+
figure_count: int
21
+
version_count: int
22
+
comments: str
23
+
24
+
25
+
class AuthorProps(TypedDict):
26
+
name: str
27
+
paper_count: int
28
+
29
+
30
+
class AuthoredProps(TypedDict):
31
+
position: int
32
+
33
+
34
+
SCHEMAS_DIR = Path(__file__).resolve().parent.parent.parent / "schemas"
35
+
API_SCHEMA = SCHEMAS_DIR / "gvecdb_api.capnp"
36
+
ARXIV_SCHEMA = SCHEMAS_DIR / "arxiv.capnp"
37
+
38
+
gvecdb_api = capnp.load(str(API_SCHEMA)) # type: ignore[no-untyped-call]
39
+
arxiv_schema = capnp.load(str(ARXIV_SCHEMA)) # type: ignore[no-untyped-call]
40
+
41
+
NODE_SCHEMA_KIND = 0
42
+
EDGE_SCHEMA_KIND = 1
43
+
44
+
METRIC_EUCLIDEAN = 0
45
+
METRIC_COSINE = 1
46
+
METRIC_DOT_PRODUCT = 2
47
+
48
+
49
+
class EdgeInfo:
50
+
__slots__ = ("id", "edge_type", "src", "dst")
51
+
52
+
def __init__(self, id: int, edge_type: str, src: int, dst: int) -> None:
53
+
self.id = id
54
+
self.edge_type = edge_type
55
+
self.src = src
56
+
self.dst = dst
57
+
58
+
59
+
class NodeInfo:
60
+
__slots__ = ("id", "node_type")
61
+
62
+
def __init__(self, id: int, node_type: str) -> None:
63
+
self.id = id
64
+
self.node_type = node_type
65
+
66
+
67
+
class KnnResult:
68
+
__slots__ = ("vector_id", "owner_kind", "owner_id", "vector_tag", "distance")
69
+
70
+
def __init__(
71
+
self,
72
+
vector_id: int,
73
+
owner_kind: int,
74
+
owner_id: int,
75
+
vector_tag: str,
76
+
distance: float,
77
+
) -> None:
78
+
self.vector_id = vector_id
79
+
self.owner_kind = owner_kind
80
+
self.owner_id = owner_id
81
+
self.vector_tag = vector_tag
82
+
self.distance = distance
83
+
84
+
85
+
def _check_error(result: Any) -> None:
86
+
err = result.error
87
+
if err:
88
+
raise RuntimeError(f"gvecdb error: {err}")
89
+
90
+
91
+
def pack_float32_vector(vec: list[float]) -> bytes:
92
+
return struct.pack(f"<{len(vec)}f", *vec)
93
+
94
+
95
+
class GvecdbClient:
96
+
def __init__(self, client: Any, connection: Any) -> None:
97
+
self._client = client
98
+
self._connection = connection
99
+
100
+
@classmethod
101
+
async def connect(cls, socket_path: str) -> GvecdbClient:
102
+
conn = await capnp.AsyncIoStream.create_unix_connection( # type: ignore[no-untyped-call]
103
+
path=socket_path
104
+
)
105
+
tpc = capnp.TwoPartyClient(conn) # type: ignore[no-untyped-call]
106
+
bootstrap: Any = tpc.bootstrap().cast_as(gvecdb_api.Gvecdb) # type: ignore[no-untyped-call]
107
+
return cls(bootstrap, conn)
108
+
109
+
async def register_schemas(self) -> None:
110
+
schema_data = ARXIV_SCHEMA.read_bytes()
111
+
registrations = [
112
+
(NODE_SCHEMA_KIND, "paper", "Paper"),
113
+
(NODE_SCHEMA_KIND, "author", "Author"),
114
+
(EDGE_SCHEMA_KIND, "authored", "Authored"),
115
+
(EDGE_SCHEMA_KIND, "cites", "Cites"),
116
+
]
117
+
for kind, type_name, struct_name in registrations:
118
+
result = await self._client.registerSchemaFromCapnp(
119
+
kind=kind,
120
+
typeName=type_name,
121
+
capnpSchema=schema_data,
122
+
structName=struct_name,
123
+
)
124
+
_check_error(result)
125
+
126
+
async def create_node(self, node_type: str) -> int:
127
+
result = await self._client.createNode(nodeType=node_type)
128
+
_check_error(result)
129
+
return int(result.nodeId)
130
+
131
+
async def delete_node(self, node_id: int) -> None:
132
+
result = await self._client.deleteNode(nodeId=node_id)
133
+
_check_error(result)
134
+
135
+
async def get_node_info(self, node_id: int) -> NodeInfo:
136
+
result = await self._client.getNodeInfo(nodeId=node_id)
137
+
_check_error(result)
138
+
info = result.info
139
+
return NodeInfo(id=int(info.id), node_type=str(info.nodeType))
140
+
141
+
async def create_edge(self, edge_type: str, src: int, dst: int) -> int:
142
+
result = await self._client.createEdge(edgeType=edge_type, src=src, dst=dst)
143
+
_check_error(result)
144
+
return int(result.edgeId)
145
+
146
+
async def get_edge_info(self, edge_id: int) -> EdgeInfo:
147
+
result = await self._client.getEdgeInfo(edgeId=edge_id)
148
+
_check_error(result)
149
+
info = result.info
150
+
return EdgeInfo(
151
+
id=int(info.id),
152
+
edge_type=str(info.edgeType),
153
+
src=int(info.src),
154
+
dst=int(info.dst),
155
+
)
156
+
157
+
async def set_node_props(self, node_id: int, node_type: str, props_bytes: bytes) -> None:
158
+
result = await self._client.setNodeProps(
159
+
nodeId=node_id, nodeType=node_type, props=props_bytes
160
+
)
161
+
_check_error(result)
162
+
163
+
async def get_node_props(self, node_id: int) -> bytes:
164
+
result = await self._client.getNodeProps(nodeId=node_id)
165
+
_check_error(result)
166
+
return bytes(result.props)
167
+
168
+
async def set_edge_props(self, edge_id: int, edge_type: str, props_bytes: bytes) -> None:
169
+
result = await self._client.setEdgeProps(
170
+
edgeId=edge_id, edgeType=edge_type, props=props_bytes
171
+
)
172
+
_check_error(result)
173
+
174
+
async def get_edge_props(self, edge_id: int) -> bytes:
175
+
result = await self._client.getEdgeProps(edgeId=edge_id)
176
+
_check_error(result)
177
+
return bytes(result.props)
178
+
179
+
async def read_node_field(self, node_id: int, field_name: str) -> bytes:
180
+
result = await self._client.readNodeField(nodeId=node_id, fieldName=field_name)
181
+
_check_error(result)
182
+
return bytes(result.value)
183
+
184
+
async def read_edge_field(self, edge_id: int, field_name: str) -> bytes:
185
+
result = await self._client.readEdgeField(edgeId=edge_id, fieldName=field_name)
186
+
_check_error(result)
187
+
return bytes(result.value)
188
+
189
+
async def get_outbound_edges(self, node_id: int) -> list[EdgeInfo]:
190
+
result = await self._client.getOutboundEdges(nodeId=node_id)
191
+
_check_error(result)
192
+
return [
193
+
EdgeInfo(id=int(e.id), edge_type=str(e.edgeType), src=int(e.src), dst=int(e.dst))
194
+
for e in result.edges
195
+
]
196
+
197
+
async def get_inbound_edges(self, node_id: int) -> list[EdgeInfo]:
198
+
result = await self._client.getInboundEdges(nodeId=node_id)
199
+
_check_error(result)
200
+
return [
201
+
EdgeInfo(id=int(e.id), edge_type=str(e.edgeType), src=int(e.src), dst=int(e.dst))
202
+
for e in result.edges
203
+
]
204
+
205
+
async def create_vector(
206
+
self,
207
+
node_id: int,
208
+
vector_tag: str,
209
+
data: bytes,
210
+
*,
211
+
normalise: bool = False,
212
+
metric: int = METRIC_COSINE,
213
+
) -> int:
214
+
result = await self._client.createVector(
215
+
nodeId=node_id,
216
+
vectorTag=vector_tag,
217
+
data=data,
218
+
normalize=normalise,
219
+
metric=metric,
220
+
)
221
+
_check_error(result)
222
+
return int(result.vectorId)
223
+
224
+
async def knn_hnsw(
225
+
self,
226
+
vector_tag: str,
227
+
query: bytes,
228
+
k: int = 10,
229
+
ef: int = 64,
230
+
metric: int = METRIC_COSINE,
231
+
) -> list[KnnResult]:
232
+
result = await self._client.knnHnsw(
233
+
vectorTag=vector_tag, query=query, k=k, ef=ef, metric=metric
234
+
)
235
+
_check_error(result)
236
+
return [
237
+
KnnResult(
238
+
vector_id=int(r.vectorId),
239
+
owner_kind=int(r.ownerKind),
240
+
owner_id=int(r.ownerId),
241
+
vector_tag=str(r.vectorTag),
242
+
distance=float(r.distance),
243
+
)
244
+
for r in result.results
245
+
]
246
+
247
+
@staticmethod
248
+
def build_paper_props(
249
+
title: str,
250
+
abstract: str,
251
+
year: int,
252
+
arxiv_id: str,
253
+
categories: str,
254
+
doi: str = "",
255
+
journal_ref: str = "",
256
+
submitted_date: str = "",
257
+
page_count: int = 0,
258
+
figure_count: int = 0,
259
+
version_count: int = 0,
260
+
comments: str = "",
261
+
) -> bytes:
262
+
paper = arxiv_schema.Paper.new_message() # type: ignore[no-untyped-call]
263
+
paper.title = title
264
+
paper.abstract = abstract
265
+
paper.year = year
266
+
paper.arxivId = arxiv_id
267
+
paper.categories = categories
268
+
paper.doi = doi
269
+
paper.journalRef = journal_ref
270
+
paper.submittedDate = submitted_date
271
+
paper.pageCount = page_count
272
+
paper.figureCount = figure_count
273
+
paper.versionCount = version_count
274
+
paper.comments = comments
275
+
return paper.to_bytes() # type: ignore[no-any-return]
276
+
277
+
@staticmethod
278
+
def build_author_props(name: str, paper_count: int) -> bytes:
279
+
author = arxiv_schema.Author.new_message() # type: ignore[no-untyped-call]
280
+
author.name = name
281
+
author.paperCount = paper_count
282
+
return author.to_bytes() # type: ignore[no-any-return]
283
+
284
+
@staticmethod
285
+
def build_authored_props(position: int) -> bytes:
286
+
authored = arxiv_schema.Authored.new_message() # type: ignore[no-untyped-call]
287
+
authored.position = position
288
+
return authored.to_bytes() # type: ignore[no-any-return]
289
+
290
+
@staticmethod
291
+
def build_cites_props(context: str = "") -> bytes:
292
+
cites = arxiv_schema.Cites.new_message() # type: ignore[no-untyped-call]
293
+
cites.context = context
294
+
return cites.to_bytes() # type: ignore[no-any-return]
295
+
296
+
@staticmethod
297
+
def decode_paper_props(data: bytes) -> PaperProps:
298
+
with arxiv_schema.Paper.from_bytes(data) as paper: # type: ignore[no-untyped-call]
299
+
return PaperProps(
300
+
title=str(paper.title),
301
+
abstract=str(paper.abstract),
302
+
year=int(paper.year),
303
+
arxiv_id=str(paper.arxivId),
304
+
categories=str(paper.categories),
305
+
doi=str(paper.doi),
306
+
journal_ref=str(paper.journalRef),
307
+
submitted_date=str(paper.submittedDate),
308
+
page_count=int(paper.pageCount),
309
+
figure_count=int(paper.figureCount),
310
+
version_count=int(paper.versionCount),
311
+
comments=str(paper.comments),
312
+
)
313
+
314
+
@staticmethod
315
+
def decode_author_props(data: bytes) -> AuthorProps:
316
+
with arxiv_schema.Author.from_bytes(data) as author: # type: ignore[no-untyped-call]
317
+
return AuthorProps(
318
+
name=str(author.name),
319
+
paper_count=int(author.paperCount),
320
+
)
321
+
322
+
@staticmethod
323
+
def decode_authored_props(data: bytes) -> AuthoredProps:
324
+
with arxiv_schema.Authored.from_bytes(data) as authored: # type: ignore[no-untyped-call]
325
+
return AuthoredProps(position=int(authored.position))
326
+
327
+
@staticmethod
328
+
def decode_field_value(data: bytes) -> str | int | float | bool | None:
329
+
if not data:
330
+
return None
331
+
tag = data[0]
332
+
payload = data[1:]
333
+
if tag == 0:
334
+
return None
335
+
if tag == 1:
336
+
return bool(payload[0]) if payload else False
337
+
if tag == 2:
338
+
# signed int8
339
+
v = payload[0] if payload else 0
340
+
return v - 256 if v > 127 else v
341
+
if tag == 6:
342
+
return payload[0] if payload else 0
343
+
if tag in (3, 7):
344
+
return struct.unpack("<H", payload[:2])[0] if len(payload) >= 2 else 0
345
+
if tag in (4, 8):
346
+
return struct.unpack("<i", payload[:4])[0] if len(payload) >= 4 else 0
347
+
if tag in (5, 9):
348
+
return struct.unpack("<q", payload[:8])[0] if len(payload) >= 8 else 0
349
+
if tag == 10:
350
+
return struct.unpack("<f", payload[:4])[0] if len(payload) >= 4 else 0.0
351
+
if tag == 11:
352
+
return struct.unpack("<d", payload[:8])[0] if len(payload) >= 8 else 0.0
353
+
if tag == 12:
354
+
return payload.decode("utf-8", errors="replace")
355
+
if tag == 13:
356
+
return payload.hex()
357
+
return None
+503
demo/backend/src/arxiv_demo/ingest.py
+503
demo/backend/src/arxiv_demo/ingest.py
···
1
+
from __future__ import annotations
2
+
3
+
import argparse
4
+
import asyncio
5
+
import json
6
+
import re
7
+
import sys
8
+
from collections.abc import Coroutine
9
+
from email.utils import parsedate_to_datetime
10
+
from pathlib import Path
11
+
from typing import TypedDict
12
+
13
+
import capnp
14
+
import httpx
15
+
from rich.console import Console
16
+
from rich.progress import BarColumn, MofNCompleteColumn, Progress, TextColumn, TimeElapsedColumn
17
+
18
+
from arxiv_demo.embeddings import embed_batch_to_bytes
19
+
from arxiv_demo.gvecdb_client import METRIC_COSINE, GvecdbClient
20
+
21
+
22
+
class ArxivRecord(TypedDict):
23
+
id: str
24
+
title: str
25
+
abstract: str
26
+
authors: list[str]
27
+
categories: str
28
+
year: int
29
+
doi: str
30
+
journal_ref: str
31
+
submitted_date: str
32
+
page_count: int
33
+
figure_count: int
34
+
version_count: int
35
+
comments: str
36
+
37
+
38
+
console = Console()
39
+
40
+
EMBED_BATCH_SIZE = 64
41
+
RPC_CONCURRENCY = 32
42
+
MIN_YEAR = 2020
43
+
44
+
OPENALEX_BATCH_SIZE = 50
45
+
OPENALEX_EMAIL = "demo@gvecdb.dev"
46
+
47
+
_RE_PAGES = re.compile(r"(\d+)\s*pages?", re.IGNORECASE)
48
+
_RE_FIGURES = re.compile(r"(\d+)\s*figures?", re.IGNORECASE)
49
+
50
+
51
+
