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SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs
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SIAM PP 2012: Scalable Algorithms for Analysis of Massive, Streaming Graphs

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Presentation at SIAM PP 2012 on our work analyzing massive streaming graph data.

Presentation at SIAM PP 2012 on our work analyzing massive streaming graph data.

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  • 1. Scalable Algorithms for Analysis of Massive,Streaming GraphsJason Riedy, Georgia Institute of Technology;Henning Meyerhenke, Karlsruhe Inst. of Technology;with David Bader, David Ediger, and others at GT 15 February, 2012
  • 2. Outline Motivation Technical Why analyze data streams? Overall streaming approach Clustering coefficients Connected components Common aspects and questions SessionSIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 2/29
  • 3. Exascale Data Analysis Health care Finding outbreaks, population epidemiology Social networks Advertising, searching, grouping Intelligence Decisions at scale, regulating algorithms Systems biology Understanding interactions, drug design Power grid Disruptions, conservation Simulation Discrete events, cracking meshes The data is full of semantically rich relationships. Graphs! Graphs! Graphs!SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 3/29
  • 4. Graphs are pervasive • Sources of massive data: petascale simulations, experimental devices, the Internet, scientific applications. • New challenges for analysis: data sizes, heterogeneity, uncertainty, data quality. Astrophysics Bioinformatics Social Informatics Problem Identifying target Problem Emergent behavior, Problem Outlier detection proteins information spread Challenges Massive data Challenges Data Challenges New analysis, sets, temporal variation heterogeneity, quality data uncertainty Graph problems Matching, Graph problems Centrality, Graph problems Clustering, clustering clustering flows, shortest pathsSIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 4/29
  • 5. These are not easy graphs. Yifan Hu’s (AT&T) visualization of the Livejournal data setSIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 5/29
  • 6. But no shortage of structure... Protein interactions, Giot et al., “A Protein Interaction Map of Drosophila melanogaster”, Jason’s network via LinkedIn Labs Science 302, 1722-1736, 2003. • Globally, there rarely are good, balanced separators in the scientific computing sense. • Locally, there are clusters or communities and many levels of detail.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 6/29
  • 7. Also no shortage of data... Existing (some out-of-date) data volumes NYSE 1.5 TB generated daily into a maintained 8 PB archive Google “Several dozen” 1PB data sets (CACM, Jan 2010) LHC 15 PB per year (avg. 21 TB daily) http://public.web.cern.ch/public/en/lhc/ Computing-en.html Wal-Mart 536 TB, 1B entries daily (2006) EBay 2 PB, traditional DB, and 6.5PB streaming, 17 trillion records, 1.5B records/day, each web click is 50-150 details. http://www.dbms2.com/2009/04/30/ ebays-two-enormous-data-warehouses/ Faceboot 845 M users... and growing. • All data is rich and semantic (graphs!) and changing. • Base data rates include items and not relationships.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 7/29
  • 8. General approaches • High-performance static graph analysis • Develop techniques that apply to unchanging massive graphs. • Provides useful after-the-fact information, starting points. • Serves many existing applications well: market research, much bioinformatics, ... • High-performance streaming graph analysis • Focus on the dynamic changes within massive graphs. • Find trends or new information as they appear. • Serves upcoming applications: fault or threat detection, trend analysis, ... Both very important to different areas. Remaining focus is on streaming. Note: Not CS theory streaming, but analysis of streaming data.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 8/29
  • 9. Why analyze data streams? Data transfer • 1 Gb Ethernet: 8.7TB daily at Data volumes 100%, 5-6TB daily realistic NYSE 1.5TB daily • Multi-TB storage on 10GE: 300TB LHC 41TB daily daily read, 90TB daily write Facebook Who knows? • CPU ↔ Memory: QPI,HT: 2PB/day@100% Data growth Speed growth • Facebook: > 2×/yr • Ethernet/IB/etc.: 4× in next 2 • Twitter: > 10×/yr years. Maybe. • Growing sources: • Flash storage, direct: 10× write, Bioinformatics, 4× read. Relatively huge cost. µsensors, securitySIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 9/29
  • 10. Overall streaming approach Protein interactions, Giot et al., “A Protein Interaction Map of Drosophila melanogaster”, Jason’s network via LinkedIn Labs Science 302, 1722-1736, 2003. Assumptions • A graph represents some real-world phenomenon. • But not necessarily exactly! • Noise comes from lost updates, partial information, ...SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 10/29
  • 11. Overall streaming approach Protein interactions, Giot et al., “A Protein Interaction Map of Drosophila melanogaster”, Jason’s network via LinkedIn Labs Science 302, 1722-1736, 2003. Assumptions • We target massive, “social network” graphs. • Small diameter, power-law degrees • Small changes in massive graphs often are unrelated.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 11/29
  • 12. Overall streaming approach Protein interactions, Giot et al., “A Protein Interaction Map of Drosophila melanogaster”, Jason’s network via LinkedIn Labs Science 302, 1722-1736, 2003. Assumptions • The graph changes, but we don’t need a continuous view. • We can accumulate changes into batches... • But not so many that it impedes responsiveness.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 12/29
  • 13. Difficulties for performance • What partitioning methods apply? • Geometric? Nope. • Balanced? Nope. • Is there a single, useful decomposition? Not likely. • Some partitions exist, but they don’t often help with balanced bisection or memory locality. • Performance needs new approaches, not just standard scientific Jason’s network via LinkedIn Labs computing methods.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 13/29
  • 14. STING’s focus Control action prediction summary Source data Simulation / query Viz • STING manages queries against changing graph data. • Visualization and control often are application specific. • Ideal: Maintain many persistent graph analysis kernels. • Keep one current snapshot of the graph resident. • Let kernels maintain smaller histories. • Also (a harder goal), coordinate the kernels’ cooperation. • Gather data into a typed graph structure, STINGER.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 14/29
  • 15. STINGER STING Extensible Representation: • Rule #1: No explicit locking. • Rely on atomic operations. • Massive graph: Scattered updates, scattered reads rarely conflict. • Use time stamps for some view of time.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 15/29
  • 16. Initial results Prototype STING and STINGER Monitoring the following properties: 1 clustering coefficients, 2 connected components, and 3 community structure (in progress). High-level • Support high rates of change, over 10k updates per second. • Performance scales somewhat with available processing. • Gut feeling: Scales as much with sockets as cores. http://www.cc.gatech.edu/stinger/SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 16/29
  • 17. Experimental setup Unless otherwise noted Line Model Speed (GHz) Sockets Cores Nehalem X5570 2.93 2 4 Westmere E7-8870 2.40 4 10 • Westmere loaned by Intel (thank you!) • All memory: 1067MHz DDR3, installed appropriately • Implementations: OpenMP, gcc 4.6.1, Linux ≈ 3.0 kernel • Artificial graph and edge stream generated by R-MAT [Chakrabarti, Zhan, & Faloutsos]. • Scale x, edge factor f ⇒ 2x vertices, ≈ f · 2x edges. • Edge actions: 7/8th insertions, 1/8th deletions • Results over five batches of edge actions. • Caveat: No vector instructions, low-level optimizations yet.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 17/29
  • 18. Clustering coefficients • Used to measure “small-world-ness” [Watts & Strogatz] and potential i m community structure • Larger clustering coefficient ⇒ more v inter-connected j n • Roughly the ratio of the number of actual to potential triangles • Defined in terms of triplets. • i – v – j is a closed triplet (triangle). • m – v – n is an open triplet. • Clustering coefficient: # of closed triplets / total # of triplets • Locally around v or globally for entire graph.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 18/29
  • 19. Updating triangle counts Given Edge {u, v } to be inserted (+) or deleted (-) Approach Search for vertices adjacent to both u and v , update counts on those and u and v Three methods Brute force Intersect neighbors of u and v by iterating over each, O(du dv ) time. Sorted list Sort u’s neighbors. For each neighbor of v , check if in the sorted list. Compressed bits Summarize u’s neighbors in a bit array. Reduces check for v ’s neighbors to O(1) time each. Approximate with Bloom filters. [MTAAP10] All rely on atomic addition.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 19/29
  • 20. Batches of 10k actions Brute force Bloom filter Sorted list 1.7e+04 3.4e+04 8.8e+04 1.2e+05 8.8e+04 1.4e+05 105.5 1.5e+04 1.3e+05 1.2e+05 5.1e+03 2.4e+04 2.2e+04 Updates per seconds, both metric and STINGER 3.9e+03 2.0e+04 1.7e+04 q q q q q q q q q 5 q q q q 10 q q qq q q q q q q q q Machine 104.5 q a 4 x E7−8870 q q a 2 x X5570 q q q q q 104 103.5 0 20 40 60 80 0 20 40 60 80 0 20 40 60 80 Threads Graph size: scale 22, edge factor 16SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 20/29
  • 21. Different batch sizes Brute force Bloom filter Sorted list 105.5 105 q q q q q q q q q q Updates per seconds, both metric and STINGER q q q 100 4.5 q 10 q q q q q q q q q 104 q qq q 3.5 q q 10 105.5 105 q q q q q q q q Machine 1000 104.5 q q 4 x E7−8870 q q q 2 x X5570 104 q q q q q q 103.5 105.5 q q q q q q q 105 qq q q q qqq q q q q q q 10000 q 4.5 q 10 q q q q q q 104 103.5 0 20 40 60 80 0 20 40 60 80 0 20 40 60 80 Threads Graph size: scale 22, edge factor 16SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 21/29
  • 22. Different batch sizes: Reactivity Brute force Bloom filter Sorted list 100 10−0.5 Seconds between updates, both metric and STINGER 10−1 100 q qq 10−1.5 q q q q q q 10−2 q q q q q q q q q q 10−2.5 q q q q q q q q q 10−3 q q q 100 10−0.5 q q q Machine 10−1 qq 1000 q q q q 4 x E7−8870 10−1.5 q q q q 10−2 q qq q q 2 x X5570 10−2.5 10−3 100 q q q q q 10−0.5 q q q q q q q 10−1 qq qqq 10000 q q q q q q q q q q q 10−1.5 10−2 10−2.5 10−3 0 20 40 60 80 0 20 40 60 80 0 20 40 60 80 Threads Graph size: scale 22, edge factor 16SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 22/29
  • 23. Connected components • Maintain a mapping from vertex to component. • