Sneaking a Parallel File System Into Hadoop

Crossing the Chasm: Sneaking a parallel file system into Hadoop

Wittawat Tantisiriroj Swapnil Patil, Garth Gibson

PARALLEL DATA LABORATORY Carnegie Mellon University In this work … • Compare and contrast large storage system architectures • Internet services • High performance computing

• Can we use a parallel file system for Internet service applications? • Hadoop, an Internet service software stack • HDFS, an Internet service file system for Hadoop • PVFS, a parallel file system

http://www.pdl.cmu.edu/ 2 Wittawat Tantisiriroj © November 08 Today’s Internet services • Applications are becoming data-intensive • Large input data set (e.g. the entire web) • Distributed, parallel application execution • Distributed file system is a key component • Define new semantics for anticipated workloads – Atomic append in Google FS – Write-once in HDFS • Commodity hardware and network – Handle failures through replication

http://www.pdl.cmu.edu/ 3 Wittawat Tantisiriroj © November 08 The HPC world • Equally large applications • Large input data set (e.g. astronomy data) • Parallel execution on large clusters

• Use parallel file systems for scalable I/O • e.g. IBM’s GPFS, Sun’s Lustre FS, PanFS, and Parallel Virtual File System (PVFS)

http://www.pdl.cmu.edu/ 4 Wittawat Tantisiriroj © November 08 Why use parallel file systems? • Handle a wide variety of workloads • High concurrent reads and writes • Small file support, scalable metadata • Offer performance vs. reliability tradeoff • RAID-5 (e.g., PanFS) • Mirroring • Failover (e.g., LustreFS) • Standard Unix FS interface & POSIX semantics • pNFS standard (NFS v4.1)

http://www.pdl.cmu.edu/ 5 Wittawat Tantisiriroj © November 08 Outline ¾ A basic shim layer & preliminary evaluation • Three add-on features in a shim layer • Evaluation

http://www.pdl.cmu.edu/ 6 Wittawat Tantisiriroj © November 08 HDFS & PVFS: high level design • Meta-data servers • Store all file system metadata • Handle all metadata operations • Data servers • Store actual file system data • Handle all read and write operations • Files are divided into chunks • Chunks of a file are distributed across servers

http://www.pdl.cmu.edu/ 7 Wittawat Tantisiriroj © November 08 PVFS shim layer under Hadoop

Hadoop applications

Hadoop framework

Extensible file system API Forward requests to and respond from PVFS client library HDFS client library PVFS shim layer using Java Native Interface Unmodified PVFS (JNI) client library (C) Client Server Unmodified PVFS HDFS servers servers

http://www.pdl.cmu.edu/ 8 Wittawat Tantisiriroj © November 08 Preliminary Evaluation • Text search (“grep”) • common workloads in Internet service applications

• Search for a rare pattern in 100-byte records • 64GB data set • 32 nodes • Each node servers as storage and compute nodes

http://www.pdl.cmu.edu/ 9 Wittawat Tantisiriroj © November 08 Vanilla PVFS is disappointing …

2.5 times slower

http://www.pdl.cmu.edu/ 10 Wittawat Tantisiriroj © November 08 Outline • A basic shim layer & preliminary evaluation ¾ Three add-on features in a shim layer 9 Readahead buffer • File layout information • Replication • Evaluation

http://www.pdl.cmu.edu/ 11 Wittawat Tantisiriroj © November 08 Read operation in Hadoop • Typical read workload: • Small (less than 128 KB) • Sequential through an entire chunk

• HDFS prefetches an entire chunk • No cache coherence issue with its write-once semantic

http://www.pdl.cmu.edu/ 12 Wittawat Tantisiriroj © November 08 Readahead buffer • PVFS has no client buffer cache • Avoid a cache coherence issue with concurrent writes

• Readahead buffer can be added to PVFS shim layer • In Hadoop, a file can become immutable after it is closed • No need for cache coherence mechanism

http://www.pdl.cmu.edu/ 13 Wittawat Tantisiriroj © November 08 PVFS with 4MB buffer

still quite slow

http://www.pdl.cmu.edu/ 14 Wittawat Tantisiriroj © November 08 Outline • A basic shim layer & preliminary evaluation ¾ Three add-on features in a shim layer • Readahead buffer 9 File layout information • Replication • Evaluation

http://www.pdl.cmu.edu/ 15 Wittawat Tantisiriroj © November 08 Collocation in Hadoop • File layout information • Describe where chunks are located

• Collocate computation and data • Ship computation to where data is located • Reduce network traffic

http://www.pdl.cmu.edu/ 16 Wittawat Tantisiriroj © November 08 Hadoop without collocation

Compute Computation Chunk1 Chunk2 Chunk3 Node

Storage Node 3 data transfers over network

Chunk1 Chunk2 Chunk3

Chunk 3 Chunk 1 Chunk 2

Node A Node B Node C

http://www.pdl.cmu.edu/ 17 Wittawat Tantisiriroj © November 08 Hadoop with collocation

Compute Computation Chunk1 Chunk2 Chunk3 Node

Storage Node no data transfer over network

Chunk3 Chunk1 Chunk2

Chunk 3 Chunk 1 Chunk 2

Node A Node B Node C

http://www.pdl.cmu.edu/ 18 Wittawat Tantisiriroj © November 08 Expose file layout information • File layout information in PVFS • Stored as extended attributes • Different format from Hadoop format

• A shim layer converts file layout information from PVFS format to Hadoop format • Enable Hadoop to collocate computation and data

http://www.pdl.cmu.edu/ 19 Wittawat Tantisiriroj © November 08 PVFS with file layout information

comparable performance

http://www.pdl.cmu.edu/ 20 Wittawat Tantisiriroj © November 08 Outline • A basic shim layer & preliminary evaluation ¾ Three add-on features in a shim layer • Readahead buffer • File layout information 9 Replication • Evaluation

http://www.pdl.cmu.edu/ 21 Wittawat Tantisiriroj © November 08 Replication in HDFS • Rack-awareness replication • By default, 3 copies for each file (triplication) 1.Write to a local storage node 2.Write to a storage node in the local rack 3.Write to a storage node in the other rack

http://www.pdl.cmu.edu/ 22 Wittawat Tantisiriroj © November 08 Replication in PVFS • No replication in the public release of PVFS • Rely on hardware based reliability solutions • Per server RAID inside logical storage devices

• Replication can be added in a shim layer • Write each file to three servers • No reconstruction/recovery in the prototype

http://www.pdl.cmu.edu/ 23 Wittawat Tantisiriroj © November 08 PVFS with replication

Hadoop applications

Hadoop framework

Extensible file system API

PVFS shim layer

Unmodified PVFS client library (C)

Unmodified PVFS Unmodified PVFS Unmodified PVFS server server server

http://www.pdl.cmu.edu/ 24 Wittawat Tantisiriroj © November 08 PVFS shim layer under Hadoop

Hadoop applications

Hadoop framework ~1,700 lines of code PVFS shim layer Extensible file system API Readahead buffer

HDFS client library PVFS shim layer File layout info

Replication Unmodified PVFS client library (C) Client Server Unmodified PVFS HDFS servers servers

http://www.pdl.cmu.edu/ 25 Wittawat Tantisiriroj © November 08 Outline • A basic shim layer & preliminary evaluation • Three add-on features in a shim layer ¾ Evaluation 9 Micro-benchmark (non MapReduce) • MapReduce benchmark

http://www.pdl.cmu.edu/ 26 Wittawat Tantisiriroj © November 08 Micro-benchmark • Cluster configuration • 16 nodes • Pentium D dual-core 3.0GHz • 4 GB Memory • One 7200 rpm SATA 160 GB (8 MB buffer) • Gigabit Ethernet

• Use file system API directly without Hadoop involvement

• Round-robin file layout in PVFS helps avoid contention

• Without scheduling, clients read in a uniform pattern • Client1 reads A1 then A4 • Client2 reads A2 then A5 • Client3 reads A3 then A6 • PVFS • Round-robin A1 A2 A3 A4 A5 A6 placement • HDFS

• Random A1 A2 A4 placement A3 A5 A6

Contention http://www.pdl.cmu.edu/ 29 Wittawat Tantisiriroj © November 08 HDFS with Hadoop’s scheduling • Example 1: • Client1 reads A1 then A4 • Client2 reads A2 then A5 A1 A2 A4 A3 A5 A6 • Client3 reads A6 then A3

• Example 2: • Client1 reads A1 then A3 • Client2 reads A2 then A5 A1 A2 A4 • Client3 reads A4 then A6 A3 A5 A6

• Hadoop’s scheduling can mask a problem with a non-uniform file layout in HDFS

• By writing one of three copies locally, HDFS write throughout grows linearly

• By allowing concurrent writes in PVFS, “copy” completes faster by using multiple writers

http://www.pdl.cmu.edu/ 33 Wittawat Tantisiriroj © November 08 Outline • A basic shim layer & preliminary evaluation • Three add-on features in a shim layer ¾ Evaluation • Micro-benchmark (non MapReduce) 9 MapReduce benchmark

http://www.pdl.cmu.edu/ 34 Wittawat Tantisiriroj © November 08 MapReduce benchmark setting • Yahoo! M45 cluster • Use 50-100 nodes • Xeon quad-core 1.86 GHz with 6GB Memory • One 7200 rpm SATA 750 GB (8 MB buffer) • Gigabit Ethernet

• Use Hadoop framework for MapReduce processing

http://www.pdl.cmu.edu/ 35 Wittawat Tantisiriroj © November 08 MapReduce benchmark • Grep: Search for a rare pattern in hundred million 100-byte records (100GB)

• Sort: Sort hundred million 100-byte records (100GB)

• Never-Ending Language Learning (NELL): (J. Betteridge, CMU) Count the numbers of selected phrases in 37GB data-set

• PVFS’s performance is similar to HDFS

• By writing one of three copies locally, HDFS does better than PVFS

http://www.pdl.cmu.edu/ 38 Wittawat Tantisiriroj © November 08 Summary • PVFS can be tuned to deliver promising performance for Hadoop applications • Simple shim layer in Hadoop • No modification to PVFS • PVFS can expose file layout information • Enable Hadoop to collocate computation and data • Hadoop application can benefit from concurrent writing supported by parallel file systems

http://www.pdl.cmu.edu/ 39 Wittawat Tantisiriroj © November 08 Acknowledgements • Sam Lang and Rob Ross for help with PVFS internals • Yahoo! for the M45 cluster • Julio Lopez for help with M45 and Hadoop • Justin Betteridge, Le Zhao, Jamie Callan, Shay Cohen, Noah Smith, U Kang and Christos Faloutsos for their scientific applications