def parse_authors(authors_parsed: list[list[str]]) -> list[str]:
52
+
names: list[str] = []
53
+
for entry in authors_parsed:
54
+
if not entry:
55
+
continue
56
+
last = entry[0].strip() if len(entry) > 0 else ""
57
+
first = entry[1].strip() if len(entry) > 1 else ""
58
+
if last:
59
+
name = f"{first} {last}".strip() if first else last
60
+
names.append(name)
61
+
return names
62
+
63
+
64
+
def parse_authors_string(authors_str: str) -> list[str]:
65
+
return [a.strip() for a in authors_str.split(",") if a.strip()]
66
+
67
+
68
+
def extract_year(update_date: str) -> int:
69
+
m = re.match(r"(\d{4})", update_date)
70
+
return int(m.group(1)) if m else 0
71
+
72
+
73
+
def extract_page_count(comments: str) -> int:
74
+
m = _RE_PAGES.search(comments)
75
+
return min(int(m.group(1)), 65535) if m else 0
76
+
77
+
78
+
def extract_figure_count(comments: str) -> int:
79
+
m = _RE_FIGURES.search(comments)
80
+
return min(int(m.group(1)), 65535) if m else 0
81
+
82
+
83
+
def extract_submitted_date(versions: list[dict[str, str]]) -> str:
84
+
if not versions:
85
+
return ""
86
+
created = versions[0].get("created", "")
87
+
if not created:
88
+
return ""
89
+
try:
90
+
dt = parsedate_to_datetime(created)
91
+
return dt.strftime("%Y-%m-%d")
92
+
except (ValueError, TypeError):
93
+
return ""
94
+
95
+
96
+
def load_papers(
97
+
json_path: Path,
98
+
limit: int,
99
+
categories: set[str],
100
+
) -> list[ArxivRecord]:
101
+
papers: list[ArxivRecord] = []
102
+
console.print(f"[bold]Loading papers from {json_path}...[/bold]")
103
+
104
+
with open(json_path) as f:
105
+
for line in f:
106
+
if len(papers) >= limit:
107
+
break
108
+
try:
109
+
record = json.loads(line)
110
+
except json.JSONDecodeError:
111
+
continue
112
+
113
+
cats = record.get("categories", "")
114
+
cat_set = set(cats.split())
115
+
if not cat_set & categories:
116
+
continue
117
+
118
+
year = extract_year(record.get("update_date", ""))
119
+
if year < MIN_YEAR:
120
+
continue
121
+
122
+
if "authors_parsed" in record:
123
+
authors = parse_authors(record["authors_parsed"])
124
+
else:
125
+
authors = parse_authors_string(record.get("authors", ""))
126
+
127
+
if not authors:
128
+
continue
129
+
130
+
abstract = record.get("abstract", "").strip().replace("\n", " ")
131
+
title = record.get("title", "").strip().replace("\n", " ")
132
+
if not abstract or not title:
133
+
continue
134
+
135
+
comments_raw = record.get("comments", "") or ""
136
+
versions = record.get("versions", [])
137
+
138
+
papers.append(
139
+
ArxivRecord(
140
+
id=record["id"],
141
+
title=title,
142
+
abstract=abstract,
143
+
authors=authors,
144
+
categories=cats,
145
+
year=year,
146
+
doi=record.get("doi", "") or "",
147
+
journal_ref=record.get("journal-ref", "") or "",
148
+
submitted_date=extract_submitted_date(versions),
149
+
page_count=extract_page_count(comments_raw),
150
+
figure_count=extract_figure_count(comments_raw),
151
+
version_count=min(len(versions), 255),
152
+
comments=comments_raw.strip().replace("\n", " "),
153
+
)
154
+
)
155
+
156
+
console.print(f"[green]Loaded {len(papers)} papers[/green]")
157
+
return papers
158
+
159
+
160
+
async def fetch_citations(
161
+
arxiv_ids: list[str],
162
+
progress: Progress,
163
+
) -> dict[str, list[str]]:
164
+
known_arxiv = set(arxiv_ids)
165
+
# openalex id -> arxiv id, for papers in our dataset
166
+
oa_to_arxiv: dict[str, str] = {}
167
+
# openalex id -> list of referenced openalex ids
168
+
oa_refs: dict[str, list[str]] = {}
169
+
170
+
task = progress.add_task("Fetching citations from OpenAlex", total=len(arxiv_ids))
171
+
172
+
async with httpx.AsyncClient(
173
+
timeout=30,
174
+
headers={"User-Agent": f"gvecdb-demo/0.1 (mailto:{OPENALEX_EMAIL})"},
175
+
) as http:
176
+
for batch_start in range(0, len(arxiv_ids), OPENALEX_BATCH_SIZE):
177
+
batch = arxiv_ids[batch_start : batch_start + OPENALEX_BATCH_SIZE]
178
+
doi_filter = "|".join(
179
+
f"https://doi.org/10.48550/arXiv.{aid}" for aid in batch
180
+
)
181
+
182
+
try:
183
+
resp = await http.get(
184
+
"https://api.openalex.org/works",
185
+
params={
186
+
"filter": f"doi:{doi_filter}",
187
+
"select": "id,ids,referenced_works",
188
+
"per_page": str(OPENALEX_BATCH_SIZE),
189
+
},
190
+
)
191
+
resp.raise_for_status()
192
+
data = resp.json()
193
+
except (httpx.HTTPError, json.JSONDecodeError):
194
+
progress.advance(task, len(batch))
195
+
continue
196
+
197
+
for work in data.get("results", []):
198
+
oa_id = work.get("id", "")
199
+
doi = work.get("ids", {}).get("doi", "")
200
+
lower_doi = doi.lower()
201
+
if "10.48550/arxiv." in lower_doi:
202
+
arxiv_id = lower_doi.split("10.48550/arxiv.")[-1]
203
+
if arxiv_id in known_arxiv:
204
+
oa_to_arxiv[oa_id] = arxiv_id
205
+
206
+
refs = work.get("referenced_works", [])
207
+
if refs:
208
+
oa_refs[oa_id] = refs
209
+
210
+
progress.advance(task, len(batch))
211
+
await asyncio.sleep(0.1)
212
+
213
+
# any ref whose openalex id is already in oa_to_arxiv is a within-dataset citation
214
+
citations: dict[str, list[str]] = {}
215
+
for oa_id, refs in oa_refs.items():
216
+
src_arxiv = oa_to_arxiv.get(oa_id)
217
+
if not src_arxiv:
218
+
continue
219
+
targets = [
220
+
oa_to_arxiv[ref_id]
221
+
for ref_id in refs
222
+
if ref_id in oa_to_arxiv and oa_to_arxiv[ref_id] != src_arxiv
223
+
]
224
+
if targets:
225
+
citations[src_arxiv] = targets
226
+
227
+
total = sum(len(v) for v in citations.values())
228
+
console.print(
229
+
f"[green]Found {total} citation edges across {len(citations)} papers[/green]"
230
+
)
231
+
return citations
232
+
233
+
234
+
async def ingest_papers(
235
+
client: GvecdbClient,
236
+
papers: list[ArxivRecord],
237
+
state_file: Path,
238
+
) -> dict[str, int]:
239
+
ingested_ids: set[str] = set()
240
+
author_name_to_id: dict[str, int] = {}
241
+
arxiv_id_to_node: dict[str, int] = {}
242
+
243
+
if state_file.exists():
244
+
state = json.loads(state_file.read_text())
245
+
ingested_ids = set(state.get("ingested_ids", []))
246
+
author_name_to_id = {k: int(v) for k, v in state.get("author_map", {}).items()}
247
+
arxiv_id_to_node = {k: int(v) for k, v in state.get("paper_map", {}).items()}
248
+
console.print(
249
+
f"[yellow]Resuming: {len(ingested_ids)} papers already ingested[/yellow]"
250
+
)
251
+
252
+
remaining = [p for p in papers if p["id"] not in ingested_ids]
253
+
if not remaining:
254
+
console.print("[green]All papers already ingested[/green]")
255
+
return arxiv_id_to_node
256
+
257
+
console.print(f"[bold]{len(remaining)} papers to ingest[/bold]")
258
+
259
+
author_paper_count: dict[str, int] = {}
260
+
for p in remaining:
261
+
for a in p["authors"]:
262
+
author_paper_count[a] = author_paper_count.get(a, 0) + 1
263
+
264
+
new_authors = [name for name in author_paper_count if name not in author_name_to_id]
265
+
266
+
progress = Progress(
267
+
TextColumn("[bold blue]{task.description}"),
268
+
BarColumn(),
269
+
MofNCompleteColumn(),
270
+
TimeElapsedColumn(),
271
+
console=console,
272
+
)
273
+
274
+
def _save_state() -> None:
275
+
state_file.write_text(
276
+
json.dumps({
277
+
"ingested_ids": list(ingested_ids),
278
+
"author_map": author_name_to_id,
279
+
"paper_map": arxiv_id_to_node,
280
+
})
281
+
)
282
+
283
+
with progress:
284
+
if new_authors:
285
+
task_authors = progress.add_task("Creating authors", total=len(new_authors))
286
+
287
+
async def _create_author(name: str) -> tuple[str, int]:
288
+
node_id = await client.create_node("author")
289
+
props = GvecdbClient.build_author_props(name, author_paper_count[name])
290
+
await client.set_node_props(node_id, "author", props)
291
+
return name, node_id
292
+
293
+
author_coros = [_create_author(name) for name in new_authors]
294
+
sem = asyncio.Semaphore(RPC_CONCURRENCY)
295
+
296
+
async def _bounded_author(
297
+
coro: Coroutine[None, None, tuple[str, int]],
298
+
) -> tuple[str, int]:
299
+
async with sem:
300
+
result = await coro
301
+
progress.advance(task_authors)
302
+
return result
303
+
304
+
author_results = await asyncio.gather(
305
+
*[_bounded_author(c) for c in author_coros]
306
+
)
307
+
for name, node_id in author_results:
308
+
author_name_to_id[name] = node_id
309
+
310
+
task_papers = progress.add_task("Ingesting papers", total=len(remaining))
311
+
312
+
for batch_start in range(0, len(remaining), EMBED_BATCH_SIZE):
313
+
batch = remaining[batch_start : batch_start + EMBED_BATCH_SIZE]
314
+
sem = asyncio.Semaphore(RPC_CONCURRENCY)
315
+
316
+
async def _create_paper(p: ArxivRecord) -> tuple[str, int]:
317
+
async with sem:
318
+
node_id = await client.create_node("paper")
319
+
props = GvecdbClient.build_paper_props(
320
+
title=p["title"],
321
+
abstract=p["abstract"],
322
+
year=p["year"],
323
+
arxiv_id=p["id"],
324
+
categories=p["categories"],
325
+
doi=p["doi"],
326
+
journal_ref=p["journal_ref"],
327
+
submitted_date=p["submitted_date"],
328
+
page_count=p["page_count"],
329
+
figure_count=p["figure_count"],
330
+
version_count=p["version_count"],
331
+
comments=p["comments"],
332
+
)
333
+
await client.set_node_props(node_id, "paper", props)
334
+
return p["id"], node_id
335
+
336
+
paper_results = await asyncio.gather(*[_create_paper(p) for p in batch])
337
+
for arxiv_id, node_id in paper_results:
338
+
arxiv_id_to_node[arxiv_id] = node_id
339
+
340
+
edge_coros = []
341
+
for p in batch:
342
+
paper_node = arxiv_id_to_node[p["id"]]
343
+
for pos, author_name in enumerate(p["authors"]):
344
+
author_node = author_name_to_id.get(author_name)
345
+
if author_node is None:
346
+
continue
347
+
348
+
async def _create_edge(
349
+
a_node: int = author_node,
350
+
p_node: int = paper_node,
351
+
position: int = pos,
352
+
) -> None:
353
+
async with sem:
354
+
edge_id = await client.create_edge("authored", a_node, p_node)
355
+
props = GvecdbClient.build_authored_props(min(position, 255))
356
+
await client.set_edge_props(edge_id, "authored", props)
357
+
358
+
edge_coros.append(_create_edge())
359
+
360
+
if edge_coros:
361
+
await asyncio.gather(*edge_coros)
362
+
363
+
abstracts = [p["abstract"] for p in batch]
364
+
titles = [p["title"] for p in batch]
365
+
abstract_vecs = embed_batch_to_bytes(abstracts)
366
+
title_vecs = embed_batch_to_bytes(titles)
367
+
368
+
vec_coros = []
369
+
for j, p in enumerate(batch):
370
+
paper_node = arxiv_id_to_node[p["id"]]
371
+
372
+
async def _store_vecs(
373
+
node: int = paper_node,
374
+
abs_vec: bytes = abstract_vecs[j],
375
+
title_vec: bytes = title_vecs[j],
376
+
) -> None:
377
+
async with sem:
378
+
await client.create_vector(
379
+
node, "abstract_embedding", abs_vec, metric=METRIC_COSINE
380
+
)
381
+
await client.create_vector(
382
+
node, "title_embedding", title_vec, metric=METRIC_COSINE
383
+
)
384
+
385
+
vec_coros.append(_store_vecs())
386
+
387
+
await asyncio.gather(*vec_coros)
388
+
389
+
for p in batch:
390
+
ingested_ids.add(p["id"])
391
+
progress.advance(task_papers)
392
+
_save_state()
393
+
394
+
console.print(f" Papers: {len(arxiv_id_to_node)}")
395
+
console.print(f" Authors: {len(author_name_to_id)}")
396
+
return arxiv_id_to_node
397
+
398
+
399
+
async def ingest_citations(
400
+
client: GvecdbClient,
401
+
arxiv_id_to_node: dict[str, int],
402
+
progress: Progress,
403
+
) -> int:
404
+
citations = await fetch_citations(list(arxiv_id_to_node.keys()), progress)
405
+
406
+
total_cites = sum(len(v) for v in citations.values())
407
+
if total_cites == 0:
408
+
return 0
409
+
410
+
cite_task = progress.add_task("Creating citation edges", total=total_cites)
411
+
sem = asyncio.Semaphore(RPC_CONCURRENCY)
412
+
413
+
cite_coros = []
414
+
for src_arxiv, dst_arxivs in citations.items():
415
+
src_node = arxiv_id_to_node.get(src_arxiv)
416
+
if src_node is None:
417
+
continue
418
+
for dst_arxiv in dst_arxivs:
419
+
dst_node = arxiv_id_to_node.get(dst_arxiv)
420
+
if dst_node is None:
421
+
continue
422
+
423
+
async def _create_cite(s: int = src_node, d: int = dst_node) -> None:
424
+
async with sem:
425
+
edge_id = await client.create_edge("cites", s, d)
426
+
props = GvecdbClient.build_cites_props()
427
+
await client.set_edge_props(edge_id, "cites", props)
428
+
progress.advance(cite_task)
429
+
430
+
cite_coros.append(_create_cite())
431
+
432
+
if cite_coros:
433
+
await asyncio.gather(*cite_coros)
434
+
435
+
return len(cite_coros)
436
+
437
+
438
+
async def run(
439
+
socket_path: str,
440
+
papers: list[ArxivRecord],
441
+
state_file: Path,
442
+
skip_citations: bool = False,
443
+
citations_only: bool = False,
444
+
) -> None:
445
+
client = await GvecdbClient.connect(socket_path)
446
+
447
+
console.print("[bold]Registering schemas...[/bold]")
448
+
await client.register_schemas()
449
+
console.print("[green]Schemas registered[/green]")
450
+
451
+
if citations_only:
452
+
if not state_file.exists():
453
+
console.print("[red]No state file found — run full ingest first[/red]")
454
+
return
455
+
state = json.loads(state_file.read_text())
456
+
arxiv_id_to_node = {k: int(v) for k, v in state.get("paper_map", {}).items()}
457
+
console.print(f"[bold]Loading {len(arxiv_id_to_node)} papers from state[/bold]")
458
+
else:
459
+
arxiv_id_to_node = await ingest_papers(client, papers, state_file)
460
+
461
+
if not skip_citations and arxiv_id_to_node:
462
+
progress = Progress(
463
+
TextColumn("[bold blue]{task.description}"),
464
+
BarColumn(),
465
+
MofNCompleteColumn(),
466
+
TimeElapsedColumn(),
467
+
console=console,
468
+
)
469
+
with progress:
470
+
n = await ingest_citations(client, arxiv_id_to_node, progress)
471
+
console.print(f" Citation edges: {n}")
472
+
473
+
console.print(f"\n[bold green]Done![/bold green]")
474
+
475
+
476
+
def main() -> None:
477
+
parser = argparse.ArgumentParser(description="Ingest arXiv data into gvecdb")
478
+
parser.add_argument("--arxiv-json", type=Path, required=True)
479
+
parser.add_argument("--socket", default="/tmp/gvecdb.sock")
480
+
parser.add_argument("--limit", type=int, default=50000)
481
+
parser.add_argument("--categories", default="cs.AI,cs.LG,cs.CL,cs.CV,cs.IR")
482
+
parser.add_argument("--state-file", type=Path, default=Path("ingest_state.json"))
483
+
parser.add_argument("--skip-citations", action="store_true")
484
+
parser.add_argument(
485
+
"--citations-only", action="store_true",
486
+
help="skip paper ingest, only fetch citations (requires prior ingest state)",
487
+
)
488
+
args = parser.parse_args()
489
+
490
+
categories = set(args.categories.split(","))
491
+
papers = load_papers(args.arxiv_json, args.limit, categories) if not args.citations_only else []
492
+
493
+
if not papers and not args.citations_only:
494
+
console.print("[red]No papers found matching criteria[/red]")
495
+
sys.exit(1)
496
+
497
+
asyncio.run( # type: ignore[no-untyped-call]
498
+
capnp.run(run(args.socket, papers, args.state_file, args.skip_citations, args.citations_only))
499
+
)
500
+
501
+
502
+
if __name__ == "__main__":
503
+
main()
+86
demo/backend/src/arxiv_demo/models.py
+86
demo/backend/src/arxiv_demo/models.py
···
1
+
from __future__ import annotations
2
+
3
+
from pydantic import BaseModel
4
+
5
+
6
+
class PaperSummary(BaseModel):
7
+
node_id: int
8
+
arxiv_id: str
9
+
title: str
10
+
authors: list[str]
11
+
year: int
12
+
categories: str
13
+
score: float = 0.0
14
+
doi: str = ""
15
+
journal_ref: str = ""
16
+
submitted_date: str = ""
17
+
page_count: int = 0
18
+
figure_count: int = 0
19
+
version_count: int = 0
20
+
21
+
22
+
class PaperDetail(BaseModel):
23
+
node_id: int
24
+
arxiv_id: str
25
+
title: str
26
+
abstract: str
27
+
authors: list[AuthorRef]
28
+
year: int
29
+
categories: str
30
+
cites: list[PaperRef]
31
+
cited_by: list[PaperRef]
32
+
doi: str = ""
33
+
journal_ref: str = ""
34
+
submitted_date: str = ""
35
+
page_count: int = 0
36
+
figure_count: int = 0
37
+
version_count: int = 0
38
+
comments: str = ""
39
+
40
+
41
+
class AuthorRef(BaseModel):
42
+
node_id: int
43
+
name: str
44
+
position: int = 0
45
+
46
+
47
+
class PaperRef(BaseModel):
48
+
node_id: int
49
+
arxiv_id: str
50
+
title: str
51
+
year: int = 0
52
+
53
+
54
+
class AuthorDetail(BaseModel):
55
+
node_id: int
56
+
name: str
57
+
paper_count: int
58
+
papers: list[PaperRef]
59
+
60
+
61
+
class GraphNode(BaseModel):
62
+
id: int
63
+
type: str
64
+
label: str
65
+
metadata: dict[str, str | int | float] = {}
66
+
67
+
68
+
class GraphEdge(BaseModel):
69
+
id: int
70
+
source: int
71
+
target: int
72
+
type: str
73
+
74
+
75
+
class GraphData(BaseModel):
76
+
nodes: list[GraphNode]
77
+
edges: list[GraphEdge]
78
+
79
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1461
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{ url = "https://files.pythonhosted.org/packages/bd/40/53ad02341fa33b3ce489023f635367a4ac98b73570102ad2cdd770dacc9a/websockets-16.0-cp314-cp314t-macosx_10_15_x86_64.whl", hash = "sha256:b784ca5de850f4ce93ec85d3269d24d4c82f22b7212023c974c401d4980ebc5e", size = 175268 },
1462
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{ url = "https://files.pythonhosted.org/packages/74/9b/6158d4e459b984f949dcbbb0c5d270154c7618e11c01029b9bbd1bb4c4f9/websockets-16.0-cp314-cp314t-macosx_11_0_arm64.whl", hash = "sha256:569d01a4e7fba956c5ae4fc988f0d4e187900f5497ce46339c996dbf24f17641", size = 175486 },
1463
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{ url = "https://files.pythonhosted.org/packages/e5/2d/7583b30208b639c8090206f95073646c2c9ffd66f44df967981a64f849ad/websockets-16.0-cp314-cp314t-manylinux1_x86_64.manylinux_2_28_x86_64.manylinux_2_5_x86_64.whl", hash = "sha256:50f23cdd8343b984957e4077839841146f67a3d31ab0d00e6b824e74c5b2f6e8", size = 185331 },
1464
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{ url = "https://files.pythonhosted.org/packages/45/b0/cce3784eb519b7b5ad680d14b9673a31ab8dcb7aad8b64d81709d2430aa8/websockets-16.0-cp314-cp314t-manylinux2014_aarch64.manylinux_2_17_aarch64.manylinux_2_28_aarch64.whl", hash = "sha256:152284a83a00c59b759697b7f9e9cddf4e3c7861dd0d964b472b70f78f89e80e", size = 186501 },
1465
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{ url = "https://files.pythonhosted.org/packages/19/60/b8ebe4c7e89fb5f6cdf080623c9d92789a53636950f7abacfc33fe2b3135/websockets-16.0-cp314-cp314t-musllinux_1_2_aarch64.whl", hash = "sha256:bc59589ab64b0022385f429b94697348a6a234e8ce22544e3681b2e9331b5944", size = 186062 },
1466
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{ url = "https://files.pythonhosted.org/packages/88/a8/a080593f89b0138b6cba1b28f8df5673b5506f72879322288b031337c0b8/websockets-16.0-cp314-cp314t-musllinux_1_2_x86_64.whl", hash = "sha256:32da954ffa2814258030e5a57bc73a3635463238e797c7375dc8091327434206", size = 185356 },
1467
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{ url = "https://files.pythonhosted.org/packages/c2/b6/b9afed2afadddaf5ebb2afa801abf4b0868f42f8539bfe4b071b5266c9fe/websockets-16.0-cp314-cp314t-win32.whl", hash = "sha256:5a4b4cc550cb665dd8a47f868c8d04c8230f857363ad3c9caf7a0c3bf8c61ca6", size = 178085 },
1468
+
{ url = "https://files.pythonhosted.org/packages/9f/3e/28135a24e384493fa804216b79a6a6759a38cc4ff59118787b9fb693df93/websockets-16.0-cp314-cp314t-win_amd64.whl", hash = "sha256:b14dc141ed6d2dde437cddb216004bcac6a1df0935d79656387bd41632ba0bbd", size = 178531 },
1469
+
{ url = "https://files.pythonhosted.org/packages/6f/28/258ebab549c2bf3e64d2b0217b973467394a9cea8c42f70418ca2c5d0d2e/websockets-16.0-py3-none-any.whl", hash = "sha256:1637db62fad1dc833276dded54215f2c7fa46912301a24bd94d45d46a011ceec", size = 171598 },
1470
+
]
+25
demo/frontend/components.json
+25
demo/frontend/components.json
···
1
+
{
2
+
"$schema": "https://ui.shadcn.com/schema.json",
3
+
"style": "base-lyra",
4
+
"rsc": false,
5
+
"tsx": true,
6
+
"tailwind": {
7
+
"config": "tailwind.config.js",
8
+
"css": "src/index.css",
9
+
"baseColor": "neutral",
10
+
"cssVariables": true,
11
+
"prefix": ""
12
+
},
13
+
"iconLibrary": "phosphor",
14
+
"rtl": false,
15
+
"aliases": {
16
+
"components": "@/components",
17
+
"utils": "@/lib/utils",
18
+
"ui": "@/components/ui",
19
+
"lib": "@/lib",
20
+
"hooks": "@/hooks"
21
+
},
22
+
"menuColor": "default",
23
+
"menuAccent": "subtle",
24
+
"registries": {}
25
+
}
+12
demo/frontend/index.html
+12
demo/frontend/index.html
···
1
+
<!doctype html>
2
+
<html lang="en" class="dark">
3
+
<head>
4
+
<meta charset="UTF-8" />
5
+
<meta name="viewport" content="width=device-width, initial-scale=1.0" />
6
+
<title>arXiv Explorer — gvecdb</title>
7
+
</head>
8
+
<body>
9
+
<div id="root"></div>
10
+
<script type="module" src="/src/main.tsx"></script>
11
+
</body>
12
+
</html>
+39
demo/frontend/package.json
+39
demo/frontend/package.json
···
1
+
{
2
+
"name": "arxiv-demo-frontend",
3
+
"private": true,
4
+
"version": "0.1.0",
5
+
"type": "module",
6
+
"scripts": {
7
+
"dev": "vite",
8
+
"build": "tsc -b && vite build",
9
+
"preview": "vite preview",
10
+
"lint": "biome check src/",
11
+
"format": "biome format --write src/"
12
+
},
13
+
"dependencies": {
14
+
"@base-ui/react": "^1.4.1",
15
+
"@fontsource-variable/jetbrains-mono": "^5.2.8",
16
+
"@phosphor-icons/react": "^2.1.10",
17
+
"@tanstack/react-query": "^5.75.5",
18
+
"class-variance-authority": "^0.7.1",
19
+
"clsx": "^2.1.1",
20
+
"react": "^19.1.0",
21
+
"react-dom": "^19.1.0",
22
+
"react-force-graph-2d": "^1.26.4",
23
+
"react-router-dom": "^7.6.0",
24
+
"shadcn": "^4.6.0",
25
+
"tailwind-merge": "^3.5.0",
26
+
"tw-animate-css": "^1.4.0"
27
+
},
28
+
"devDependencies": {
29
+
"@biomejs/biome": "^1.9.4",
30
+
"@types/react": "^19.1.2",
31
+
"@types/react-dom": "^19.1.2",
32
+
"@vitejs/plugin-react": "^4.4.1",
33
+
"autoprefixer": "^10.4.21",
34
+
"postcss": "^8.5.3",
35
+
"tailwindcss": "^3.4.17",
36
+
"typescript": "^5.8.3",
37
+
"vite": "^6.3.4"
38
+
}
39
+
}
+6
demo/frontend/postcss.config.js
+6
demo/frontend/postcss.config.js
+11
demo/frontend/src/App.tsx
+11
demo/frontend/src/App.tsx
···
1
+
import { Route, Routes } from "react-router-dom";
2
+
import ExplorerPage from "@/pages/ExplorerPage";
3
+
4
+
export default function App() {
5
+
return (
6
+
<Routes>
7
+
<Route path="/" element={<ExplorerPage />} />
8
+
<Route path="/explorer/:nodeId" element={<ExplorerPage />} />
9
+
</Routes>
10
+
);
11
+
}
+83
demo/frontend/src/api/client.ts
+83
demo/frontend/src/api/client.ts
···
1
+
import { useQuery } from "@tanstack/react-query";
2
+
import type {
3
+
AuthorDetail,
4
+
GraphData,
5
+
PaperDetail,
6
+
PaperSummary,
7
+
SearchFilters,
8
+
SearchResponse,
9
+
} from "@/api/types";
10
+
11
+
const BASE = "/api";
12
+
13
+
async function fetchJson<T>(url: string): Promise<T> {
14
+
const res = await fetch(url);
15
+
if (!res.ok) {
16
+
throw new Error(`API error: ${res.status} ${res.statusText}`);
17
+
}
18
+
return res.json() as Promise<T>;
19
+
}
20
+
21
+
export function useSearch(
22
+
query: string,
23
+
k = 20,
24
+
tag = "abstract_embedding",
25
+
filters?: SearchFilters,
26
+
) {
27
+
return useQuery<SearchResponse>({
28
+
queryKey: ["search", query, k, tag, filters],
29
+
queryFn: () => {
30
+
const params = new URLSearchParams({
31
+
q: query,
32
+
k: String(k),
33
+
tag,
34
+
});
35
+
if (filters?.yearMin != null) params.set("year_min", String(filters.yearMin));
36
+
if (filters?.yearMax != null) params.set("year_max", String(filters.yearMax));
37
+
if (filters?.category) params.set("category", filters.category);
38
+
if (filters?.publishedOnly) params.set("published_only", "true");
39
+
return fetchJson(`${BASE}/search?${params}`);
40
+
},
41
+
enabled: query.length > 0,
42
+
});
43
+
}
44
+
45
+
export function usePaper(nodeId: number | undefined) {
46
+
return useQuery<PaperDetail>({
47
+
queryKey: ["paper", nodeId],
48
+
queryFn: () => fetchJson(`${BASE}/paper/by-node/${nodeId}`),
49
+
enabled: nodeId !== undefined,
50
+
});
51
+
}
52
+
53
+
export function useAuthor(nodeId: number | undefined) {
54
+
return useQuery<AuthorDetail>({
55
+
queryKey: ["author", nodeId],
56
+
queryFn: () => fetchJson(`${BASE}/author/${nodeId}`),
57
+
enabled: nodeId !== undefined,
58
+
});
59
+
}
60
+
61
+
export function useNeighborhood(nodeId: number | undefined, depth = 1) {
62
+
return useQuery<GraphData>({
63
+
queryKey: ["neighbourhood", nodeId, depth],
64
+
queryFn: () =>
65
+
fetchJson(`${BASE}/graph/neighbourhood/${nodeId}?depth=${depth}`),
66
+
enabled: nodeId !== undefined,
67
+
});
68
+
}
69
+
70
+
export function useSimilar(
71
+
nodeId: number | undefined,
72
+
k = 10,
73
+
tag = "abstract_embedding",
74
+
) {
75
+
return useQuery<PaperSummary[]>({
76
+
queryKey: ["similar", nodeId, k, tag],
77
+
queryFn: () =>
78
+
fetchJson(
79
+
`${BASE}/similar/${nodeId}?k=${k}&tag=${encodeURIComponent(tag)}`,
80
+
),
81
+
enabled: nodeId !== undefined,
82
+
});
83
+
}
+86
demo/frontend/src/api/types.ts
+86
demo/frontend/src/api/types.ts
···
1
+
export interface PaperSummary {
2
+
node_id: number;
3
+
arxiv_id: string;
4
+
title: string;
5
+
authors: string[];
6
+
year: number;
7
+
categories: string;
8
+
score: number;
9
+
doi: string;
10
+
journal_ref: string;
11
+
submitted_date: string;
12
+
page_count: number;
13
+
figure_count: number;
14
+
version_count: number;
15
+
}
16
+
17
+
export interface AuthorRef {
18
+
node_id: number;
19
+
name: string;
20
+
position: number;
21
+
}
22
+
23
+
export interface PaperRef {
24
+
node_id: number;
25
+
arxiv_id: string;
26
+
title: string;
27
+
year: number;
28
+
}
29
+
30
+
export interface PaperDetail {
31
+
node_id: number;
32
+
arxiv_id: string;
33
+
title: string;
34
+
abstract: string;
35
+
authors: AuthorRef[];
36
+
year: number;
37
+
categories: string;
38
+
cites: PaperRef[];
39
+
cited_by: PaperRef[];
40
+
doi: string;
41
+
journal_ref: string;
42
+
submitted_date: string;
43
+
page_count: number;
44
+
figure_count: number;
45
+
version_count: number;
46
+
comments: string;
47
+
}
48
+
49
+
export interface AuthorDetail {
50
+
node_id: number;
51
+
name: string;
52
+
paper_count: number;
53
+
papers: PaperRef[];
54
+
}
55
+
56
+
export interface GraphNode {
57
+
id: number;
58
+
type: string;
59
+
label: string;
60
+
metadata: Record<string, string | number>;
61
+
}
62
+
63
+
export interface GraphEdge {
64
+
id: number;
65
+
source: number;
66
+
target: number;
67
+
type: string;
68
+
}
69
+
70
+
export interface GraphData {
71
+
nodes: GraphNode[];
72
+
edges: GraphEdge[];
73
+
}
74
+
75
+
export interface SearchResponse {
76
+
query: string;
77
+
tag: string;
78
+
results: PaperSummary[];
79
+
}
80
+
81
+
export interface SearchFilters {
82
+
yearMin?: number;
83
+
yearMax?: number;
84
+
category?: string;
85
+
publishedOnly: boolean;
86
+
}
+54
demo/frontend/src/components/AuthorDetail.tsx
+54
demo/frontend/src/components/AuthorDetail.tsx
···
1
+
import { Badge } from "@/components/ui/badge";
2
+
import { Card, CardContent } from "@/components/ui/card";
3
+
import type { AuthorDetail as AuthorDetailType } from "@/api/types";
4
+
5
+
interface AuthorDetailProps {
6
+
author: AuthorDetailType;
7
+
onNavigate?: (nodeId: number) => void;
8
+
}
9
+
10
+
export default function AuthorDetailView({
11
+
author,
12
+
onNavigate,
13
+
}: AuthorDetailProps) {
14
+
return (
15
+
<div className="space-y-4">
16
+
<div>
17
+
<h1 className="text-sm font-bold">{author.name}</h1>
18
+
<p className="mt-0.5 text-xs text-muted-foreground">
19
+
{author.paper_count} paper{author.paper_count !== 1 && "s"}
20
+
</p>
21
+
</div>
22
+
23
+
<div>
24
+
<h2 className="mb-1.5 text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
25
+
Papers
26
+
</h2>
27
+
<div className="space-y-1.5">
28
+
{author.papers.map((paper) => (
29
+
<button
30
+
key={paper.node_id}
31
+
onClick={() => onNavigate?.(paper.node_id)}
32
+
className="w-full text-left"
33
+
>
34
+
<Card
35
+
className="transition-colors hover:bg-muted/50"
36
+
size="sm"
37
+
>
38
+
<CardContent>
39
+
<h3 className="text-xs font-medium">{paper.title}</h3>
40
+
<div className="mt-1 flex items-center gap-1.5">
41
+
<Badge variant="outline">{paper.year}</Badge>
42
+
<span className="font-mono text-[10px] text-muted-foreground">
43
+
{paper.arxiv_id}
44
+
</span>
45
+
</div>
46
+
</CardContent>
47
+
</Card>
48
+
</button>
49
+
))}
50
+
</div>
51
+
</div>
52
+
</div>
53
+
);
54
+
}
+145
demo/frontend/src/components/FilterPanel.tsx
+145
demo/frontend/src/components/FilterPanel.tsx
···
1
+
import { Funnel } from "@phosphor-icons/react";
2
+
import { useState } from "react";
3
+
import { Badge } from "@/components/ui/badge";
4
+
import { Button } from "@/components/ui/button";
5
+
import { Input } from "@/components/ui/input";
6
+
import type { SearchFilters } from "@/api/types";
7
+
8
+
interface FilterPanelProps {
9
+
filters: SearchFilters;
10
+
onChange: (filters: SearchFilters) => void;
11
+
}
12
+
13
+
const CATEGORIES = [
14
+
{ value: "cs.AI", label: "AI" },
15
+
{ value: "cs.LG", label: "ML" },
16
+
{ value: "cs.CL", label: "NLP" },
17
+
{ value: "cs.CV", label: "Vision" },
18
+
{ value: "cs.IR", label: "IR" },
19
+
] as const;
20
+
21
+
export default function FilterPanel({ filters, onChange }: FilterPanelProps) {
22
+
const [open, setOpen] = useState(false);
23
+
24
+
const activeCount =
25
+
(filters.yearMin != null ? 1 : 0) +
26
+
(filters.yearMax != null ? 1 : 0) +
27
+
(filters.category ? 1 : 0) +
28
+
(filters.publishedOnly ? 1 : 0);
29
+
30
+
const selectedCats = new Set(filters.category?.split(",").filter(Boolean) ?? []);
31
+
32
+
const toggleCategory = (cat: string) => {
33
+
const next = new Set(selectedCats);
34
+
if (next.has(cat)) {
35
+
next.delete(cat);
36
+
} else {
37
+
next.add(cat);
38
+
}
39
+
onChange({
40
+
...filters,
41
+
category: next.size > 0 ? [...next].join(",") : undefined,
42
+
});
43
+
};
44
+
45
+
return (
46
+
<div>
47
+
<Button
48
+
variant={activeCount > 0 ? "secondary" : "outline"}
49
+
size="sm"
50
+
onClick={() => setOpen(!open)}
51
+
>
52
+
<Funnel data-icon="inline-start" />
53
+
Filters
54
+
{activeCount > 0 && (
55
+
<Badge variant="default" className="ml-1 h-4 min-w-4 px-1">
56
+
{activeCount}
57
+
</Badge>
58
+
)}
59
+
</Button>
60
+
61
+
{open && (
62
+
<div className="mt-2 border bg-card p-3 space-y-3">
63
+
<div className="flex items-center gap-2">
64
+
<span className="text-[10px] font-semibold uppercase tracking-widest text-muted-foreground w-12 shrink-0">
65
+
Year
66
+
</span>
67
+
<Input
68
+
type="number"
69
+
placeholder="From"
70
+
value={filters.yearMin ?? ""}
71
+
onChange={(e) =>
72
+
onChange({
73
+
...filters,
74
+
yearMin: e.target.value ? Number(e.target.value) : undefined,
75
+
})
76
+
}
77
+
className="w-20"
78
+
/>
79
+
<span className="text-muted-foreground text-xs">—</span>
80
+
<Input
81
+
type="number"
82
+
placeholder="To"
83
+
value={filters.yearMax ?? ""}
84
+
onChange={(e) =>
85
+
onChange({
86
+
...filters,
87
+
yearMax: e.target.value ? Number(e.target.value) : undefined,
88
+
})
89
+
}
90
+
className="w-20"
91
+
/>
92
+
</div>
93
+
94
+
<div className="flex items-center gap-2">
95
+
<span className="text-[10px] font-semibold uppercase tracking-widest text-muted-foreground w-12 shrink-0">
96
+
Area
97
+
</span>
98
+
<div className="flex flex-wrap gap-1">
99
+
{CATEGORIES.map((cat) => (
100
+
<button
101
+
key={cat.value}
102
+
onClick={() => toggleCategory(cat.value)}
103
+
className={
104
+
selectedCats.has(cat.value)
105
+
? "inline-flex h-5 items-center px-2 text-xs font-medium bg-primary text-primary-foreground"
106
+
: "inline-flex h-5 items-center px-2 text-xs font-medium border text-muted-foreground hover:text-foreground"
107
+
}
108
+
>
109
+
{cat.label}
110
+
</button>
111
+
))}
112
+
</div>
113
+
</div>
114
+
115
+
<div className="flex items-center gap-2">
116
+
<span className="text-[10px] font-semibold uppercase tracking-widest text-muted-foreground w-12 shrink-0" />
117
+
<button
118
+
onClick={() =>
119
+
onChange({ ...filters, publishedOnly: !filters.publishedOnly })
120
+
}
121
+
className={
122
+
filters.publishedOnly
123
+
? "inline-flex h-5 items-center px-2 text-xs font-medium bg-primary text-primary-foreground"
124
+
: "inline-flex h-5 items-center px-2 text-xs font-medium border text-muted-foreground hover:text-foreground"
125
+
}
126
+
>
127
+
Published only (has DOI)
128
+
</button>
129
+
{activeCount > 0 && (
130
+
<Button
131
+
variant="ghost"
132
+
size="xs"
133
+
onClick={() =>
134
+
onChange({ publishedOnly: false })
135
+
}
136
+
>
137
+
Clear all
138
+
</Button>
139
+
)}
140
+
</div>
141
+
</div>
142
+
)}
143
+
</div>
144
+
);
145
+
}
+167
demo/frontend/src/components/GraphVisualization.tsx
+167
demo/frontend/src/components/GraphVisualization.tsx
···
1
+
import { useCallback, useEffect, useMemo, useRef } from "react";
2
+
import ForceGraph2D from "react-force-graph-2d";
3
+
import type { GraphData } from "@/api/types";
4
+
5
+
interface GraphVisualisationProps {
6
+
data: GraphData;
7
+
width?: number;
8
+
height?: number;
9
+
selectedNodeId?: number;
10
+
onNodeClick: (nodeId: number, nodeType: string) => void;
11
+
}
12
+
13
+
interface FGNode {
14
+
id: number;
15
+
type: string;
16
+
label: string;
17
+
metadata: Record<string, string | number>;
18
+
x?: number;
19
+
y?: number;
20
+
}
21
+
22
+
interface FGLink {
23
+
source: number | FGNode;
24
+
target: number | FGNode;
25
+
type: string;
26
+
}
27
+
28
+
const NODE_COLOURS: Record<string, string> = {
29
+
paper: "#3b82f6",
30
+
author: "#22c55e",
31
+
};
32
+
33
+
const EDGE_COLOURS: Record<string, string> = {
34
+
cites: "#64748b",
35
+
authored: "#f97316",
36
+
};
37
+
38
+
export default function GraphVisualisation({
39
+
data,
40
+
width,
41
+
height,
42
+
selectedNodeId,
43
+
onNodeClick,
44
+
}: GraphVisualisationProps) {
45
+
const fgRef = useRef<{
46
+
d3ReheatSimulation?: () => void;
47
+
zoomToFit?: (ms?: number, padding?: number) => void;
48
+
centerAt?: (x?: number, y?: number, ms?: number) => void;
49
+
zoom?: (zoom: number, ms?: number) => void;
50
+
}>(undefined);
51
+
const initialFitDone = useRef(false);
52
+
const pendingCentreRef = useRef<number | undefined>(undefined);
53
+
54
+
const graphData = useMemo(
55
+
() => ({
56
+
nodes: data.nodes.map((n) => ({ ...n })) as FGNode[],
57
+
links: data.edges.map((e) => ({
58
+
source: e.source,
59
+
target: e.target,
60
+
type: e.type,
61
+
})) as FGLink[],
62
+
}),
63
+
[data],
64
+
);
65
+
66
+
useEffect(() => {
67
+
if (selectedNodeId != null) {
68
+
pendingCentreRef.current = selectedNodeId;
69
+
}
70
+
}, [selectedNodeId]);
71
+
72
+
const handleEngineStop = useCallback(() => {
73
+
if (!initialFitDone.current && fgRef.current?.zoomToFit && data.nodes.length > 0) {
74
+
fgRef.current.zoomToFit(300, 40);
75
+
initialFitDone.current = true;
76
+
return;
77
+
}
78
+
79
+
const targetId = pendingCentreRef.current;
80
+
if (targetId != null && fgRef.current?.centerAt) {
81
+
const node = graphData.nodes.find((n) => n.id === targetId) as FGNode | undefined;
82
+
if (node?.x != null && node?.y != null) {
83
+
fgRef.current.centerAt(node.x, node.y, 400);
84
+
}
85
+
pendingCentreRef.current = undefined;
86
+
}
87
+
}, [data.nodes.length, graphData.nodes]);
88
+
89
+
const handleNodeClick = useCallback(
90
+
(node: FGNode) => {
91
+
onNodeClick(node.id, node.type);
92
+
},
93
+
[onNodeClick],
94
+
);
95
+
96
+
const paintNode = useCallback(
97
+
(node: FGNode, ctx: CanvasRenderingContext2D) => {
98
+
const r = node.type === "paper" ? 5 : 4;
99
+
const colour = NODE_COLOURS[node.type] ?? "#94a3b8";
100
+
const selected = node.id === selectedNodeId;
101
+
102
+
if (selected) {
103
+
ctx.beginPath();
104
+
ctx.arc(node.x ?? 0, node.y ?? 0, r + 3, 0, 2 * Math.PI);
105
+
ctx.strokeStyle = "#ffffff";
106
+
ctx.lineWidth = 1.5;
107
+
ctx.stroke();
108
+
}
109
+
110
+
ctx.beginPath();
111
+
ctx.arc(node.x ?? 0, node.y ?? 0, r, 0, 2 * Math.PI);
112
+
ctx.fillStyle = colour;
113
+
ctx.fill();
114
+
if (!selected) {
115
+
ctx.strokeStyle = "rgba(255,255,255,0.1)";
116
+
ctx.lineWidth = 0.5;
117
+
ctx.stroke();
118
+
}
119
+
120
+
ctx.font = "3px 'JetBrains Mono Variable', monospace";
121
+
ctx.textAlign = "center";
122
+
ctx.fillStyle = selected ? "#ffffff" : "rgba(255,255,255,0.6)";
123
+
const label =
124
+
node.label.length > 30
125
+
? `${node.label.slice(0, 28)}...`
126
+
: node.label;
127
+
ctx.fillText(label, node.x ?? 0, (node.y ?? 0) + r + 4);
128
+
},
129
+
[selectedNodeId],
130
+
);
131
+
132
+
const paintLink = useCallback(
133
+
(link: FGLink, ctx: CanvasRenderingContext2D) => {
134
+
const src = link.source as FGNode;
135
+
const tgt = link.target as FGNode;
136
+
ctx.beginPath();
137
+
ctx.moveTo(src.x ?? 0, src.y ?? 0);
138
+
ctx.lineTo(tgt.x ?? 0, tgt.y ?? 0);
139
+
ctx.strokeStyle = EDGE_COLOURS[link.type] ?? "#475569";
140
+
ctx.lineWidth = 0.5;
141
+
ctx.stroke();
142
+
},
143
+
[],
144
+
);
145
+
146
+
const getNodeLabel = useCallback((node: FGNode) => node.label, []);
147
+
148
+
return (
149
+
<ForceGraph2D
150
+
ref={fgRef}
151
+
graphData={graphData}
152
+
width={width}
153
+
height={height}
154
+
nodeCanvasObject={paintNode}
155
+
linkCanvasObject={paintLink}
156
+
onNodeClick={handleNodeClick}
157
+
onEngineStop={handleEngineStop}
158
+
nodeLabel={getNodeLabel}
159
+
cooldownTicks={40}
160
+
d3AlphaDecay={0.05}
161
+
d3VelocityDecay={0.3}
162
+
enableZoomInteraction
163
+
enablePanInteraction
164
+
backgroundColor="transparent"
165
+
/>
166
+
);
167
+
}
+88
demo/frontend/src/components/NodeSidebar.tsx
+88
demo/frontend/src/components/NodeSidebar.tsx
···
1
+
