mirror of
https://github.com/ClickHouse/ClickHouse.git
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951c874aa9
Allow server to start with broken data lake table and fix itself lazily
621 lines
21 KiB
Python
621 lines
21 KiB
Python
import helpers.client
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from helpers.cluster import ClickHouseCluster
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from helpers.test_tools import TSV
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import pyspark
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import logging
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import os
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import json
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import pytest
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import time
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import glob
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import uuid
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import os
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from pyspark.sql.types import (
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StructType,
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StructField,
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StringType,
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IntegerType,
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DateType,
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TimestampType,
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BooleanType,
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ArrayType,
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)
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from pyspark.sql.functions import current_timestamp
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from datetime import datetime
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from pyspark.sql.functions import monotonically_increasing_id, row_number
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from pyspark.sql.window import Window
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from pyspark.sql.readwriter import DataFrameWriter, DataFrameWriterV2
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from minio.deleteobjects import DeleteObject
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from helpers.s3_tools import (
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prepare_s3_bucket,
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upload_directory,
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get_file_contents,
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list_s3_objects,
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)
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SCRIPT_DIR = os.path.dirname(os.path.realpath(__file__))
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def get_spark():
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builder = (
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pyspark.sql.SparkSession.builder.appName("spark_test")
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.config(
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"spark.sql.catalog.spark_catalog",
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"org.apache.iceberg.spark.SparkSessionCatalog",
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)
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.config("spark.sql.catalog.local", "org.apache.iceberg.spark.SparkCatalog")
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.config("spark.sql.catalog.spark_catalog.type", "hadoop")
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.config("spark.sql.catalog.spark_catalog.warehouse", "/iceberg_data")
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.config(
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"spark.sql.extensions",
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"org.apache.iceberg.spark.extensions.IcebergSparkSessionExtensions",
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)
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.master("local")
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)
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return builder.master("local").getOrCreate()
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@pytest.fixture(scope="module")
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def started_cluster():
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try:
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cluster = ClickHouseCluster(__file__, with_spark=True)
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cluster.add_instance(
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"node1",
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main_configs=["configs/config.d/named_collections.xml"],
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user_configs=["configs/users.d/users.xml"],
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with_minio=True,
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stay_alive=True,
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)
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logging.info("Starting cluster...")
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cluster.start()
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prepare_s3_bucket(cluster)
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logging.info("S3 bucket created")
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cluster.spark_session = get_spark()
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yield cluster
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finally:
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cluster.shutdown()
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def run_query(instance, query, stdin=None, settings=None):
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# type: (ClickHouseInstance, str, object, dict) -> str
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logging.info("Running query '{}'...".format(query))
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result = instance.query(query, stdin=stdin, settings=settings)
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logging.info("Query finished")
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return result
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def write_iceberg_from_file(
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spark, path, table_name, mode="overwrite", format_version="1", partition_by=None
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):
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if mode == "overwrite":
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if partition_by is None:
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spark.read.load(f"file://{path}").writeTo(table_name).tableProperty(
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"format-version", format_version
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).using("iceberg").create()
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else:
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spark.read.load(f"file://{path}").writeTo(table_name).partitionedBy(
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partition_by
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).tableProperty("format-version", format_version).using("iceberg").create()
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else:
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spark.read.load(f"file://{path}").writeTo(table_name).append()
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def write_iceberg_from_df(
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spark, df, table_name, mode="overwrite", format_version="1", partition_by=None
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):
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if mode == "overwrite":
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if partition_by is None:
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df.writeTo(table_name).tableProperty(
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"format-version", format_version
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).using("iceberg").create()
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else:
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df.writeTo(table_name).tableProperty(
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"format-version", format_version
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).partitionedBy(partition_by).using("iceberg").create()
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else:
