spark-optimization
Optimize Apache Spark jobs with partitioning, caching, shuffle optimization, and memory tuning. Use when improving Spark performance, debugging slow jobs, or scaling data processing pipelines.
Install
npx skills add https://github.com/wshobson/agents/tree/main/plugins/data-engineering/skills/spark-optimization
claude plugin marketplace add https://llmmart.ai/marketplace.json && claude plugin install wshobson-agents@llmmart
git clone https://github.com/wshobson/agents.git
The skills CLI installs just this skill, for any of its supported agents. Claude Code installs the whole wshobson/agents collection as a plugin from our marketplace. Git is the plain clone.
Skill manifest
Apache Spark Optimization
Production patterns for optimizing Apache Spark jobs including partitioning strategies, memory management, shuffle optimization, and performance tuning.
When to Use This Skill
- Optimizing slow Spark jobs
- Tuning memory and executor configuration
- Implementing efficient partitioning strategies
- Debugging Spark performance issues
- Scaling Spark pipelines for large datasets
- Reducing shuffle and data skew
Core Concepts
1. Spark Execution Model
Driver Program
↓
Job (triggered by action)
↓
Stages (separated by shuffles)
↓
Tasks (one per partition)
2. Key Performance Factors
| Factor | Impact | Solution |
|---|---|---|
| Shuffle | Network I/O, disk I/O | Minimize wide transformations |
| Data Skew | Uneven task duration | Salting, broadcast joins |
| Serialization | CPU overhead | Use Kryo, columnar formats |
| Memory | GC pressure, spills | Tune executor memory |
| Partitions | Parallelism | Right-size partitions |
Quick Start
from pyspark.sql import SparkSession
from pyspark.sql import functions as F
# Create optimized Spark session
spark = (SparkSession.builder
.appName("OptimizedJob")
.config("spark.sql.adaptive.enabled", "true")
.config("spark.sql.adaptive.coalescePartitions.enabled", "true")
.config("spark.sql.adaptive.skewJoin.enabled", "true")
.config("spark.serializer", "org.apache.spark.serializer.KryoSerializer")
.config("spark.sql.shuffle.partitions", "200")
.getOrCreate())
# Read with optimized settings
df = (spark.read
.format("parquet")
.option("mergeSchema", "false")
.load("s3://bucket/data/"))
# Efficient transformations
result = (df
.filter(F.col("date") >= "2024-01-01")
.select("id", "amount", "category")
.groupBy("category")
.agg(F.sum("amount").alias("total")))
result.write.mode("overwrite").parquet("s3://bucket/output/")
Detailed patterns and worked examples
Detailed pattern documentation lives in references/details.md. Read that file when the navigation tier above is insufficient.
Best Practices
Do's
- Enable AQE - Adaptive query execution handles many issues
- Use Parquet/Delta - Columnar formats with compression
- Broadcast small tables - Avoid shuffle for small joins
- Monitor Spark UI - Check for skew, spills, GC
- Right-size partitions - 128MB - 256MB per partition
Don'ts
- Don't collect large data - Keep data distributed
- Don't use UDFs unnecessarily - Use built-in functions
- Don't over-cache - Memory is limited
- Don't ignore data skew - It dominates job time
- Don't use
.count()for existence - Use.take(1)or.isEmpty()
Files (agents)
-
references
-
details.md 9.6 KB
# spark-optimization — detailed patterns and worked examples ## Patterns ### Pattern 1: Optimal Partitioning ```python # Calculate optimal partition count def calculate_partitions(data_size_gb: float, partition_size_mb: int = 128) -> int: """ Optimal partition size: 128MB - 256MB Too few: Under-utilization, memory pressure Too many: Task scheduling overhead """ return max(int(data_size_gb * 1024 / partition_size_mb), 1) # Repartition for even distribution df_repartitioned = df.repartition(200, "partition_key") # Coalesce to reduce partitions (no shuffle) df_coalesced = df.coalesce(100) # Partition pruning with predicate pushdown df = (spark.read.parquet("s3://bucket/data/") .filter(F.col("date") == "2024-01-01")) # Spark pushes this down # Write with partitioning for future queries (df.write .partitionBy("year", "month", "day") .mode("overwrite") .parquet("s3://bucket/partitioned_output/")) ``` ### Pattern 2: Join Optimization ```python from pyspark.sql import functions as F from pyspark.sql.types import * # 1. Broadcast Join - Small table joins # Best when: One side < 10MB (configurable) small_df = spark.read.parquet("s3://bucket/small_table/") # < 10MB large_df = spark.read.parquet("s3://bucket/large_table/") # TBs # Explicit broadcast hint result = large_df.join( F.broadcast(small_df), on="key", how="left" ) # 2. Sort-Merge Join - Default for large tables # Requires shuffle, but handles any size result = large_df1.join(large_df2, on="key", how="inner") # 3. Bucket Join - Pre-sorted, no shuffle at join time # Write bucketed tables (df.write .bucketBy(200, "customer_id") .sortBy("customer_id") .mode("overwrite") .saveAsTable("bucketed_orders")) # Join bucketed tables (no shuffle!) orders = spark.table("bucketed_orders") customers = spark.table("bucketed_customers") # Same bucket count result = orders.join(customers, on="customer_id") # 4. Skew Join Handling # Enable AQE skew join optimization spark.conf.set("spark.sql.adaptive.skewJoin.enabled", "true") spark.conf.set("spark.sql.adaptive.skewJoin.skewedPartitionFactor", "5") spark.conf.set("spark.sql.adaptive.skewJoin.skewedPartitionThresholdInBytes", "256MB") # Manual salting for severe skew def salt_join(df_skewed, df_other, key_col, num_salts=10): """Add salt to distribute skewed keys""" # Add salt to skewed side df_salted = df_skewed.withColumn( "salt", (F.rand() * num_salts).cast("int") ).withColumn( "salted_key", F.concat(F.col(key_col), F.lit("_"), F.col("salt")) ) # Explode other side with all salts df_exploded = df_other.crossJoin( spark.range(num_salts).withColumnRenamed("id", "salt") ).withColumn( "salted_key", F.concat(F.col(key_col), F.lit("_"), F.col("salt")) ) # Join on salted key return df_salted.join(df_exploded, on="salted_key", how="inner") ``` ### Pattern 3: Caching and Persistence ```python from pyspark import StorageLevel # Cache when reusing DataFrame multiple times df = spark.read.parquet("s3://bucket/data/") df_filtered = df.filter(F.col("status") == "active") # Cache in memory (MEMORY_AND_DISK is default) df_filtered.cache() # Or with specific storage level df_filtered.persist(StorageLevel.MEMORY_AND_DISK_SER) # Force materialization df_filtered.count() # Use in multiple actions agg1 = df_filtered.groupBy("category").count() agg2 = df_filtered.groupBy("region").sum("amount") # Unpersist when done df_filtered.unpersist() # Storage levels explained: # MEMORY_ONLY - Fast, but may not fit # MEMORY_AND_DISK - Spills to disk if needed (recommended) # MEMORY_ONLY_SER - Serialized, less memory, more CPU # DISK_ONLY - When memory is tight # OFF_HEAP - Tungsten off-heap memory # Checkpoint for complex lineage spark.sparkContext.setCheckpointDir("s3://bucket/checkpoints/") df_complex = (df .join(other_df, "key") .groupBy("category") .agg(F.sum("amount"))) df_complex.checkpoint() # Breaks lineage, materializes ``` ### Pattern 4: Memory Tuning ```python # Executor memory configuration # spark-submit --executor-memory 8g --executor-cores 4 # Memory breakdown (8GB executor): # - spark.memory.fraction = 0.6 (60% = 4.8GB for execution + storage) # - spark.memory.storageFraction = 0.5 (50% of 4.8GB = 2.4GB for cache) # - Remaining 2.4GB for execution (shuffles, joins, sorts) # - 40% = 3.2GB for user data structures and internal metadata spark = (SparkSession.builder .config("spark.executor.memory", "8g") .config("spark.executor.memoryOverhead", "2g") # For non-JVM memory .config("spark.memory.fraction", "0.6") .config("spark.memory.storageFraction", "0.5") .config("spark.sql.shuffle.partitions", "200") # For memory-intensive operations .config("spark.sql.autoBroadcastJoinThreshold", "50MB") # Prevent OOM on large shuffles .config("spark.sql.files.maxPartitionBytes", "128MB") .getOrCreate()) # Monitor memory usage def print_memory_usage(spark): """Print current memory usage""" sc = spark.sparkContext for executor in sc._jsc.sc().getExecutorMemoryStatus().keySet().toArray(): mem_status = sc._jsc.sc().getExecutorMemoryStatus().get(executor) total = mem_status._1() / (1024**3) free = mem_status._2() / (1024**3) print(f"{executor}: {total:.2f}GB total, {free:.2f}GB free") ``` ### Pattern 5: Shuffle Optimization ```python # Reduce shuffle data size spark.conf.set("spark.sql.shuffle.partitions", "auto") # With AQE spark.conf.set("spark.shuffle.compress", "true") spark.conf.set("spark.shuffle.spill.compress", "true") # Pre-aggregate before shuffle df_optimized = (df # Local aggregation first (combiner) .groupBy("key", "partition_col") .agg(F.sum("value").alias("partial_sum")) # Then global aggregation .groupBy("key") .agg(F.sum("partial_sum").alias("total"))) # Avoid shuffle with map-side operations # BAD: Shuffle for each distinct distinct_count = df.select("category").distinct().count() # GOOD: Approximate distinct (no shuffle) approx_count = df.select(F.approx_count_distinct("category")).collect()[0][0] # Use coalesce instead of repartition when reducing partitions df_reduced = df.coalesce(10) # No shuffle # Optimize shuffle with compression spark.conf.set("spark.io.compression.codec", "lz4") # Fast compression ``` ### Pattern 6: Data Format Optimization ```python # Parquet optimizations (df.write .option("compression", "snappy") # Fast compression .option("parquet.block.size", 128 * 1024 * 1024) # 128MB row groups .parquet("s3://bucket/output/")) # Column pruning - only read needed columns df = (spark.read.parquet("s3://bucket/data/") .select("id", "amount", "date")) # Spark only reads these columns # Predicate pushdown - filter at storage level df = (spark.read.parquet("s3://bucket/partitioned/year=2024/") .filter(F.col("status") == "active")) # Pushed to Parquet reader # Delta Lake optimizations (df.write .format("delta") .option("optimizeWrite", "true") # Bin-packing .option("autoCompact", "true") # Compact small files .mode("overwrite") .save("s3://bucket/delta_table/")) # Z-ordering for multi-dimensional queries spark.sql(""" OPTIMIZE delta.`s3://bucket/delta_table/` ZORDER BY (customer_id, date) """) ``` ### Pattern 7: Monitoring and Debugging ```python # Enable detailed metrics spark.conf.set("spark.sql.codegen.wholeStage", "true") spark.conf.set("spark.sql.execution.arrow.pyspark.enabled", "true") # Explain query plan df.explain(mode="extended") # Modes: simple, extended, codegen, cost, formatted # Get physical plan statistics df.explain(mode="cost") # Monitor task metrics def analyze_stage_metrics(spark): """Analyze recent stage metrics""" status_tracker = spark.sparkContext.statusTracker() for stage_id in status_tracker.getActiveStageIds(): stage_info = status_tracker.getStageInfo(stage_id) print(f"Stage {stage_id}:") print(f" Tasks: {stage_info.numTasks}") print(f" Completed: {stage_info.numCompletedTasks}") print(f" Failed: {stage_info.numFailedTasks}") # Identify data skew def check_partition_skew(df): """Check for partition skew""" partition_counts = (df .withColumn("partition_id", F.spark_partition_id()) .groupBy("partition_id") .count() .orderBy(F.desc("count"))) partition_counts.show(20) stats = partition_counts.select( F.min("count").alias("min"), F.max("count").alias("max"), F.avg("count").alias("avg"), F.stddev("count").alias("stddev") ).collect()[0] skew_ratio = stats["max"] / stats["avg"] print(f"Skew ratio: {skew_ratio:.2f}x (>2x indicates skew)") ``` ## Configuration Cheat Sheet ```python # Production configuration template spark_configs = { # Adaptive Query Execution (AQE) "spark.sql.adaptive.enabled": "true", "spark.sql.adaptive.coalescePartitions.enabled": "true", "spark.sql.adaptive.skewJoin.enabled": "true", # Memory "spark.executor.memory": "8g", "spark.executor.memoryOverhead": "2g", "spark.memory.fraction": "0.6", "spark.memory.storageFraction": "0.5", # Parallelism "spark.sql.shuffle.partitions": "200", "spark.default.parallelism": "200", # Serialization "spark.serializer": "org.apache.spark.serializer.KryoSerializer", "spark.sql.execution.arrow.pyspark.enabled": "true", # Compression "spark.io.compression.codec": "lz4", "spark.shuffle.compress": "true", # Broadcast "spark.sql.autoBroadcastJoinThreshold": "50MB", # File handling "spark.sql.files.maxPartitionBytes": "128MB", "spark.sql.files.openCostInBytes": "4MB", } ```
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SKILL.md 3.1 KB
--- name: spark-optimization description: Optimize Apache Spark jobs with partitioning, caching, shuffle optimization, and memory tuning. Use when improving Spark performance, debugging slow jobs, or scaling data processing pipelines. --- # Apache Spark Optimization Production patterns for optimizing Apache Spark jobs including partitioning strategies, memory management, shuffle optimization, and performance tuning. ## When to Use This Skill - Optimizing slow Spark jobs - Tuning memory and executor configuration - Implementing efficient partitioning strategies - Debugging Spark performance issues - Scaling Spark pipelines for large datasets - Reducing shuffle and data skew ## Core Concepts ### 1. Spark Execution Model ``` Driver Program ↓ Job (triggered by action) ↓ Stages (separated by shuffles) ↓ Tasks (one per partition) ``` ### 2. Key Performance Factors | Factor | Impact | Solution | | ----------------- | --------------------- | ----------------------------- | | **Shuffle** | Network I/O, disk I/O | Minimize wide transformations | | **Data Skew** | Uneven task duration | Salting, broadcast joins | | **Serialization** | CPU overhead | Use Kryo, columnar formats | | **Memory** | GC pressure, spills | Tune executor memory | | **Partitions** | Parallelism | Right-size partitions | ## Quick Start ```python from pyspark.sql import SparkSession from pyspark.sql import functions as F # Create optimized Spark session spark = (SparkSession.builder .appName("OptimizedJob") .config("spark.sql.adaptive.enabled", "true") .config("spark.sql.adaptive.coalescePartitions.enabled", "true") .config("spark.sql.adaptive.skewJoin.enabled", "true") .config("spark.serializer", "org.apache.spark.serializer.KryoSerializer") .config("spark.sql.shuffle.partitions", "200") .getOrCreate()) # Read with optimized settings df = (spark.read .format("parquet") .option("mergeSchema", "false") .load("s3://bucket/data/")) # Efficient transformations result = (df .filter(F.col("date") >= "2024-01-01") .select("id", "amount", "category") .groupBy("category") .agg(F.sum("amount").alias("total"))) result.write.mode("overwrite").parquet("s3://bucket/output/") ``` ## Detailed patterns and worked examples Detailed pattern documentation lives in `references/details.md`. Read that file when the navigation tier above is insufficient. ## Best Practices ### Do's - **Enable AQE** - Adaptive query execution handles many issues - **Use Parquet/Delta** - Columnar formats with compression - **Broadcast small tables** - Avoid shuffle for small joins - **Monitor Spark UI** - Check for skew, spills, GC - **Right-size partitions** - 128MB - 256MB per partition ### Don'ts - **Don't collect large data** - Keep data distributed - **Don't use UDFs unnecessarily** - Use built-in functions - **Don't over-cache** - Memory is limited - **Don't ignore data skew** - It dominates job time - **Don't use `.count()` for existence** - Use `.take(1)` or `.isEmpty()`
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