import { X } from "@phosphor-icons/react";
2
+
import { useAuthor, usePaper, useSimilar } from "@/api/client";
3
+
import { Button } from "@/components/ui/button";
4
+
import { Separator } from "@/components/ui/separator";
5
+
import AuthorDetailView from "@/components/AuthorDetail";
6
+
import PaperCard from "@/components/PaperCard";
7
+
import PaperDetailView from "@/components/PaperDetail";
8
+
9
+
interface NodeSidebarProps {
10
+
nodeId: number;
11
+
nodeType: string;
12
+
onClose: () => void;
13
+
onNavigate: (nodeId: number) => void;
14
+
}
15
+
16
+
export default function NodeSidebar({
17
+
nodeId,
18
+
nodeType,
19
+
onClose,
20
+
onNavigate,
21
+
}: NodeSidebarProps) {
22
+
const paperQuery = usePaper(nodeType === "paper" ? nodeId : undefined);
23
+
const authorQuery = useAuthor(nodeType === "author" ? nodeId : undefined);
24
+
const similarQuery = useSimilar(
25
+
nodeType === "paper" ? nodeId : undefined,
26
+
6,
27
+
);
28
+
29
+
const isLoading =
30
+
(nodeType === "paper" && paperQuery.isLoading) ||
31
+
(nodeType === "author" && authorQuery.isLoading);
32
+
33
+
return (
34
+
<div className="flex h-full flex-col border-l bg-background/95 backdrop-blur-sm">
35
+
<div className="flex items-center justify-between border-b px-3 py-2 shrink-0">
36
+
<span className="text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
37
+
{nodeType}
38
+
</span>
39
+
<Button variant="ghost" size="icon-xs" onClick={onClose}>
40
+
<X />
41
+
</Button>
42
+
</div>
43
+
44
+
<div className="flex-1 overflow-y-auto px-3 py-3">
45
+
{isLoading && (
46
+
<div className="flex items-center justify-center py-12">
47
+
<div className="h-4 w-4 animate-spin border-2 border-foreground border-t-transparent" />
48
+
</div>
49
+
)}
50
+
51
+
{nodeType === "paper" && paperQuery.data && (
52
+
<div className="space-y-4">
53
+
<PaperDetailView
54
+
paper={paperQuery.data}
55
+
onNavigate={onNavigate}
56
+
/>
57
+
{similarQuery.data && similarQuery.data.length > 0 && (
58
+
<>
59
+
<Separator />
60
+
<div>
61
+
<h2 className="mb-1.5 text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
62
+
Similar Papers
63
+
</h2>
64
+
<div className="space-y-1.5">
65
+
{similarQuery.data.map((p) => (
66
+
<PaperCard
67
+
key={p.node_id}
68
+
paper={p}
69
+
onNavigate={onNavigate}
70
+
/>
71
+
))}
72
+
</div>
73
+
</div>
74
+
</>
75
+
)}
76
+
</div>
77
+
)}
78
+
79
+
{nodeType === "author" && authorQuery.data && (
80
+
<AuthorDetailView
81
+
author={authorQuery.data}
82
+
onNavigate={onNavigate}
83
+
/>
84
+
)}
85
+
</div>
86
+
</div>
87
+
);
88
+
}
+82
demo/frontend/src/components/PaperCard.tsx
+82
demo/frontend/src/components/PaperCard.tsx
···
1
+
import { BookOpen, FileText, GitBranch } from "@phosphor-icons/react";
2
+
import { Badge } from "@/components/ui/badge";
3
+
import { Card, CardContent } from "@/components/ui/card";
4
+
import type { PaperSummary } from "@/api/types";
5
+
6
+
interface PaperCardProps {
7
+
paper: PaperSummary;
8
+
onNavigate?: (nodeId: number) => void;
9
+
}
10
+
11
+
export default function PaperCard({ paper, onNavigate }: PaperCardProps) {
12
+
const cats = paper.categories.split(/\s+/).slice(0, 4);
13
+
const scorePercent = Math.round(paper.score * 100);
14
+
15
+
return (
16
+
<button
17
+
className="w-full text-left"
18
+
onClick={() => onNavigate?.(paper.node_id)}
19
+
>
20
+
<Card className="transition-colors hover:bg-muted/50" size="sm">
21
+
<CardContent className="flex items-start justify-between gap-4">
22
+
<div className="min-w-0 flex-1">
23
+
<h3 className="text-xs font-semibold leading-snug">
24
+
{paper.title}
25
+
</h3>
26
+
<p className="mt-1 text-xs text-muted-foreground">
27
+
{paper.authors.slice(0, 5).join(", ")}
28
+
{paper.authors.length > 5 &&
29
+
` +${paper.authors.length - 5} more`}
30
+
</p>
31
+
<div className="mt-2 flex flex-wrap items-center gap-1.5">
32
+
<Badge variant="outline">{paper.year}</Badge>
33
+
{cats.map((cat) => (
34
+
<Badge key={cat} variant="secondary">
35
+
{cat}
36
+
</Badge>
37
+
))}
38
+
{paper.doi && <Badge variant="secondary">DOI</Badge>}
39
+
{paper.journal_ref && (
40
+
<Badge variant="outline">
41
+
{paper.journal_ref.split(/[,.(]/)[0]?.trim()}
42
+
</Badge>
43
+
)}
44
+
</div>
45
+
<div className="mt-1.5 flex items-center gap-3 text-[10px] text-muted-foreground">
46
+
<span className="font-mono">{paper.arxiv_id}</span>
47
+
{paper.page_count > 0 && (
48
+
<span className="flex items-center gap-0.5">
49
+
<FileText className="size-2.5" />
50
+
{paper.page_count}p
51
+
</span>
52
+
)}
53
+
{paper.figure_count > 0 && (
54
+
<span className="flex items-center gap-0.5">
55
+
<BookOpen className="size-2.5" />
56
+
{paper.figure_count} fig
57
+
</span>
58
+
)}
59
+
{paper.version_count > 1 && (
60
+
<span className="flex items-center gap-0.5">
61
+
<GitBranch className="size-2.5" />
62
+
v{paper.version_count}
63
+
</span>
64
+
)}
65
+
{paper.submitted_date && <span>{paper.submitted_date}</span>}
66
+
</div>
67
+
</div>
68
+
{paper.score > 0 && (
69
+
<div className="flex flex-col items-center">
70
+
<div className="flex h-9 w-9 items-center justify-center border text-xs font-bold tabular-nums">
71
+
{scorePercent}
72
+
</div>
73
+
<span className="mt-0.5 text-[10px] text-muted-foreground">
74
+
match
75
+
</span>
76
+
</div>
77
+
)}
78
+
</CardContent>
79
+
</Card>
80
+
</button>
81
+
);
82
+
}
+177
demo/frontend/src/components/PaperDetail.tsx
+177
demo/frontend/src/components/PaperDetail.tsx
···
1
+
import {
2
+
ArrowSquareOut,
3
+
BookOpen,
4
+
CalendarDots,
5
+
FileText,
6
+
GitBranch,
7
+
LinkSimple,
8
+
} from "@phosphor-icons/react";
9
+
import { Badge } from "@/components/ui/badge";
10
+
import { Separator } from "@/components/ui/separator";
11
+
import type { PaperDetail as PaperDetailType } from "@/api/types";
12
+
13
+
interface PaperDetailProps {
14
+
paper: PaperDetailType;
15
+
onNavigate?: (nodeId: number) => void;
16
+
}
17
+
18
+
export default function PaperDetailView({
19
+
paper,
20
+
onNavigate,
21
+
}: PaperDetailProps) {
22
+
const cats = paper.categories.split(/\s+/);
23
+
24
+
return (
25
+
<div className="space-y-4">
26
+
<div>
27
+
<h1 className="text-sm font-bold leading-tight">{paper.title}</h1>
28
+
<div className="mt-2 flex flex-wrap gap-1.5">
29
+
<Badge variant="outline">{paper.year}</Badge>
30
+
{cats.map((cat) => (
31
+
<Badge key={cat} variant="secondary">
32
+
{cat}
33
+
</Badge>
34
+
))}
35
+
<a
36
+
href={`https://arxiv.org/abs/${paper.arxiv_id}`}
37
+
target="_blank"
38
+
rel="noopener noreferrer"
39
+
className="inline-flex items-center gap-1 text-xs text-muted-foreground hover:text-foreground transition-colors"
40
+
>
41
+
arXiv:{paper.arxiv_id}
42
+
<ArrowSquareOut className="size-3" />
43
+
</a>
44
+
</div>
45
+
</div>
46
+
47
+
<div className="grid grid-cols-2 gap-x-4 gap-y-1.5 text-xs">
48
+
{paper.submitted_date && (
49
+
<div className="flex items-center gap-1.5 text-muted-foreground">
50
+
<CalendarDots className="size-3 shrink-0" />
51
+
<span>{paper.submitted_date}</span>
52
+
</div>
53
+
)}
54
+
{paper.page_count > 0 && (
55
+
<div className="flex items-center gap-1.5 text-muted-foreground">
56
+
<FileText className="size-3 shrink-0" />
57
+
<span>{paper.page_count} pages</span>
58
+
</div>
59
+
)}
60
+
{paper.figure_count > 0 && (
61
+
<div className="flex items-center gap-1.5 text-muted-foreground">
62
+
<BookOpen className="size-3 shrink-0" />
63
+
<span>{paper.figure_count} figures</span>
64
+
</div>
65
+
)}
66
+
{paper.version_count > 0 && (
67
+
<div className="flex items-center gap-1.5 text-muted-foreground">
68
+
<GitBranch className="size-3 shrink-0" />
69
+
<span>
70
+
{paper.version_count} version
71
+
{paper.version_count !== 1 && "s"}
72
+
</span>
73
+
</div>
74
+
)}
75
+
{paper.doi && (
76
+
<div className="flex items-center gap-1.5 text-muted-foreground col-span-2">
77
+
<LinkSimple className="size-3 shrink-0" />
78
+
<a
79
+
href={`https://doi.org/${paper.doi}`}
80
+
target="_blank"
81
+
rel="noopener noreferrer"
82
+
className="truncate hover:text-foreground transition-colors"
83
+
>
84
+
{paper.doi}
85
+
</a>
86
+
</div>
87
+
)}
88
+
{paper.journal_ref && (
89
+
<div className="flex items-center gap-1.5 text-muted-foreground col-span-2">
90
+
<BookOpen className="size-3 shrink-0" />
91
+
<span className="truncate">{paper.journal_ref}</span>
92
+
</div>
93
+
)}
94
+
</div>
95
+
96
+
{paper.comments && (
97
+
<p className="text-xs text-muted-foreground italic">
98
+
{paper.comments}
99
+
</p>
100
+
)}
101
+
102
+
<div>
103
+
<h2 className="mb-1.5 text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
104
+
Authors
105
+
</h2>
106
+
<div className="flex flex-wrap gap-1">
107
+
{paper.authors.map((a) => (
108
+
<button
109
+
key={a.node_id}
110
+
onClick={() => onNavigate?.(a.node_id)}
111
+
className="inline-flex h-5 items-center border px-1.5 text-[10px] font-medium text-muted-foreground hover:text-foreground hover:bg-muted transition-colors"
112
+
>
113
+
{a.name}
114
+
</button>
115
+
))}
116
+
</div>
117
+
</div>
118
+
119
+
<Separator />
120
+
121
+
<div>
122
+
<h2 className="mb-1.5 text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
123
+
Abstract
124
+
</h2>
125
+
<p className="text-xs leading-relaxed text-muted-foreground">
126
+
{paper.abstract}
127
+
</p>
128
+
</div>
129
+
130
+
{paper.cites.length > 0 && (
131
+
<>
132
+
<Separator />
133
+
<div>
134
+
<h2 className="mb-1.5 text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
135
+
References ({paper.cites.length})
136
+
</h2>
137
+
<div className="space-y-0.5">
138
+
{paper.cites.map((ref) => (
139
+
<button
140
+
key={ref.node_id}
141
+
onClick={() => onNavigate?.(ref.node_id)}
142
+
className="block w-full text-left px-2 py-1.5 text-xs transition-colors hover:bg-muted"
143
+
>
144
+
{ref.title}{" "}
145
+
<span className="text-muted-foreground">({ref.year})</span>
146
+
</button>
147
+
))}
148
+
</div>
149
+
</div>
150
+
</>
151
+
)}
152
+
153
+
{paper.cited_by.length > 0 && (
154
+
<>
155
+
<Separator />
156
+
<div>
157
+
<h2 className="mb-1.5 text-[10px] font-semibold uppercase tracking-widest text-muted-foreground">
158
+
Cited By ({paper.cited_by.length})
159
+
</h2>
160
+
<div className="space-y-0.5">
161
+
{paper.cited_by.map((ref) => (
162
+
<button
163
+
key={ref.node_id}
164
+
onClick={() => onNavigate?.(ref.node_id)}
165
+
className="block w-full text-left px-2 py-1.5 text-xs transition-colors hover:bg-muted"
166
+
>
167
+
{ref.title}{" "}
168
+
<span className="text-muted-foreground">({ref.year})</span>
169
+
</button>
170
+
))}
171
+
</div>
172
+
</div>
173
+
</>
174
+
)}
175
+
</div>
176
+
);
177
+
}
+85
demo/frontend/src/components/SearchBar.tsx
+85
demo/frontend/src/components/SearchBar.tsx
···
1
+
import { MagnifyingGlass } from "@phosphor-icons/react";
2
+
import { useCallback, useEffect, useRef, useState } from "react";
3
+
import { Input } from "@/components/ui/input";
4
+
import { cn } from "@/lib/utils";
5
+
6
+
interface SearchBarProps {
7
+
onSearch: (query: string, tag: string) => void;
8
+
initialQuery?: string;
9
+
initialTag?: string;
10
+
}
11
+
12
+
const TAGS = [
13
+
{ value: "abstract_embedding", label: "Abstract" },
14
+
{ value: "title_embedding", label: "Title" },
15
+
] as const;
16
+
17
+
export default function SearchBar({
18
+
onSearch,
19
+
initialQuery = "",
20
+
initialTag = "abstract_embedding",
21
+
}: SearchBarProps) {
22
+
const [query, setQuery] = useState(initialQuery);
23
+
const [tag, setTag] = useState(initialTag);
24
+
const timerRef = useRef<ReturnType<typeof setTimeout>>(undefined);
25
+
26
+
const triggerSearch = useCallback(
27
+
(q: string, t: string) => {
28
+
clearTimeout(timerRef.current);
29
+
timerRef.current = setTimeout(() => {
30
+
if (q.trim()) {
31
+
onSearch(q.trim(), t);
32
+
}
33
+
}, 300);
34
+
},
35
+
[onSearch],
36
+
);
37
+
38
+
useEffect(() => () => clearTimeout(timerRef.current), []);
39
+
40
+
return (
41
+
<div className="flex gap-2">
42
+
<div className="relative flex-1">
43
+
<MagnifyingGlass className="absolute left-2.5 top-1/2 size-3.5 -translate-y-1/2 text-muted-foreground" />
44
+
<Input
45
+
value={query}
46
+
onChange={(e) => {
47
+
setQuery(e.target.value);
48
+
triggerSearch(e.target.value, tag);
49
+
}}
50
+
onKeyDown={(e) => {
51
+
if (e.key === "Enter" && query.trim()) {
52
+
clearTimeout(timerRef.current);
53
+
onSearch(query.trim(), tag);
54
+
}
55
+
}}
56
+
placeholder="Search papers by concept, topic, or question..."
57
+
className="pl-8"
58
+
autoFocus
59
+
/>
60
+
</div>
61
+
<div className="flex overflow-hidden border">
62
+
{TAGS.map((t) => (
63
+
<button
64
+
key={t.value}
65
+
onClick={() => {
66
+
setTag(t.value);
67
+
if (query.trim()) {
68
+
clearTimeout(timerRef.current);
69
+
onSearch(query.trim(), t.value);
70
+
}
71
+
}}
72
+
className={cn(
73
+
"px-2.5 py-1.5 text-xs font-medium transition-colors",
74
+
tag === t.value
75
+
? "bg-primary text-primary-foreground"
76
+
: "bg-background text-muted-foreground hover:bg-muted hover:text-foreground",
77
+
)}
78
+
>
79
+
{t.label}
80
+
</button>
81
+
))}
82
+
</div>
83
+
</div>
84
+
);
85
+
}
+52
demo/frontend/src/components/ui/badge.tsx
+52
demo/frontend/src/components/ui/badge.tsx
···
1
+
import { mergeProps } from "@base-ui/react/merge-props"
2
+
import { useRender } from "@base-ui/react/use-render"
3
+
import { cva, type VariantProps } from "class-variance-authority"
4
+
5
+
import { cn } from "@/lib/utils"
6
+
7
+
const badgeVariants = cva(
8
+
"group/badge inline-flex h-5 w-fit shrink-0 items-center justify-center gap-1 overflow-hidden rounded-none border border-transparent px-2 py-0.5 text-xs font-medium whitespace-nowrap transition-all focus-visible:border-ring focus-visible:ring-[3px] focus-visible:ring-ring/50 has-data-[icon=inline-end]:pr-1.5 has-data-[icon=inline-start]:pl-1.5 aria-invalid:border-destructive aria-invalid:ring-destructive/20 dark:aria-invalid:ring-destructive/40 [&>svg]:pointer-events-none [&>svg]:size-3!",
9
+
{
10
+
variants: {
11
+
variant: {
12
+
default: "bg-primary text-primary-foreground [a]:hover:bg-primary/80",
13
+
secondary:
14
+
"bg-secondary text-secondary-foreground [a]:hover:bg-secondary/80",
15
+
destructive:
16
+
"bg-destructive/10 text-destructive focus-visible:ring-destructive/20 dark:bg-destructive/20 dark:focus-visible:ring-destructive/40 [a]:hover:bg-destructive/20",
17
+
outline:
18
+
"border-border text-foreground [a]:hover:bg-muted [a]:hover:text-muted-foreground",
19
+
ghost:
20
+
"hover:bg-muted hover:text-muted-foreground dark:hover:bg-muted/50",
21
+
link: "text-primary underline-offset-4 hover:underline",
22
+
},
23
+
},
24
+
defaultVariants: {
25
+
variant: "default",
26
+
},
27
+
}
28
+
)
29
+
30
+
function Badge({
31
+
className,
32
+
variant = "default",
33
+
render,
34
+
...props
35
+
}: useRender.ComponentProps<"span"> & VariantProps<typeof badgeVariants>) {
36
+
return useRender({
37
+
defaultTagName: "span",
38
+
props: mergeProps<"span">(
39
+
{
40
+
className: cn(badgeVariants({ variant }), className),
41
+
},
42
+
props
43
+
),
44
+
render,
45
+
state: {
46
+
slot: "badge",
47
+
variant,
48
+
},
49
+
})
50
+
}
51
+
52
+
export { Badge, badgeVariants }
+103
demo/frontend/src/components/ui/card.tsx
+103
demo/frontend/src/components/ui/card.tsx
···
1
+
import * as React from "react"
2
+
3
+
import { cn } from "@/lib/utils"
4
+
5
+
function Card({
6
+
className,
7
+
size = "default",
8
+
...props
9
+
}: React.ComponentProps<"div"> & { size?: "default" | "sm" }) {
10
+
return (
11
+
<div
12
+
data-slot="card"
13
+
data-size={size}
14
+
className={cn(
15
+
"group/card flex flex-col gap-4 overflow-hidden rounded-none bg-card py-4 text-xs/relaxed text-card-foreground ring-1 ring-foreground/10 has-data-[slot=card-footer]:pb-0 has-[>img:first-child]:pt-0 data-[size=sm]:gap-2 data-[size=sm]:py-3 data-[size=sm]:has-data-[slot=card-footer]:pb-0 *:[img:first-child]:rounded-none *:[img:last-child]:rounded-none",
16
+
className
17
+
)}
18
+
{...props}
19
+
/>
20
+
)
21
+
}
22
+
23
+
function CardHeader({ className, ...props }: React.ComponentProps<"div">) {
24
+
return (
25
+
<div
26
+
data-slot="card-header"
27
+
className={cn(
28
+
"group/card-header @container/card-header grid auto-rows-min items-start gap-1 rounded-none px-4 group-data-[size=sm]/card:px-3 has-data-[slot=card-action]:grid-cols-[1fr_auto] has-data-[slot=card-description]:grid-rows-[auto_auto] [.border-b]:pb-4 group-data-[size=sm]/card:[.border-b]:pb-3",
29
+
className
30
+
)}
31
+
{...props}
32
+
/>
33
+
)
34
+
}
35
+
36
+
function CardTitle({ className, ...props }: React.ComponentProps<"div">) {
37
+
return (
38
+
<div
39
+
data-slot="card-title"
40
+
className={cn(
41
+
"font-heading text-sm font-medium group-data-[size=sm]/card:text-sm",
42
+
className
43
+
)}
44
+
{...props}
45
+
/>
46
+
)
47
+
}
48
+
49
+
function CardDescription({ className, ...props }: React.ComponentProps<"div">) {
50
+
return (
51
+
<div
52
+
data-slot="card-description"
53
+
className={cn("text-xs/relaxed text-muted-foreground", className)}
54
+
{...props}
55
+
/>
56
+
)
57
+
}
58
+
59
+
function CardAction({ className, ...props }: React.ComponentProps<"div">) {
60
+
return (
61
+
<div
62
+
data-slot="card-action"
63
+
className={cn(
64
+
"col-start-2 row-span-2 row-start-1 self-start justify-self-end",
65
+
className
66
+
)}
67
+
{...props}
68
+
/>
69
+
)
70
+
}
71
+
72
+
function CardContent({ className, ...props }: React.ComponentProps<"div">) {
73
+
return (
74
+
<div
75
+
data-slot="card-content"
76
+
className={cn("px-4 group-data-[size=sm]/card:px-3", className)}
77
+
{...props}
78
+
/>
79
+
)
80
+
}
81
+
82
+
function CardFooter({ className, ...props }: React.ComponentProps<"div">) {
83
+
return (
84
+
<div
85
+
data-slot="card-footer"
86
+
className={cn(
87
+
"flex items-center rounded-none border-t p-4 group-data-[size=sm]/card:p-3",
88
+
className
89
+
)}
90
+
{...props}
91
+
/>
92
+
)
93
+
}
94
+
95
+
export {
96
+
Card,
97
+
CardHeader,
98
+
CardFooter,
99
+
CardTitle,
100
+
CardAction,
101
+
CardDescription,
102
+
CardContent,
103
+
}
+20
demo/frontend/src/components/ui/input.tsx
+20
demo/frontend/src/components/ui/input.tsx
···
1
+
import * as React from "react"
2
+
import { Input as InputPrimitive } from "@base-ui/react/input"
3
+
4
+
import { cn } from "@/lib/utils"
5
+
6
+
function Input({ className, type, ...props }: React.ComponentProps<"input">) {
7
+
return (
8
+
<InputPrimitive
9
+
type={type}
10
+
data-slot="input"
11
+
className={cn(
12
+
"h-8 w-full min-w-0 rounded-none border border-input bg-transparent px-2.5 py-1 text-xs transition-colors outline-none file:inline-flex file:h-6 file:border-0 file:bg-transparent file:text-xs file:font-medium file:text-foreground placeholder:text-muted-foreground focus-visible:border-ring focus-visible:ring-1 focus-visible:ring-ring/50 disabled:pointer-events-none disabled:cursor-not-allowed disabled:bg-input/50 disabled:opacity-50 aria-invalid:border-destructive aria-invalid:ring-1 aria-invalid:ring-destructive/20 md:text-xs dark:bg-input/30 dark:disabled:bg-input/80 dark:aria-invalid:border-destructive/50 dark:aria-invalid:ring-destructive/40",
13
+
className
14
+
)}
15
+
{...props}
16
+
/>
17
+
)
18
+
}
19
+
20
+
export { Input }
+23
demo/frontend/src/components/ui/separator.tsx
+23
demo/frontend/src/components/ui/separator.tsx
···
1
+
import { Separator as SeparatorPrimitive } from "@base-ui/react/separator"
2
+
3
+
import { cn } from "@/lib/utils"
4
+
5
+
function Separator({
6
+
className,
7
+
orientation = "horizontal",
8
+
...props
9
+
}: SeparatorPrimitive.Props) {
10
+
return (
11
+
<SeparatorPrimitive
12
+
data-slot="separator"
13
+
orientation={orientation}
14
+
className={cn(
15
+
"shrink-0 bg-border data-horizontal:h-px data-horizontal:w-full data-vertical:w-px data-vertical:self-stretch",
16
+
className
17
+
)}
18
+
{...props}
19
+
/>
20
+
)
21
+
}
22
+
23
+
export { Separator }
+66
demo/frontend/src/components/ui/tooltip.tsx
+66
demo/frontend/src/components/ui/tooltip.tsx
···
1
+
"use client"
2
+
3
+
import { Tooltip as TooltipPrimitive } from "@base-ui/react/tooltip"
4
+
5
+
import { cn } from "@/lib/utils"
6
+
7
+
function TooltipProvider({
8
+
delay = 0,
9
+
...props
10
+
}: TooltipPrimitive.Provider.Props) {
11
+
return (
12
+
<TooltipPrimitive.Provider
13
+
data-slot="tooltip-provider"
14
+
delay={delay}
15
+
{...props}
16
+
/>
17
+
)
18
+
}
19
+
20
+
function Tooltip({ ...props }: TooltipPrimitive.Root.Props) {
21
+
return <TooltipPrimitive.Root data-slot="tooltip" {...props} />
22
+
}
23
+
24
+
function TooltipTrigger({ ...props }: TooltipPrimitive.Trigger.Props) {
25
+
return <TooltipPrimitive.Trigger data-slot="tooltip-trigger" {...props} />
26
+
}
27
+
28
+
function TooltipContent({
29
+
className,
30
+
side = "top",
31
+
sideOffset = 4,
32
+
align = "center",
33
+
alignOffset = 0,
34
+
children,
35
+
...props
36
+
}: TooltipPrimitive.Popup.Props &
37
+
Pick<
38
+
TooltipPrimitive.Positioner.Props,
39
+
"align" | "alignOffset" | "side" | "sideOffset"
40
+
>) {
41
+
return (
42
+
<TooltipPrimitive.Portal>
43
+
<TooltipPrimitive.Positioner
44
+
align={align}
45
+
alignOffset={alignOffset}
46
+
side={side}
47
+
sideOffset={sideOffset}
48
+
className="isolate z-50"
49
+
>
50
+
<TooltipPrimitive.Popup
51
+
data-slot="tooltip-content"
52
+
className={cn(
53
+
"z-50 inline-flex w-fit max-w-xs origin-(--transform-origin) items-center gap-1.5 rounded-none bg-foreground px-3 py-1.5 text-xs text-background has-data-[slot=kbd]:pr-1.5 data-[side=bottom]:slide-in-from-top-2 data-[side=inline-end]:slide-in-from-left-2 data-[side=inline-start]:slide-in-from-right-2 data-[side=left]:slide-in-from-right-2 data-[side=right]:slide-in-from-left-2 data-[side=top]:slide-in-from-bottom-2 **:data-[slot=kbd]:relative **:data-[slot=kbd]:isolate **:data-[slot=kbd]:z-50 **:data-[slot=kbd]:rounded-none data-[state=delayed-open]:animate-in data-[state=delayed-open]:fade-in-0 data-[state=delayed-open]:zoom-in-95 data-open:animate-in data-open:fade-in-0 data-open:zoom-in-95 data-closed:animate-out data-closed:fade-out-0 data-closed:zoom-out-95",
54
+
className
55
+
)}
56
+
{...props}
57
+
>
58
+
{children}
59
+
<TooltipPrimitive.Arrow className="z-50 size-2.5 translate-y-[calc(-50%-2px)] rotate-45 rounded-none bg-foreground fill-foreground data-[side=bottom]:top-1 data-[side=inline-end]:top-1/2! data-[side=inline-end]:-left-1 data-[side=inline-end]:-translate-y-1/2 data-[side=inline-start]:top-1/2! data-[side=inline-start]:-right-1 data-[side=inline-start]:-translate-y-1/2 data-[side=left]:top-1/2! data-[side=left]:-right-1 data-[side=left]:-translate-y-1/2 data-[side=right]:top-1/2! data-[side=right]:-left-1 data-[side=right]:-translate-y-1/2 data-[side=top]:-bottom-2.5" />
60
+
</TooltipPrimitive.Popup>
61
+
</TooltipPrimitive.Positioner>
62
+
</TooltipPrimitive.Portal>
63
+
)
64
+
}
65
+
66
+
export { Tooltip, TooltipTrigger, TooltipContent, TooltipProvider }
+94
demo/frontend/src/index.css
+94
demo/frontend/src/index.css
···
1
+
@import "tw-animate-css";
2
+
@import "shadcn/tailwind.css";
3
+
@import "@fontsource-variable/jetbrains-mono";
4
+
@tailwind base;
5
+
@tailwind components;
6
+
@tailwind utilities;
7
+
8
+
@layer base {
9
+
.theme {
10
+
--font-heading: var(--font-mono);
11
+
--font-mono: 'JetBrains Mono Variable', monospace;
12
+
}
13
+
:root {
14
+
--background: oklch(1 0 0);
15
+
--foreground: oklch(0.145 0 0);
16
+
--card: oklch(1 0 0);
17
+
--card-foreground: oklch(0.145 0 0);
18
+
--popover: oklch(1 0 0);
19
+
--popover-foreground: oklch(0.145 0 0);
20
+
--primary: oklch(0.205 0 0);
21
+
--primary-foreground: oklch(0.985 0 0);
22
+
--secondary: oklch(0.97 0 0);
23
+
--secondary-foreground: oklch(0.205 0 0);
24
+
--muted: oklch(0.97 0 0);
25
+
--muted-foreground: oklch(0.556 0 0);
26
+
--accent: oklch(0.97 0 0);
27
+
--accent-foreground: oklch(0.205 0 0);
28
+
--destructive: oklch(0.577 0.245 27.325);
29
+
--border: oklch(0.922 0 0);
30
+
--input: oklch(0.922 0 0);
31
+
--ring: oklch(0.708 0 0);
32
+
--chart-1: oklch(0.87 0 0);
33
+
--chart-2: oklch(0.556 0 0);
34
+
--chart-3: oklch(0.439 0 0);
35
+
--chart-4: oklch(0.371 0 0);
36
+
--chart-5: oklch(0.269 0 0);
37
+
--radius: 0.625rem;
38
+
--sidebar: oklch(0.985 0 0);
39
+
--sidebar-foreground: oklch(0.145 0 0);
40
+
--sidebar-primary: oklch(0.205 0 0);
41
+
--sidebar-primary-foreground: oklch(0.985 0 0);
42
+
--sidebar-accent: oklch(0.97 0 0);
43
+
--sidebar-accent-foreground: oklch(0.205 0 0);
44
+
--sidebar-border: oklch(0.922 0 0);
45
+
--sidebar-ring: oklch(0.708 0 0);
46
+
}
47
+
.dark {
48
+
--background: oklch(0.145 0 0);
49
+
--foreground: oklch(0.985 0 0);
50
+
--card: oklch(0.205 0 0);
51
+
--card-foreground: oklch(0.985 0 0);
52
+
--popover: oklch(0.205 0 0);
53
+
--popover-foreground: oklch(0.985 0 0);
54
+
--primary: oklch(0.922 0 0);
55
+
--primary-foreground: oklch(0.205 0 0);
56
+
--secondary: oklch(0.269 0 0);
57
+
--secondary-foreground: oklch(0.985 0 0);
58
+
--muted: oklch(0.269 0 0);
59
+
--muted-foreground: oklch(0.708 0 0);
60
+
--accent: oklch(0.269 0 0);
61
+
--accent-foreground: oklch(0.985 0 0);
62
+
--destructive: oklch(0.704 0.191 22.216);
63
+
--border: oklch(1 0 0 / 10%);
64
+
--input: oklch(1 0 0 / 15%);
65
+
--ring: oklch(0.556 0 0);
66
+
--chart-1: oklch(0.87 0 0);
67
+
--chart-2: oklch(0.556 0 0);
68
+
--chart-3: oklch(0.439 0 0);
69
+
--chart-4: oklch(0.371 0 0);
70
+
--chart-5: oklch(0.269 0 0);
71
+
--sidebar: oklch(0.205 0 0);
72
+
--sidebar-foreground: oklch(0.985 0 0);
73
+
--sidebar-primary: oklch(0.488 0.243 264.376);
74
+
--sidebar-primary-foreground: oklch(0.985 0 0);
75
+
--sidebar-accent: oklch(0.269 0 0);
76
+
--sidebar-accent-foreground: oklch(0.985 0 0);
77
+
--sidebar-border: oklch(1 0 0 / 10%);
78
+
--sidebar-ring: oklch(0.556 0 0);
79
+
}
80
+
* {
81
+
border-color: var(--border);
82
+
outline-color: var(--ring);
83
+
}
84
+
body {
85
+
background-color: var(--background);
86
+
color: var(--foreground);
87
+
}
88
+
button:not(:disabled), [role="button"]:not(:disabled) {
89
+
cursor: pointer;
90
+
}
91
+
html {
92
+
font-family: 'JetBrains Mono Variable', monospace;
93
+
}
94
+
}
+6
demo/frontend/src/lib/utils.ts
+6
demo/frontend/src/lib/utils.ts
+25
demo/frontend/src/main.tsx
+25
demo/frontend/src/main.tsx
···
1
+
import { QueryClient, QueryClientProvider } from "@tanstack/react-query";
2
+
import { StrictMode } from "react";
3
+
import { createRoot } from "react-dom/client";
4
+
import { BrowserRouter } from "react-router-dom";
5
+
import App from "@/App";
6
+
import "@/index.css";
7
+
8
+
const queryClient = new QueryClient({
9
+
defaultOptions: {
10
+
queries: {
11
+
staleTime: 60_000,
12
+
retry: 1,
13
+
},
14
+
},
15
+
});
16
+
17
+
createRoot(document.getElementById("root")!).render(
18
+
<StrictMode>
19
+
<QueryClientProvider client={queryClient}>
20
+
<BrowserRouter>
21
+
<App />
22
+
</BrowserRouter>
23
+
</QueryClientProvider>
24
+
</StrictMode>,
25
+
);
+236
demo/frontend/src/pages/ExplorerPage.tsx
+236
demo/frontend/src/pages/ExplorerPage.tsx
···
1
+
import { MagnifyingGlass } from "@phosphor-icons/react";
2
+
import { useCallback, useEffect, useRef, useState } from "react";
3
+
import { useNavigate, useParams } from "react-router-dom";
4
+
import { useNeighborhood, useSearch } from "@/api/client";
5
+
import type { GraphData, SearchFilters } from "@/api/types";
6
+
import { Button } from "@/components/ui/button";
7
+
import FilterPanel from "@/components/FilterPanel";
8
+
import GraphVisualization from "@/components/GraphVisualization";
9
+
import NodeSidebar from "@/components/NodeSidebar";
10
+
import PaperCard from "@/components/PaperCard";
11
+
import SearchBar from "@/components/SearchBar";
12
+
13
+
const MAX_GRAPH_NODES = 500;
14
+
15
+
export default function ExplorerPage() {
16
+
const { nodeId: paramNodeId } = useParams<{ nodeId: string }>();
17
+
const navigate = useNavigate();
18
+
19
+
const [focusNodeId, setFocusNodeId] = useState<number | undefined>(
20
+
paramNodeId ? Number(paramNodeId) : undefined,
21
+
);
22
+
const [selectedNode, setSelectedNode] = useState<{
23
+
id: number;
24
+
type: string;
25
+
} | null>(null);
26
+
const [searchQuery, setSearchQuery] = useState("");
27
+
const [searchActive, setSearchActive] = useState(!paramNodeId);
28
+
const [filters, setFilters] = useState<SearchFilters>({
29
+
publishedOnly: false,
30
+
});
31
+
const [mergedGraph, setMergedGraph] = useState<GraphData>({
32
+
nodes: [],
33
+
edges: [],
34
+
});
35
+
const containerRef = useRef<HTMLDivElement>(null);
36
+
const [dimensions, setDimensions] = useState({ width: 800, height: 600 });
37
+
38
+
const { data: neighbourhood } = useNeighborhood(focusNodeId, 2);
39
+
const { data: searchResults } = useSearch(searchQuery, 20, "abstract_embedding", filters);
40
+
41
+
useEffect(() => {
42
+
if (!neighbourhood || !focusNodeId) return;
43
+
const node = neighbourhood.nodes.find((n) => n.id === focusNodeId);
44
+
if (node && (!selectedNode || selectedNode.id !== focusNodeId)) {
45
+
setSelectedNode({ id: node.id, type: node.type });
46
+
}
47
+
}, [neighbourhood, focusNodeId, selectedNode]);
48
+
49
+
useEffect(() => {
50
+
if (!neighbourhood) return;
51
+
setMergedGraph((prev) => {
52
+
const existingNodeIds = new Set(prev.nodes.map((n) => n.id));
53
+
const existingEdgeIds = new Set(prev.edges.map((e) => e.id));
54
+
const newNodes = neighbourhood.nodes.filter(
55
+
(n) => !existingNodeIds.has(n.id),
56
+
);
57
+
const newEdges = neighbourhood.edges.filter(
58
+
(e) => !existingEdgeIds.has(e.id),
59
+
);
60
+
if (newNodes.length === 0 && newEdges.length === 0) return prev;
61
+
62
+
let allNodes = [...prev.nodes, ...newNodes];
63
+
let allEdges = [...prev.edges, ...newEdges];
64
+
65
+
if (allNodes.length > MAX_GRAPH_NODES) {
66
+
allNodes = allNodes.slice(allNodes.length - MAX_GRAPH_NODES);
67
+
const nodeIds = new Set(allNodes.map((n) => n.id));
68
+
allEdges = allEdges.filter(
69
+
(e) => nodeIds.has(e.source) && nodeIds.has(e.target),
70
+
);
71
+
}
72
+
73
+
return { nodes: allNodes, edges: allEdges };
74
+
});
75
+
}, [neighbourhood]);
76
+
77
+
useEffect(() => {
78
+
const el = containerRef.current;
79
+
if (!el) return;
80
+
const ro = new ResizeObserver((entries) => {
81
+
const entry = entries[0];
82
+
if (entry) {
83
+
setDimensions({
84
+
width: entry.contentRect.width,
85
+
height: entry.contentRect.height,
86
+
});
87
+
}
88
+
});
89
+
ro.observe(el);
90
+
return () => ro.disconnect();
91
+
}, []);
92
+
93
+
const selectNode = useCallback(
94
+
(nodeId: number) => {
95
+
setFocusNodeId(nodeId);
96
+
setSearchActive(false);
97
+
setSearchQuery("");
98
+
navigate(`/explorer/${nodeId}`, { replace: true });
99
+
100
+
const existing = mergedGraph.nodes.find((n) => n.id === nodeId);
101
+
if (existing) {
102
+
setSelectedNode({ id: existing.id, type: existing.type });
103
+
}
104
+
},
105
+
[navigate, mergedGraph.nodes],
106
+
);
107
+
108
+
const handleNodeClick = useCallback(
109
+
(nodeId: number, nodeType: string) => {
110
+
setFocusNodeId(nodeId);
111
+
setSelectedNode({ id: nodeId, type: nodeType });
112
+
setSearchActive(false);
113
+
setSearchQuery("");
114
+
navigate(`/explorer/${nodeId}`, { replace: true });
115
+
},
116
+
[navigate],
117
+
);
118
+
119
+
const handleSearch = useCallback((_q: string, _t: string) => {
120
+
setSearchQuery(_q);
121
+
setSearchActive(true);
122
+
}, []);
123
+
124
+
const handleReset = useCallback(() => {
125
+
setMergedGraph({ nodes: [], edges: [] });
126
+
setFocusNodeId(undefined);
127
+
setSelectedNode(null);
128
+
setSearchActive(true);
129
+
navigate("/explorer", { replace: true });
130
+
}, [navigate]);
131
+
132
+
const handleCloseSidebar = useCallback(() => {
133
+
setSelectedNode(null);
134
+
}, []);
135
+
136
+
const sidebarWidth = selectedNode ? 380 : 0;
137
+
const graphWidth = dimensions.width - sidebarWidth;
138
+
139
+
return (
140
+
<div className="flex h-screen flex-col">
141
+
<div ref={containerRef} className="relative flex-1 flex overflow-hidden">
142
+
<div className="flex-1 relative">
143
+
{mergedGraph.nodes.length > 0 ? (
144
+
<GraphVisualization
145
+
data={mergedGraph}
146
+
width={graphWidth > 0 ? graphWidth : dimensions.width}
147
+
height={dimensions.height}
148
+
selectedNodeId={selectedNode?.id}
149
+
onNodeClick={handleNodeClick}
150
+
/>
151
+
) : (
152
+
<div className="flex h-full items-center justify-center">
153
+
<div className="text-center">
154
+
<MagnifyingGlass className="mx-auto mb-2 size-6 text-muted-foreground/30" />
155
+
<p className="text-xs text-muted-foreground">
156
+
Search for a paper to start exploring
157
+
</p>
158
+
</div>
159
+
</div>
160
+
)}
161
+
162
+
<div className="absolute top-3 left-3 right-3 z-10 pointer-events-none">
163
+
<div className="mx-auto max-w-xl pointer-events-auto">
164
+
<div className="flex gap-2">
165
+
<div className="flex-1">
166
+
<SearchBar onSearch={handleSearch} />
167
+
</div>
168
+
{mergedGraph.nodes.length > 0 && (
169
+
<Button variant="outline" size="sm" onClick={handleReset}>
170
+
Reset
171
+
</Button>
172
+
)}
173
+
</div>
174
+
<div className="mt-1.5">
175
+
<FilterPanel filters={filters} onChange={setFilters} />
176
+
</div>
177
+
178
+
{searchActive &&
179
+
searchResults &&
180
+
searchResults.results.length > 0 && (
181
+
<div className="mt-2 max-h-[60vh] overflow-y-auto border bg-background/90 backdrop-blur-md p-2 space-y-1.5">
182
+
<p className="text-[10px] text-muted-foreground px-1">
183
+
{searchResults.results.length} results
184
+
</p>
185
+
{searchResults.results.map((p) => (
186
+
<PaperCard
187
+
key={p.node_id}
188
+
paper={p}
189
+
onNavigate={selectNode}
190
+
/>
191
+
))}
192
+
</div>
193
+
)}
194
+
</div>
195
+
</div>
196
+
</div>
197
+
198
+
{selectedNode && (
199
+
<div className="w-[380px] shrink-0 h-full overflow-hidden">
200
+
<NodeSidebar
201
+
key={selectedNode.id}
202
+
nodeId={selectedNode.id}
203
+
nodeType={selectedNode.type}
204
+
onClose={handleCloseSidebar}
205
+
onNavigate={selectNode}
206
+
/>
207
+
</div>
208
+
)}
209
+
</div>
210
+
211
+
<div className="border-t bg-card/50 px-4 py-1.5 shrink-0">
212
+
<div className="flex items-center gap-3 text-[10px] text-muted-foreground">
213
+
<span className="tabular-nums">
214
+
{mergedGraph.nodes.length} nodes, {mergedGraph.edges.length} edges
215
+
</span>
216
+
<span className="flex items-center gap-1">
217
+
<span className="inline-block h-2 w-2 rounded-full bg-[#3b82f6]" />
218
+
Paper
219
+
</span>
220
+
<span className="flex items-center gap-1">
221
+
<span className="inline-block h-2 w-2 rounded-full bg-[#22c55e]" />
222
+
Author
223
+
</span>
224
+
<span className="flex items-center gap-1">
225
+
<span className="inline-block h-1 w-3 rounded bg-[#64748b]" />
226
+
Cites
227
+
</span>
228
+
<span className="flex items-center gap-1">
229
+
<span className="inline-block h-1 w-3 rounded bg-[#f97316]" />
230
+
Authored
231
+
</span>
232
+
</div>
233
+
</div>
234
+
</div>
235
+
);
236
+
}
+22
demo/frontend/src/vite-env.d.ts
+22
demo/frontend/src/vite-env.d.ts
···
1
+
/// <reference types="vite/client" />
2
+
3
+
declare module "react-force-graph-2d" {
4
+
interface ForceGraphProps {
5
+
graphData?: { nodes: object[]; links: object[] };
6
+
width?: number;
7
+
height?: number;
8
+
backgroundColor?: string;
9
+
nodeCanvasObject?: (node: never, ctx: CanvasRenderingContext2D, globalScale: number) => void;
10
+
linkCanvasObject?: (link: never, ctx: CanvasRenderingContext2D, globalScale: number) => void;
11
+
onNodeClick?: (node: never, event: MouseEvent) => void;
12
+
onEngineStop?: () => void;
13
+
nodeLabel?: string | ((node: never) => string);
14
+
cooldownTicks?: number;
15
+
enableZoomInteraction?: boolean;
16
+
enablePanInteraction?: boolean;
17
+
[key: string]: unknown;
18
+
}
19
+
20
+
const ForceGraph2D: React.ForwardRefExoticComponent<ForceGraphProps & React.RefAttributes<unknown>>;
21
+
export default ForceGraph2D;
22
+
}
+70
demo/frontend/tailwind.config.js
+70
demo/frontend/tailwind.config.js
···
1
+
/** @type {import('tailwindcss').Config} */
2
+
export default {
3
+
content: ["./index.html", "./src/**/*.{ts,tsx}"],
4
+
darkMode: "class",
5
+
theme: {
6
+
extend: {
7
+
colors: {
8
+
background: "var(--background)",
9
+
foreground: "var(--foreground)",
10
+
card: {
11
+
DEFAULT: "var(--card)",
12
+
foreground: "var(--card-foreground)",
13
+
},
14
+
popover: {
15
+
DEFAULT: "var(--popover)",
16
+
foreground: "var(--popover-foreground)",
17
+
},
18
+
primary: {
19
+
DEFAULT: "var(--primary)",
20
+
foreground: "var(--primary-foreground)",
21
+
},
22
+
secondary: {
23
+
DEFAULT: "var(--secondary)",
24
+
foreground: "var(--secondary-foreground)",
25
+
},
26
+
muted: {
27
+
DEFAULT: "var(--muted)",
28
+
foreground: "var(--muted-foreground)",
29
+
},
30
+
accent: {
31
+
DEFAULT: "var(--accent)",
32
+
foreground: "var(--accent-foreground)",
33
+
},
34
+
destructive: {
35
+
DEFAULT: "var(--destructive)",
36
+
foreground: "var(--destructive-foreground)",
37
+
},
38
+
border: "var(--border)",
39
+
input: "var(--input)",
40
+
ring: "var(--ring)",
41
+
chart: {
42
+
1: "var(--chart-1)",
43
+
2: "var(--chart-2)",
44
+
3: "var(--chart-3)",
45
+
4: "var(--chart-4)",
46
+
5: "var(--chart-5)",
47
+
},
48
+
sidebar: {
49
+
DEFAULT: "var(--sidebar)",
50
+
foreground: "var(--sidebar-foreground)",
51
+
primary: "var(--sidebar-primary)",
52
+
"primary-foreground": "var(--sidebar-primary-foreground)",
53
+
accent: "var(--sidebar-accent)",
54
+
"accent-foreground": "var(--sidebar-accent-foreground)",
55
+
border: "var(--sidebar-border)",
56
+
ring: "var(--sidebar-ring)",
57
+
},
58
+
},
59
+
borderRadius: {
60
+
lg: "var(--radius)",
61
+
md: "calc(var(--radius) - 2px)",
62
+
sm: "calc(var(--radius) - 4px)",
63
+
},
64
+
fontFamily: {
65
+
mono: ["'JetBrains Mono Variable'", "monospace"],
66
+
},
67
+
},
68
+
},
69
+
plugins: [],
70
+
};
+24
demo/frontend/tsconfig.json
+24
demo/frontend/tsconfig.json
···
1
+
{
2
+
"compilerOptions": {
3
+
"target": "ES2022",
4
+
"lib": ["ES2022", "DOM", "DOM.Iterable"],
5
+
"module": "ESNext",
6
+
"skipLibCheck": true,
7
+
"moduleResolution": "bundler",
8
+
"allowImportingTsExtensions": true,
9
+
"isolatedModules": true,
10
+
"moduleDetection": "force",
11
+
"noEmit": true,
12
+
"jsx": "react-jsx",
13
+
"strict": true,
14
+
"noUnusedLocals": true,
15
+
"noUnusedParameters": true,
16
+
"noFallthroughCasesInSwitch": true,
17
+
"noUncheckedIndexedAccess": true,
18
+
"baseUrl": ".",
19
+
"paths": {
20
+
"@/*": ["./src/*"]
21
+
}
22
+
},
23
+
"include": ["src"]
24
+
}
+17
demo/frontend/vite.config.ts
+17
demo/frontend/vite.config.ts
···
1
+
import path from "path";
2
+
import { defineConfig } from "vite";
3
+
import react from "@vitejs/plugin-react";
4
+
5
+
export default defineConfig({
6
+
plugins: [react()],
7
+
resolve: {
8
+
alias: {
9
+
"@": path.resolve(__dirname, "./src"),
10
+
},
11
+
},
12
+
server: {
13
+
proxy: {
14
+
"/api": "http://localhost:8000",
15
+
},
16
+
},
17
+
});
+2
-19
lib/gvecdb.ml
+2
-19
lib/gvecdb.ml
···
153
153
(fun () ->
154
154
let node_count = Hnsw_mvcc.table_node_count table in
155
155
if node_count > 0 then begin
156
-
(* build slot_id set from LMDB hnsw_slots for this tag *)
157
156
let lmdb_slots =
158
157
match tag_id_opt with
159
158
| None -> Hashtbl.create 0
···
167
166
tbl)
168
167
(Hashtbl.create (node_count * 2))
169
168
in
170
-
(* scan HNSW nodes and fix discrepancies *)
171
169
let hnsw_txn = Hnsw_mvcc.begin_write mvcc in
172
170
let changed = ref false in
173
171
for slot_id = 0 to node_count - 1 do
···
190
188
in
191
189
Hnsw_mvcc.set_entry_point hnsw_txn ~entry_point:ep
192
190
~max_level:level;
193
-
(* commit result matters for crash consistency *)
194
191
match Hnsw_mvcc.commit mvcc hnsw_txn with
195
192
| Ok () -> ()
196
193
| Error e ->
···
211
208
let hnsw_epoch = Hnsw_mvcc.get_epoch mvcc in
212
209
let lmdb_epoch = get_lmdb_hnsw_epoch t.db tag_name in
213
210
if hnsw_epoch <> lmdb_epoch then begin
214
-
(* epoch mismatch crash between HNSW commit and LMDB commit.