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df.writeTo(table_name).append()
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def generate_data(spark, start, end):
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a = spark.range(start, end, 1).toDF("a")
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b = spark.range(start + 1, end + 1, 1).toDF("b")
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b = b.withColumn("b", b["b"].cast(StringType()))
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a = a.withColumn(
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"row_index", row_number().over(Window.orderBy(monotonically_increasing_id()))
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)
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b = b.withColumn(
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"row_index", row_number().over(Window.orderBy(monotonically_increasing_id()))
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)
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df = a.join(b, on=["row_index"]).drop("row_index")
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return df
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def create_iceberg_table(node, table_name, format="Parquet", bucket="root"):
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node.query(
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f"""
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DROP TABLE IF EXISTS {table_name};
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CREATE TABLE {table_name}
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ENGINE=Iceberg(s3, filename = 'iceberg_data/default/{table_name}/', format={format}, url = 'http://minio1:9001/{bucket}/')"""
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)
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def create_initial_data_file(
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cluster, node, query, table_name, compression_method="none"
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):
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node.query(
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f"""
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INSERT INTO TABLE FUNCTION
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file('{table_name}.parquet')
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SETTINGS
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output_format_parquet_compression_method='{compression_method}',
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s3_truncate_on_insert=1 {query}
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FORMAT Parquet"""
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)
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user_files_path = os.path.join(
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SCRIPT_DIR, f"{cluster.instances_dir_name}/node1/database/user_files"
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)
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result_path = f"{user_files_path}/{table_name}.parquet"
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return result_path
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_single_iceberg_file(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_single_iceberg_file_" + format_version
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inserted_data = "SELECT number, toString(number) as string FROM numbers(100)"
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parquet_data_path = create_initial_data_file(
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started_cluster, instance, inserted_data, TABLE_NAME
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)
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write_iceberg_from_file(
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spark, parquet_data_path, TABLE_NAME, format_version=format_version
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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create_iceberg_table(instance, TABLE_NAME)
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assert instance.query(f"SELECT * FROM {TABLE_NAME}") == instance.query(
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inserted_data
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)
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_partition_by(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_partition_by_" + format_version
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write_iceberg_from_df(
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spark,
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generate_data(spark, 0, 10),
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TABLE_NAME,
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mode="overwrite",
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format_version=format_version,
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partition_by="a",
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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assert len(files) == 14 # 10 partitiions + 4 metadata files
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create_iceberg_table(instance, TABLE_NAME)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 10
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_multiple_iceberg_files(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_multiple_iceberg_files_" + format_version
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write_iceberg_from_df(
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spark,
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generate_data(spark, 0, 100),
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TABLE_NAME,
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mode="overwrite",
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format_version=format_version,
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}", ""
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)
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# ['/iceberg_data/default/test_multiple_iceberg_files/data/00000-1-35302d56-f1ed-494e-a85b-fbf85c05ab39-00001.parquet',
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# '/iceberg_data/default/test_multiple_iceberg_files/metadata/version-hint.text',
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# '/iceberg_data/default/test_multiple_iceberg_files/metadata/3127466b-299d-48ca-a367-6b9b1df1e78c-m0.avro',
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# '/iceberg_data/default/test_multiple_iceberg_files/metadata/snap-5220855582621066285-1-3127466b-299d-48ca-a367-6b9b1df1e78c.avro',
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# '/iceberg_data/default/test_multiple_iceberg_files/metadata/v1.metadata.json']
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assert len(files) == 5
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create_iceberg_table(instance, TABLE_NAME)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
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write_iceberg_from_df(
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spark,
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generate_data(spark, 100, 200),
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TABLE_NAME,
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mode="append",
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format_version=format_version,
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}", ""
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)
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assert len(files) == 9
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 200
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assert instance.query(f"SELECT * FROM {TABLE_NAME} ORDER BY 1") == instance.query(
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"SELECT number, toString(number + 1) FROM numbers(200)"
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)
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_types(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_types_" + format_version
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data = [
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(
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123,
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"string",
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datetime.strptime("2000-01-01", "%Y-%m-%d"),
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["str1", "str2"],
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True,
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)
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]
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schema = StructType(
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[
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StructField("a", IntegerType()),
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StructField("b", StringType()),
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StructField("c", DateType()),
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StructField("d", ArrayType(StringType())),
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StructField("e", BooleanType()),
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]
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)
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df = spark.createDataFrame(data=data, schema=schema)
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df.printSchema()
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write_iceberg_from_df(
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spark, df, TABLE_NAME, mode="overwrite", format_version=format_version
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)
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upload_directory(minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}", "")
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create_iceberg_table(instance, TABLE_NAME)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 1
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assert (
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instance.query(f"SELECT a, b, c, d, e FROM {TABLE_NAME}").strip()
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== "123\tstring\t2000-01-01\t['str1','str2']\ttrue"
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)
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table_function = f"iceberg(s3, filename='iceberg_data/default/{TABLE_NAME}/')"
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assert (
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instance.query(f"SELECT a, b, c, d, e FROM {table_function}").strip()
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== "123\tstring\t2000-01-01\t['str1','str2']\ttrue"
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)
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assert instance.query(f"DESCRIBE {table_function} FORMAT TSV") == TSV(
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[
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["a", "Nullable(Int32)"],
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["b", "Nullable(String)"],
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["c", "Nullable(Date)"],
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["d", "Array(Nullable(String))"],
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["e", "Nullable(Bool)"],
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]
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)
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_delete_files(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_delete_files_" + format_version
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write_iceberg_from_df(
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spark,
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generate_data(spark, 0, 100),
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TABLE_NAME,
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mode="overwrite",
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format_version=format_version,
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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create_iceberg_table(instance, TABLE_NAME)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
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spark.sql(f"DELETE FROM {TABLE_NAME} WHERE a >= 0")
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 0
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assert instance.contains_in_log("Processing delete file for path")
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write_iceberg_from_df(
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spark,
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generate_data(spark, 100, 200),
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TABLE_NAME,
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mode="upsert",
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format_version=format_version,
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
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spark.sql(f"DELETE FROM {TABLE_NAME} WHERE a >= 150")
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 50
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_evolved_schema(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_evolved_schema_" + format_version
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write_iceberg_from_df(
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spark,
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generate_data(spark, 0, 100),
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TABLE_NAME,
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mode="overwrite",
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format_version=format_version,
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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create_iceberg_table(instance, TABLE_NAME)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
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expected_data = instance.query(f"SELECT * FROM {TABLE_NAME} order by a, b")
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spark.sql(f"ALTER TABLE {TABLE_NAME} ADD COLUMNS (x bigint)")
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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error = instance.query_and_get_error(f"SELECT * FROM {TABLE_NAME}")
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assert "UNSUPPORTED_METHOD" in error
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data = instance.query(
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f"SELECT * FROM {TABLE_NAME} SETTINGS iceberg_engine_ignore_schema_evolution=1"
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)
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assert data == expected_data
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def test_row_based_deletes(started_cluster):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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TABLE_NAME = "test_row_based_deletes"
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spark.sql(
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f"CREATE TABLE {TABLE_NAME} (id bigint, data string) USING iceberg TBLPROPERTIES ('format-version' = '2', 'write.update.mode'='merge-on-read', 'write.delete.mode'='merge-on-read', 'write.merge.mode'='merge-on-read')"
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)
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spark.sql(
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f"INSERT INTO {TABLE_NAME} select id, char(id + ascii('a')) from range(100)"
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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create_iceberg_table(instance, TABLE_NAME)
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assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
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spark.sql(f"DELETE FROM {TABLE_NAME} WHERE id < 10")
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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error = instance.query_and_get_error(f"SELECT * FROM {TABLE_NAME}")
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assert "UNSUPPORTED_METHOD" in error
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|
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@pytest.mark.parametrize("format_version", ["1", "2"])
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def test_schema_inference(started_cluster, format_version):
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instance = started_cluster.instances["node1"]
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spark = started_cluster.spark_session
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minio_client = started_cluster.minio_client
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bucket = started_cluster.minio_bucket
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for format in ["Parquet", "ORC", "Avro"]:
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TABLE_NAME = "test_schema_inference_" + format + "_" + format_version
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# Types time, timestamptz, fixed are not supported in Spark.
