diff --git a/docs/examples/postgres_to_postgres/.dlt/example.secrets.toml b/docs/examples/postgres_to_postgres/.dlt/example.secrets.toml new file mode 100644 index 0000000000..cab6abedb6 --- /dev/null +++ b/docs/examples/postgres_to_postgres/.dlt/example.secrets.toml @@ -0,0 +1,15 @@ +[destination.postgres.credentials] +host = "" +database = "" +username = "" +password = "" +port = "" +connection_timeout = 15 + +[sources.postgres.credentials] +host = "" +database = "" +username = "" +password = "" +port = "" +chunk_size = 1000000 diff --git a/docs/examples/postgres_to_postgres/__init__.py b/docs/examples/postgres_to_postgres/__init__.py new file mode 100644 index 0000000000..e69de29bb2 diff --git a/docs/examples/postgres_to_postgres/postgres_to_postgres.py b/docs/examples/postgres_to_postgres/postgres_to_postgres.py new file mode 100644 index 0000000000..85b8aed045 --- /dev/null +++ b/docs/examples/postgres_to_postgres/postgres_to_postgres.py @@ -0,0 +1,294 @@ +""" +--- +title: Load from Postgres to Postgres faster +description: Load data fast from Postgres to Postgres with ConnectorX & Arrow export as Parquet, normalizing and exporting as DuckDB, and attaching it to Postgres for bigger Postgres tables (GBs) +keywords: [connector x, pyarrow, zero copy, duckdb, postgres, initial load] +--- + +:::info +Huge shout out to [Simon Späti](https://github.com/sspaeti) for this example! +::: + +This examples shows you how to export and import data from Postgres to Postgres in a fast way with ConnectorX and DuckDB +since the default export will generate `Insert_statement` during the normalization phase, which is super slow for large tables. + +As it's an initial load, we create a separate schema with timestamp initially and then replace the existing schema with the new one. + +:::note +This approach is tested and works well for an initial load (`--replace`), however, the incremental load (`--merge`) might need some adjustments (loading of load-tables of dlt, setting up first run after an initial +load, etc.). +::: + +We'll learn: + +- How to get arrow tables from [connector X](https://github.com/sfu-db/connector-x) and yield them in chunks. +- That merge and incremental loads work with arrow tables. +- How to use DuckDB for a speedy normalization. +- How to use `argparse` to turn your pipeline script into a CLI. +- How to work with `ConnectionStringCredentials` spec. + + +Be aware that you need to define the database credentials in `.dlt/secrets.toml` or dlt ENVs and adjust the tables names ("table_1" and "table_2"). + +Install `dlt` with `duckdb` as extra, also `connectorx`, Postgres adapter and progress bar tool: + +```sh +pip install dlt[duckdb] connectorx pyarrow psycopg2-binary alive-progress +``` + +Run the example: +```sh +python postgres_to_postgres.py --replace +``` + +:::warn +Attention: There were problems with data type TIME that includes nano seconds. More details in +[Slack](https://dlthub-community.slack.com/archives/C04DQA7JJN6/p1711579390028279?thread_ts=1711477727.553279&cid=C04DQA7JJN60) + +As well as with installing DuckDB extension (see [issue +here](https://github.com/duckdb/duckdb/issues/8035#issuecomment-2020803032)), that's why I manually installed the `postgres_scanner.duckdb_extension` in my Dockerfile to load the data into Postgres. +::: +""" + +import argparse +import os +from dlt.common import pendulum +from typing import List + +import connectorx as cx +import duckdb +import psycopg2 + +import dlt +from dlt.sources.credentials import ConnectionStringCredentials + +CHUNKSIZE = int( + os.getenv("CHUNKSIZE", 1000000) +) # 1 mio rows works well with 1GiB RAM memory (if no parallelism) + + +def read_sql_x_chunked(conn_str: str, query: str, chunk_size: int = CHUNKSIZE): + offset = 0 + while True: + chunk_query = f"{query} LIMIT {chunk_size} OFFSET {offset}" + data_chunk = cx.read_sql( + conn_str, + chunk_query, + return_type="arrow2", + protocol="binary", + ) + yield data_chunk + if data_chunk.num_rows < chunk_size: + break # No more data to read + offset += chunk_size + + +@dlt.source(max_table_nesting=0) +def pg_resource_chunked( + table_name: str, + primary_key: List[str], + schema_name: str, + order_date: str, + load_type: str = "merge", + columns: str = "*", + credentials: ConnectionStringCredentials = dlt.secrets[ + "sources.postgres.credentials" + ], +): + print( + f"dlt.resource write_disposition: `{load_type}` -- ", + f"connection string: postgresql://{credentials.username}:*****@{credentials.host}:{credentials.host}/{credentials.database}", + ) + + query = f"SELECT {columns} FROM {schema_name}.{table_name} ORDER BY {order_date}" # Needed to have an idempotent query + + source = dlt.resource( # type: ignore + name=table_name, + table_name=table_name, + write_disposition=load_type, # use `replace` for initial load, `merge` for incremental + primary_key=primary_key, + standalone=True, + parallelized=True, + )(read_sql_x_chunked)( + credentials.to_native_representation(), # Pass the connection string directly + query, + ) + + if load_type == "merge": + # Retrieve the last value processed for incremental loading + source.apply_hints(incremental=dlt.sources.incremental(order_date)) + + return source + + +def table_desc(table_name, pk, schema_name, order_date, columns="*"): + return { + "table_name": table_name, + "pk": pk, + "schema_name": schema_name, + "order_date": order_date, + "columns": columns, + } + + +if __name__ == "__main__": + # Input Handling + parser = argparse.ArgumentParser( + description="Run