215
-
Reconcile HNSW to match LMDB (source of truth), then sync epochs *)
211
+
(* LMDB is source of truth; mismatch means crash between HNSW commit and LMDB commit *)
216
212
reconcile_hnsw t tag_name;
217
213
let current_epoch = Hnsw_mvcc.get_epoch mvcc in
218
214
ignore
···
669
665
(Lmdb.Map.get t.db.hnsw_slots ?txn slot_key))
670
666
with Not_found | Lmdb.Not_found | Invalid_argument _ -> None
671
667
in
672
-
(* mark deleted in MVCC file *)
673
668
(match (slot_id_opt, Hashtbl.find_opt t.hnsw_mvcc vector_tag) with
674
669
| Some slot_id, Some mvcc ->
675
670
let table = Hnsw_mvcc.begin_read mvcc in
···
697
692
| Error _ -> Hnsw_mvcc.rollback mvcc hnsw_txn)
698
693
| None -> ())
699
694
| _ -> ());
700
-
(* remove slot mapping from LMDB *)
701
695
(try Lmdb.Map.remove t.db.hnsw_slots ?txn slot_key
702
696
with Not_found | Lmdb.Not_found -> ());
703
-
(* remove from LMDB *)
704
697
Lmdb.Map.remove t.db.vector_owners ?txn key;
705
698
let index_key =
706
699
Keys.encode_vector_index_bs ~owner_kind ~owner_id ~vector_tag_id
···
718
711
let delete_vector (t : t) ~txn (vector_id : vector_id) : (unit, error) result =
719
712
delete_vector_internal t ~txn vector_id
720
713
721
-
(* delete all vectors attached to an owner (node or edge). Used for cascade
722
-
deletes. silently ignores already-deleted vectors *)
723
714
let delete_vectors_for_owner (t : t) ?txn (owner_kind : owner_kind)
724
715
(owner_id : id) : (unit, error) result =
725
716
let prefix = Keys.encode_vector_index_prefix_bs ~owner_kind ~owner_id () in
···
751
742
752
743
let delete_node (t : t) ?txn (node_id : node_id) : (unit, error) result =
753
744
let key = Keys.encode_id_bs node_id in
754
-
(* check node exists first *)
755
745
let node_meta_exists =
756
746
try
757
747
let _ = Lmdb.Map.get t.db.node_meta ?txn key in
···
761
751
if not node_meta_exists then Error (Node_not_found node_id)
762
752
else
763
753
try
764
-
(* 1. delete all vectors directly attached to this node *)
765
754
let* () = delete_vectors_for_owner t ?txn Node node_id in
766
-
(* 2. get all outbound edges and delete them (with their vectors) *)
767
755
let* outbound_edges = get_outbound_edges t ?txn node_id () in
768
756
let rec delete_edges = function
769
757
| [] -> Ok ()
···
773
761
delete_edges rest
774
762
in
775
763
let* () = delete_edges outbound_edges in
776
-
(* 3. get all inbound edges and delete them (with their vectors) *)
777
764
let* inbound_edges = get_inbound_edges t ?txn node_id () in
778
765
let* () = delete_edges inbound_edges in
779
-
(* 4. delete the node itself *)
780
766
Lmdb.Map.remove t.db.nodes ?txn key;
781
767
Lmdb.Map.remove t.db.node_meta ?txn key;
782
768
Ok ()
···
852
838
(metric_to_string metric)
853
839
(metric_to_string index_metric)))
854
840
else
855
-
(* capture MVCC snapshot *)
856
841
let table = Hnsw_mvcc.begin_read mvcc in
857
842
Fun.protect
858
843
~finally:(fun () -> Hnsw_mvcc.end_read mvcc table)
···
885
870
in
886
871
let results = Hnsw_mvcc.search_mvcc ctx ~k ~ef in
887
872
888
-
(* convert to knn_result *)
889
873
let results_with_info =
890
874
List.filter_map
891
875
(fun (slot_id, dist) ->
···
925
909
if vtag_id = target_tag_id then (vid, offset) :: acc else acc)
926
910
[]
927
911
in
912
+
(* Rw cursor for in-place deletion; can't use fold_prefix *)
928
913
let clear_slot_mappings tag_id =
929
914
let prefix = Keys.encode_id_bs tag_id in
930
915
let prefix_len = Bigstring.length prefix in
···
966
951
(match tag_id_opt with
967
952
| Some tag_id -> clear_slot_mappings tag_id
968
953
| None -> ());
969
-
(* create fresh MVCC file *)
970
954
match Hnsw_mvcc.create file_path ~metric ~params:hnsw_params () with
971
955
| Error e -> Error (Storage_error (Hnsw_mvcc.error_to_string e))
972
956
| Ok mvcc ->
···
976
960
Ok ()
977
961
end
978
962
else begin
979
-
(* get dimension from first vector *)
980
963
let dim =
981
964
match List.hd vectors with
982
965
| _, offset -> (
+2
-20
lib/hnsw_mvcc.ml
+2
-20
lib/hnsw_mvcc.ml
···
203
203
let fd = Unix.openfile path Unix.[ O_RDWR; O_CREAT; O_TRUNC ] 0o644 in
204
204
Unix.ftruncate fd initial_file_size;
205
205
let mmap = create_mmap fd initial_file_size in
206
-
(* superblock *)
207
206
for i = 0 to 7 do
208
207
Bigstringaf.set mmap (sb_magic_off + i) (String.get magic i)
209
208
done;
···
218
217
Bigstringaf.set_int64_le mmap sb_ml_off (Int64.bits_of_float params.ml);
219
218
Bigstringaf.set_int32_le mmap sb_checksum_off
220
219
(Hnsw_page.crc32 mmap 0 sb_checksum_off);
221
-
(* empty page tables *)
222
220
let empty =
223
221
{
224
222
epoch = 1L;
···
446
444
try
447
445
update_layout t txn.new_dimension;
448
446
let layout = t.layout in
449
-
(* Flush overlay to dirty_pages *)
450
447
(match txn.overlay with
451
448
| None -> ()
452
449
| Some ov ->
···
468
465
Hashtbl.fold (fun pid page acc -> (pid, page) :: acc) txn.dirty_pages []
469
466
|> List.sort (fun (a, _) (b, _) -> compare a b)
470
467
in
471
-
(* allocate space: append-only, old pages are abandoned *)
468
+
(* append-only: old pages are abandoned, not reclaimed *)
472
469
let write_offset = ref txn.base_table.max_data_offset in
473
470
let new_offsets =
474
471
Array.init new_page_count (fun pid ->
···
485
482
dirty_list
486
483
in
487
484
let new_max_offset = !write_offset in
488
-
(* grow file if needed *)
489
485
let needed = Int64.to_int new_max_offset in
490
486
let initial_file_size = initial_file_size_for_layout layout in
491
487
if needed > t.file_size then
492
488
grow_file t (max (t.file_size * 2) (needed + initial_file_size));
493
-
(* write pages *)
494
489
List.iter
495
490
(fun (off, page) ->
496
491
Hnsw_page.blit_page_to_mmap page t.mmap
497
492
~dst_off:(Int64.to_int off) ~len:layout.page_size)
498
493
allocations;
499
-
(* build new page table *)
500
494
let new_table =
501
495
{
502
496
epoch = Int64.add txn.base_epoch 1L;
···
513
507
let shadow = 1 - t.active_which in
514
508
write_page_table t.mmap shadow new_table;
515
509
Msync.msync t.mmap;
516
-
(* atomic swap *)
510
+
(* atomic swap: linearization point of the commit *)
517
511
Bigstringaf.set_int64_le t.mmap sb_active_root_off (Int64.of_int shadow);
518
512
Bigstringaf.set_int32_le t.mmap sb_checksum_off
519
513
(Hnsw_page.crc32 t.mmap 0 sb_checksum_off);
···
550
544
let table_max_level table = table.max_level
551
545
let table_node_count table = table.node_count
552
546
553
-
(* Search context for MVCC-based search *)
554
547
type search_context = {
555
548
mvcc : t;
556
549
table : page_table;
···
567
560
| _ when n <= 0 -> List.rev acc
568
561
| x :: rest -> take_n (n - 1) (x :: acc) rest
569
562
570
-
(* Beam search on MVCC snapshot - single layer *)
571
563
let search_layer_mvcc ?(visited_size = 0) ctx ~entry_points ~ef ~layer =
572
564
let n_slots = max visited_size ctx.table.node_count in
573
565
let visited = Bitset.create (n_slots + 1) in
···
614
606
else ctx.dist_from_offset (fo + Hnsw_page.node_vec_header_off))
615
607
in
616
608
617
-
(* Initialize with entry points *)
618
609
List.iter
619
610
(fun ep ->
620
611
if not (Bitset.test_and_set visited ep) then begin
···
626
617
end)
627
618
entry_points;
628
619
629
-
(* Expand candidates *)
630
620
let rec expand () =
631
621
match Int_heap.pop candidates with
632
622
| None -> ()
···
646
636
end
647
637
end
648
638
in
649
-
(* Check overlay first, then fall back to mmap accessors *)
650
639
let from_overlay =
651
640
match overlay with
652
641
| Some ov -> Hashtbl.find_opt ov c_slot
···
674
663
expand ();
675
664
Int_topk.to_sorted_list results |> List.map (fun (dist, slot) -> (slot, dist))
676
665
677
-
(* Full HNSW search on MVCC snapshot *)
678
666
let search_mvcc ctx ~k ~ef =
679
667
let table = ctx.table in
680
668
if table.entry_point < 0 then []
···
712
700
if remaining > 0 then selected @ take_n remaining [] discarded
713
701
else selected
714
702
715
-
(* Insert into MVCC with inline vector data.
716
-
inline_vec: the raw vector bytes (16-byte header + dim*4 float32 data)
717
-
compute_distance: takes a byte offset into the HNSW mmap (at vec header)
718
-
and returns distance to the query vector
719
-
compute_pairwise_distance: takes two vector_ids (int64) and returns the
720
-
distance between them (used for neighbor pruning, reads from vector_file) *)
721
703
let insert_mvcc t txn ~vector_id ~inline_vec ~compute_distance
722
704
~dist_from_inline ~compute_pairwise_distance ~dimension =
723
705
let params = t.params in
-1
lib/schema_registry.ml
-1
lib/schema_registry.ml
···
310
310
{ type_name; kind; data_word_count = dwc; pointer_count = pc;
311
311
fields; field_by_name }
312
312
313
-
(* In-memory cache -- keyed by type_name *)
314
313
let schema_cache : (string, registered_schema) Hashtbl.t = Hashtbl.create 16
315
314
316
315
let register_schema_from_capnp (db : t)
-2
lib/store.ml
-2
lib/store.ml
···
4
4
let default_map_size = 10 * 1024 * 1024 * 1024
5
5
6
6
let vector_file_path (lmdb_path : string) : string =
7
-
(* LMDB path is the .db file, vector file is alongside it *)
8
7
let base = Filename.remove_extension lmdb_path in
9
8
base ^ ".vectors"
10
9
···
17
16
Filename.concat dir (tag ^ ".hnsw")
18
17
19
18
let create ?(map_size = default_map_size) (path : string) : (t, error) result =
20
-
(* First try to create the vector file *)
21
19
let vec_path = vector_file_path path in
22
20
match Vector_file.create vec_path with
23
21
| Error e -> Error (Storage_error (Vector_file.error_to_string e))
+3
-3
server/main.ml
+3
-3
server/main.ml
···
9
9
in
10
10
Gvecdb.load_all_schemas db;
11
11
Switch.run @@ fun sw ->
12
-
let service_id = Capnp_rpc_unix.Vat_config.derived_id config "main" in
13
12
let service = Gvecdb_rpc.Gvecdb_service.local db in
13
+
let service_id =
14
+
Capnp_rpc_net.Restorer.Id.public "" in
14
15
let restore = Capnp_rpc_net.Restorer.single service_id service in
15
16
let vat = Capnp_rpc_unix.serve ~sw ~restore config in
16
17
(match Capnp_rpc_unix.Cap_file.save_service vat service_id "gvecdb.cap" with
17
18
| Error (`Msg m) -> traceln "Warning: could not save cap file: %s" m
18
19
| Ok () -> traceln "Saved capability to gvecdb.cap");
19
-
let uri = Vat.sturdy_uri vat service_id in
20
-
traceln "gvecdb server running at:@.%a" Uri.pp_hum uri;
20
+
traceln "gvecdb server running";
21
21
traceln "Database: %s" db_path;
22
22
Fiber.await_cancel ()
23
23