Querying DuckDB Data as a Graph

Summary

In this tutorial, you will:

Start a PuppyGraph container alongside a DuckDB helper container that shares a database file with PuppyGraph.
Connect the DuckDB file to PuppyGraph and define a graph schema.
Run Cypher and Gremlin queries against the DuckDB data as a graph.

Self-contained DuckDB Data

DuckDB is an in-process database backed by a single file. This tutorial uses a small helper container with the duckdb CLI to seed demo.db on a shared volume, then PuppyGraph reads that same file.

In real deployments, mount your existing .duckdb file into the PuppyGraph container at the path referenced by the JDBC URI. See Connecting to DuckDB for the connection reference.

Prerequisites

Please ensure that docker compose is available. The installation can be verified by running:

docker compose version

See https://docs.docker.com/compose/install/ for Docker Compose installation instructions and https://www.docker.com/get-started/ for more details on Docker.

Accessing the PuppyGraph Web UI requires a browser. The schema upload and query steps also have CLI alternatives via curl and the bundled Gremlin console.

Setup

Deployment

Create a file docker-compose.yaml with the following content:

docker-compose.yaml

version: "3"
services:
  puppygraph:
    image: puppygraph/puppygraph:latest
    pull_policy: always
    container_name: puppygraph
    environment:
      - PUPPYGRAPH_USERNAME=puppygraph
      - PUPPYGRAPH_PASSWORD=puppygraph123
    networks:
      - duckdb_net
    ports:
      - "8081:8081"
      - "8182:8182"
      - "7687:7687"
    volumes:
      - share_content:/home/share
  duckdb:
    image: puppygraph/duckdb-ubuntu:latest
    container_name: duckdb
    networks:
      - duckdb_net
    volumes:
      - share_content:/home/share
networks:
  duckdb_net:
    name: puppy-duckdb
volumes:
  share_content:
    name: puppy-duckdb

The two containers share a Docker volume mounted at /home/share. The duckdb helper writes /home/share/demo.db, and PuppyGraph reads the same file via its mount.

Start the stack:

docker compose up -d

[+] Running 3/3
 ✔ Network puppy-duckdb         Created                                      0.1s
 ✔ Container duckdb             Started                                      0.6s
 ✔ Container puppygraph         Started                                      0.7s

Data Preparation

Open a duckdb shell against /home/share/demo.db (DuckDB creates the file if it doesn't exist):

docker exec -it duckdb duckdb /home/share/demo.db

Paste the following SQL into the prompt to create the schema and insert data:

modern.sql

create schema modern;

create table modern.software (
    id   text,
    name text,
    lang text
);
insert into modern.software values ('v3', 'lop', 'java'), ('v5', 'ripple', 'java');

create table modern.person (
    id   text,
    name text,
    age  integer
);
insert into modern.person values
    ('v1', 'marko', 29),
    ('v2', 'vadas', 27),
    ('v4', 'josh',  32),
    ('v6', 'peter', 35);

create table modern.created (
    id      text,
    from_id text,
    to_id   text,
    weight  double precision
);
insert into modern.created values
    ('e9',  'v1', 'v3', 0.4),
    ('e10', 'v4', 'v5', 1.0),
    ('e11', 'v4', 'v3', 0.4),
    ('e12', 'v6', 'v3', 0.2);

create table modern.knows (
    id      text,
    from_id text,
    to_id   text,
    weight  double precision
);
insert into modern.knows values
    ('e7', 'v1', 'v2', 0.5),
    ('e8', 'v1', 'v4', 1.0);

Type .exit to leave the duckdb shell so the changes flush to demo.db on disk.

The above creates four tables under the modern schema.

personsoftwarecreatedknows

id	name	age
v1	marko	29
v2	vadas	27
v4	josh	32
v6	peter	35

id	name	lang
v3	lop	java
v5	ripple	java

id	from_id	to_id	weight
e9	v1	v3	0.4
e10	v4	v5	1.0
e11	v4	v3	0.4
e12	v6	v3	0.2

id	from_id	to_id	weight
e7	v1	v2	0.5
e8	v1	v4	1.0

Modeling a Graph

We model the data as the TinkerPop modern graph: two node types (person, software) and two edge types (knows, created).

First, log into the PuppyGraph Web UI at http://localhost:8081 with the credentials configured above:

Field	Value
Username	`puppygraph`
Password	`puppygraph123`

There are two ways to define the schema in PuppyGraph: build it interactively in the Schema Builder, or upload a JSON file directly. Pick whichever you prefer; both produce the same graph.

Build the graph in the Schema Builder

The Schema Builder is the visual editor in the PuppyGraph Web UI for adding catalogs, nodes, and edges step by step. It's the recommended path when you're modeling a graph for the first time or want to inspect what each click produces. For a deeper visual walkthrough of every dialog and field, see Modeling a Graph through the Schema Builder. The summary below covers what's needed to build the modern graph against this tutorial's DuckDB data.

Connecting to DuckDB

Click Create Catalog, then expand Query Engines and pick DuckDB.

Fill in the connection form (DuckDB has no username or password):

Field	Value
Catalog name	`duckdb_data`
JDBC Connection String	`jdbc:duckdb:/home/share/demo.db`

Click Create Catalog.

Adding nodes

Click Add Node in the toolbar. The Select Table for Node dialog opens. Expand duckdb_data then modern, pick software, then click Next.

In the Add Node wizard, click Add to ID and select id from the dropdown. The wizard moves id into ID Columns, leaving name and lang as attributes. Click Next, leave Enable Local Replication off, then click Add Node.

Repeat for person. The flow is the same: click Add Node, pick the table, click Next, assign id to ID Columns, leave replication off, click Add Node.

Adding edges

Click Add Edge in the toolbar, pick created from the catalog tree, then click Next.

In the Add Edge wizard, set:

Field	Value
From Node	`person`
To Node	`software`
FROM `Select Column`	`from_id`
TO `Select Column`	`to_id`

Click Add to ID and select id to set the edge identifier. Click Next, leave Enable Local Replication off, then click Add Edge.

Repeat for knows with both From Node and To Node set to person. The other settings are identical to created.

Upload a schema file

If you've already built the graph in the Schema Builder above, you can skip this section. The resulting schema is the same.

This method writes the full schema to a JSON file and uploads it directly. It's useful when you already have a schema for an environment and want to recreate it elsewhere (e.g. for CI, scripted setup, or copy-pasting between PuppyGraph instances).

Create a file schema.json with the following content:

schema.json

{
  "catalog": [
    {
      "name": "duckdb_data",
      "type": "duckdb",
      "jdbc": {
        "jdbcUri": "jdbc:duckdb:/home/share/demo.db"
      }
    }
  ],
  "node": [
    {
      "label": "software",
      "dataSourceGroup": {
        "externalDataSource": {
          "enabled": true,
          "catalog": "duckdb_data",
          "schema": "modern",
          "table": "software",
          "mappedField": [
            { "sourceFieldName": "id",   "targetFieldName": "id"   },
            { "sourceFieldName": "name", "targetFieldName": "name" },
            { "sourceFieldName": "lang", "targetFieldName": "lang" }
          ]
        }
      },
      "id":        [{ "name": "id",   "type": "STRING" }],
      "attribute": [
        { "name": "name", "type": "STRING" },
        { "name": "lang", "type": "STRING" }
      ]
    },
    {
      "label": "person",
      "dataSourceGroup": {
        "externalDataSource": {
          "enabled": true,
          "catalog": "duckdb_data",
          "schema": "modern",
          "table": "person",
          "mappedField": [
            { "sourceFieldName": "id",   "targetFieldName": "id"   },
            { "sourceFieldName": "name", "targetFieldName": "name" },
            { "sourceFieldName": "age",  "targetFieldName": "age"  }
          ]
        }
      },
      "id":        [{ "name": "id",   "type": "STRING" }],
      "attribute": [
        { "name": "name", "type": "STRING" },
        { "name": "age",  "type": "INT"    }
      ]
    }
  ],
  "edge": [
    {
      "label":         "created",
      "fromNodeLabel": "person",
      "toNodeLabel":   "software",
      "dataSourceGroup": {
        "externalDataSource": {
          "enabled": true,
          "catalog": "duckdb_data",
          "schema": "modern",
          "table": "created",
          "mappedField": [
            { "sourceFieldName": "id",      "targetFieldName": "id"      },
            { "sourceFieldName": "from_id", "targetFieldName": "from_id" },
            { "sourceFieldName": "to_id",   "targetFieldName": "to_id"   },
            { "sourceFieldName": "weight",  "targetFieldName": "weight"  }
          ]
        }
      },
      "id":        [{ "name": "id",      "type": "STRING" }],
      "fromKey":   [{ "name": "from_id", "type": "STRING" }],
      "toKey":     [{ "name": "to_id",   "type": "STRING" }],
      "attribute": [
        { "name": "from_id", "type": "STRING" },
        { "name": "to_id",   "type": "STRING" },
        { "name": "weight",  "type": "DOUBLE" }
      ]
    },
    {
      "label":         "knows",
      "fromNodeLabel": "person",
      "toNodeLabel":   "person",
      "dataSourceGroup": {
        "externalDataSource": {
          "enabled": true,
          "catalog": "duckdb_data",
          "schema": "modern",
          "table": "knows",
          "mappedField": [
            { "sourceFieldName": "id",      "targetFieldName": "id"      },
            { "sourceFieldName": "from_id", "targetFieldName": "from_id" },
            { "sourceFieldName": "to_id",   "targetFieldName": "to_id"   },
            { "sourceFieldName": "weight",  "targetFieldName": "weight"  }
          ]
        }
      },
      "id":        [{ "name": "id",      "type": "STRING" }],
      "fromKey":   [{ "name": "from_id", "type": "STRING" }],
      "toKey":     [{ "name": "to_id",   "type": "STRING" }],
      "attribute": [
        { "name": "from_id", "type": "STRING" },
        { "name": "to_id",   "type": "STRING" },
        { "name": "weight",  "type": "DOUBLE" }
      ]
    }
  ]
}

In the Web UI, click Graph in the sidebar, then Upload Schema, and select schema.json.

Upload via CLI

You can also POST the schema directly:

curl -X POST -H "content-type: application/json" \
  --data-binary @./schema.json \
  --user "puppygraph:puppygraph123" \
  http://localhost:8081/schema

Querying the Graph

In the PuppyGraph Web UI, click Query in the sidebar. You can run graph queries in either Cypher or Gremlin.

The following query answers "What software was created by people that marko knows?"

CypherGremlin

MATCH path = (p:person)-[:knows]->()-[:created]->()
WHERE p.name = 'marko'
RETURN path;

g.V().hasLabel('person').has('name', 'marko')
  .out('knows').out('created').path()

There are two paths in the result: marko knows josh, who created lop and ripple.

Cleanup

Shut down the containers and remove the shared volume:

docker compose down -v