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spark.sql(
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f"CREATE TABLE {TABLE_NAME} (intC int, longC long, floatC float, doubleC double, decimalC1 decimal(10, 3), decimalC2 decimal(20, 10), decimalC3 decimal(38, 30), dateC date, timestampC timestamp, stringC string, binaryC binary, arrayC1 array<int>, mapC1 map<string, string>, structC1 struct<field1: int, field2: string>, complexC array<struct<field1: map<string, array<map<string, int>>>, field2: struct<field3: int, field4: string>>>) USING iceberg TBLPROPERTIES ('format-version' = '{format_version}', 'write.format.default' = '{format}')"
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)
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spark.sql(
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f"insert into {TABLE_NAME} select 42, 4242, 42.42, 4242.4242, decimal(42.42), decimal(42.42), decimal(42.42), date('2020-01-01'), timestamp('2020-01-01 20:00:00'), 'hello', binary('hello'), array(1,2,3), map('key', 'value'), struct(42, 'hello'), array(struct(map('key', array(map('key', 42))), struct(42, 'hello')))"
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)
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files = upload_directory(
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minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
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)
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|
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create_iceberg_table(instance, TABLE_NAME, format)
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res = instance.query(
|
|
f"DESC {TABLE_NAME} FORMAT TSVRaw", settings={"print_pretty_type_names": 0}
|
|
)
|
|
expected = TSV(
|
|
[
|
|
["intC", "Nullable(Int32)"],
|
|
["longC", "Nullable(Int64)"],
|
|
["floatC", "Nullable(Float32)"],
|
|
["doubleC", "Nullable(Float64)"],
|
|
["decimalC1", "Nullable(Decimal(10, 3))"],
|
|
["decimalC2", "Nullable(Decimal(20, 10))"],
|
|
["decimalC3", "Nullable(Decimal(38, 30))"],
|
|
["dateC", "Nullable(Date)"],
|
|
["timestampC", "Nullable(DateTime64(6, 'UTC'))"],
|
|
["stringC", "Nullable(String)"],
|
|
["binaryC", "Nullable(String)"],
|
|
["arrayC1", "Array(Nullable(Int32))"],
|
|
["mapC1", "Map(String, Nullable(String))"],
|
|
["structC1", "Tuple(field1 Nullable(Int32), field2 Nullable(String))"],
|
|
[
|
|
"complexC",
|
|
"Array(Tuple(field1 Map(String, Array(Map(String, Nullable(Int32)))), field2 Tuple(field3 Nullable(Int32), field4 Nullable(String))))",
|
|
],
|
|
]
|
|
)
|
|
|
|
assert res == expected
|
|
|
|
# Check that we can parse data
|
|
instance.query(f"SELECT * FROM {TABLE_NAME}")
|
|
|
|
|
|
@pytest.mark.parametrize("format_version", ["1", "2"])
|
|
def test_metadata_file_selection(started_cluster, format_version):
|
|
instance = started_cluster.instances["node1"]
|
|
spark = started_cluster.spark_session
|
|
minio_client = started_cluster.minio_client
|
|
bucket = started_cluster.minio_bucket
|
|
TABLE_NAME = "test_metadata_selection_" + format_version
|
|
|
|
spark.sql(
|
|
f"CREATE TABLE {TABLE_NAME} (id bigint, data string) USING iceberg TBLPROPERTIES ('format-version' = '2', 'write.update.mode'='merge-on-read', 'write.delete.mode'='merge-on-read', 'write.merge.mode'='merge-on-read')"
|
|
)
|
|
|
|
for i in range(50):
|
|
spark.sql(
|
|
f"INSERT INTO {TABLE_NAME} select id, char(id + ascii('a')) from range(10)"
|
|
)
|
|
|
|
files = upload_directory(
|
|
minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
|
|
)
|
|
|
|
create_iceberg_table(instance, TABLE_NAME)
|
|
|
|
assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 500
|
|
|
|
|
|
@pytest.mark.parametrize("format_version", ["1", "2"])
|
|
def test_metadata_file_format_with_uuid(started_cluster, format_version):
|
|
instance = started_cluster.instances["node1"]
|
|
spark = started_cluster.spark_session
|
|
minio_client = started_cluster.minio_client
|
|
bucket = started_cluster.minio_bucket
|
|
TABLE_NAME = "test_metadata_selection_with_uuid_" + format_version
|
|
|
|
spark.sql(
|
|
f"CREATE TABLE {TABLE_NAME} (id bigint, data string) USING iceberg TBLPROPERTIES ('format-version' = '2', 'write.update.mode'='merge-on-read', 'write.delete.mode'='merge-on-read', 'write.merge.mode'='merge-on-read')"
|
|
)
|
|
|
|
for i in range(50):
|
|
spark.sql(
|
|
f"INSERT INTO {TABLE_NAME} select id, char(id + ascii('a')) from range(10)"
|
|
)
|
|
|
|
for i in range(50):
|
|
os.rename(
|
|
f"/iceberg_data/default/{TABLE_NAME}/metadata/v{i + 1}.metadata.json",
|
|
f"/iceberg_data/default/{TABLE_NAME}/metadata/{str(i).zfill(5)}-{uuid.uuid4()}.metadata.json",
|
|
)
|
|
|
|
files = upload_directory(
|
|
minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
|
|
)
|
|
|
|
create_iceberg_table(instance, TABLE_NAME)
|
|
|
|
assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 500
|
|
|
|
|
|
def test_restart_broken(started_cluster):
|
|
instance = started_cluster.instances["node1"]
|
|
spark = started_cluster.spark_session
|
|
minio_client = started_cluster.minio_client
|
|
bucket = "broken2"
|
|
TABLE_NAME = "test_restart_broken_table_function"
|
|
|
|
if not minio_client.bucket_exists(bucket):
|
|
minio_client.make_bucket(bucket)
|
|
|
|
parquet_data_path = create_initial_data_file(
|
|
started_cluster,
|
|
instance,
|
|
"SELECT number, toString(number) FROM numbers(100)",
|
|
TABLE_NAME,
|
|
)
|
|
|
|
write_iceberg_from_file(spark, parquet_data_path, TABLE_NAME, format_version="1")
|
|
files = upload_directory(
|
|
minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
|
|
)
|
|
create_iceberg_table(instance, TABLE_NAME, bucket=bucket)
|
|
assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
|
|
|
|
s3_objects = list_s3_objects(minio_client, bucket, prefix="")
|
|
assert (
|
|
len(
|
|
list(
|
|
minio_client.remove_objects(
|
|
bucket,
|
|
[DeleteObject(obj) for obj in s3_objects],
|
|
)
|
|
)
|
|
)
|
|
== 0
|
|
)
|
|
minio_client.remove_bucket(bucket)
|
|
|
|
instance.restart_clickhouse()
|
|
|
|
assert "NoSuchBucket" in instance.query_and_get_error(
|
|
f"SELECT count() FROM {TABLE_NAME}"
|
|
)
|
|
|
|
minio_client.make_bucket(bucket)
|
|
|
|
files = upload_directory(
|
|
minio_client, bucket, f"/iceberg_data/default/{TABLE_NAME}/", ""
|
|
)
|
|
|
|
assert int(instance.query(f"SELECT count() FROM {TABLE_NAME}")) == 100
|