moncpipelib 0.39.4

Shared utilities for Model Oncology data pipelines

moncpipelib

moncpipelib is a Dagster-based data-pipeline framework: it provides the resources, IO managers, contract enforcement, lineage, and ingest patterns that Dagster code locations compose into pipelines. It owns the I/O boundary policy (streaming-by-default reads/writes against Postgres and blob), the contract/lineage policy, and the partition/period coordination model.

It is maintained by Model Oncology and developed against our internal data-pipeline needs, released under the Apache 2.0 license.

Features

• PostgreSQL IO Manager -- write Polars DataFrames to PostgreSQL with multiple write modes (full refresh, upsert, append, partitioned)
• PostgreSQL Resource -- streaming/batched reads for large tables via server-side cursors
• Row-level lineage tracking -- UUID7-based lineage with foreign key to a centralized lineage table
• Data contracts -- declarative YAML-based schema validation, auto-enforced on write
• OpenLineage integration -- emit lineage events to Marquez, DataHub, or other backends
• Data transforms -- clean_text, safe_decimal, safe_bool, safe_date, and more

Installation

uv add moncpipelib
# or
pip install moncpipelib

Requires Python 3.11+.

To work from source:

git clone https://github.com/model-oncology-public/moncpipelib
cd moncpipelib
uv sync --all-extras --dev

Quick Start

from dagster import asset, Definitions, EnvVar
import polars as pl
from moncpipelib import PostgresResource, PostgresIOManager, clean_text, safe_decimal

database = PostgresResource(
    host=EnvVar("DB_HOST"), port=EnvVar.int("DB_PORT"),
    user=EnvVar("DB_USER"), password=EnvVar("DB_PASSWORD"),
    database=EnvVar("DB_NAME"),
)

@asset
def orders_bronze(database: PostgresResource) -> pl.DataFrame:
    return database.read_batched_to_dataframe("SELECT * FROM raw.orders")

@asset(io_manager_key="silver_io_manager")
def orders_silver(orders_bronze: pl.DataFrame) -> pl.DataFrame:
    return orders_bronze.select([
        clean_text("order_id"),
        safe_decimal("amount"),
    ])

defs = Definitions(
    assets=[orders_bronze, orders_silver],
    resources={
        "database": database,
        "silver_io_manager": PostgresIOManager(
            postgres_resource=database,
            default_schema="silver",
        ),
    },
)

For more examples, see the auto-generated Cookbook.

Documentation

Topic	Link
Usage examples (auto-generated)	docs/cookbook.md
Database resources and IO managers	docs/best-practices.md
Data contracts specification	docs/data-contracts-spec.md
Row-level lineage tracking	docs/lineage-tracking.md
OpenLineage integration	docs/openlineage-integration-spec.md
SCD Type 2 guide	docs/scd2-guide.md
Security controls	docs/security.md

Configuration

moncpipelib uses environment variables for global configuration:

Variable	Default	Description
MONCPIPELIB_DEFAULT_DATABASE	analytics	Default database name for contract sources/sinks that omit one
MONCPIPELIB_OPENLINEAGE_SCHEMA_URL	(repo URL)	Base URL for OpenLineage custom facet schemas
MONCPIPELIB_OPENLINEAGE_NAMESPACE	moncpipelib	Default namespace for OpenLineage jobs/datasets
MONCPIPELIB_LINEAGE_TABLE	data_lineage	Name of the lineage tracking table
MONCPIPELIB_LINEAGE_SCHEMA	lineage	Schema containing the lineage tracking table

Development

uv sync --all-extras         # Install dev dependencies
uv run pytest                # Run tests
uv run ruff check src tests  # Lint
uv run mypy src              # Type check
uv run ruff format src tests # Format

See CONTRIBUTING.md before opening a pull request.

License

Apache License 2.0 -- see LICENSE.