specific functions in the script." + ) + parser.add_argument("--replace", action="store_true", help="Run initial load") + parser.add_argument("--merge", action="store_true", help="Run delta load") + args = parser.parse_args() + + source_schema_name = "example_data_1" + target_schema_name = "example_data_2" + pipeline_name = "loading_postgres_to_postgres" + + tables = [ + table_desc("table_1", ["pk"], source_schema_name, "updated_at"), + table_desc("table_2", ["pk"], source_schema_name, "updated_at"), + ] + + # default is initial loading (replace) + load_type = "merge" if args.merge else "replace" + print(f"LOAD-TYPE: {load_type}") + + resources = [] + for table in tables: + resources.append( + pg_resource_chunked( + table["table_name"], + table["pk"], + table["schema_name"], + table["order_date"], + load_type=load_type, + columns=table["columns"], + ) + ) + + if load_type == "replace": + pipeline = dlt.pipeline( + pipeline_name=pipeline_name, + destination="duckdb", + dataset_name=target_schema_name, + full_refresh=True, + progress="alive_progress", + ) + else: + pipeline = dlt.pipeline( + pipeline_name=pipeline_name, + destination="postgres", + dataset_name=target_schema_name, + full_refresh=False, + ) # full_refresh=False + + # start timer + startTime = pendulum.now() + + # 1. extract + print("##################################### START EXTRACT ########") + pipeline.extract(resources) + print(f"--Time elapsed: {pendulum.now() - startTime}") + + # 2. normalize + print("##################################### START NORMALIZATION ########") + if load_type == "replace": + info = pipeline.normalize( + workers=2, loader_file_format="parquet" + ) # https://dlthub.com/docs/blog/dlt-arrow-loading + else: + info = pipeline.normalize() + + print(info) + print(pipeline.last_trace.last_normalize_info) + print(f"--Time elapsed: {pendulum.now() - startTime}") + + # 3. load + print("##################################### START LOAD ########") + load_info = pipeline.load() + print(load_info) + print(f"--Time elapsed: {pendulum.now() - startTime}") + + # check that stuff was loaded + row_counts = pipeline.last_trace.last_normalize_info.row_counts + assert row_counts["table_1"] == 9 + assert row_counts["table_2"] == 9 + + # make sure nothing failed + load_info.raise_on_failed_jobs() + + if load_type == "replace": + # 4. Load DuckDB local database into Postgres + print("##################################### START DUCKDB LOAD ########") + # connect to local duckdb dump + conn = duckdb.connect(f"{load_info.destination_displayable_credentials}".split(":///")[1]) + conn.sql("INSTALL postgres;") + conn.sql("LOAD postgres;") + # select generated timestamp schema + timestamped_schema = conn.sql( + f"""select distinct table_schema from information_schema.tables + where table_schema like '{target_schema_name}%' + and table_schema NOT LIKE '%_staging' + order by table_schema desc""" + ).fetchone()[0] + print(f"timestamped_schema: {timestamped_schema}") + + target_credentials = ConnectionStringCredentials(dlt.secrets["destination.postgres.credentials"]) + # connect to destination (timestamped schema) + conn.sql( + f"ATTACH 'dbname={target_credentials.database} user={target_credentials.username} password={target_credentials.password} host={target_credentials.host} port={target_credentials.port}' AS pg_db (TYPE postgres);" + ) + conn.sql(f"CREATE SCHEMA IF NOT EXISTS pg_db.{timestamped_schema};") + + for table in tables: + print( + f"LOAD DuckDB -> Postgres: table: {timestamped_schema}.{table['table_name']} TO Postgres {timestamped_schema}.{table['table_name']}" + ) + + conn.sql( + f"CREATE OR REPLACE TABLE pg_db.{timestamped_schema}.{table['table_name']} AS SELECT * FROM {timestamped_schema}.{table['table_name']};" + ) + conn.sql( + f"SELECT count(*) as count FROM pg_db.{timestamped_schema}.{table['table_name']};" + ).show() + + print(f"--Time elapsed: {pendulum.now() - startTime}") + print("##################################### FINISHED ########") + + # check that stuff was loaded + rows = conn.sql( + f"SELECT count(*) as count FROM pg_db.{timestamped_schema}.{table['table_name']};" + ).fetchone()[0] + assert int(rows) == 9 + + # 5. Cleanup and rename Schema + print( + "##################################### RENAME Schema and CLEANUP ########" + ) + try: + con_hd = psycopg2.connect( + dbname=target_credentials.database, + user=target_credentials.username, + password=target_credentials.password, + host=target_credentials.host, + port=target_credentials.port, + ) + con_hd.autocommit = True + print( + "Connected to HD-DB: " + + target_credentials.host + + ", DB: " + + target_credentials.username + ) + except Exception as e: + print(f"Unable to connect to HD-database! The reason: {e}") + + with con_hd.cursor() as cur: + # Drop existing target_schema_name + print(f"Drop existing {target_schema_name}") + cur.execute(f"DROP SCHEMA IF EXISTS {target_schema_name} CASCADE;") + # Rename timestamped-target_schema_name to target_schema_name + print(f"Going to rename schema {timestamped_schema} to {target_schema_name}") + cur.execute(f"ALTER SCHEMA {timestamped_schema} RENAME TO {target_schema_name};") + + con_hd.close() diff --git a/poetry.lock b/poetry.lock index 6159f751c4..b476bc4a9f 100644 --- a/poetry.lock +++ b/poetry.lock @@ -1,4 +1,4 @@ -# This file is automatically @generated by Poetry 1.7.1 and should not be changed by hand. +# This file is automatically @generated by Poetry 1.8.3 and should not be changed by hand. 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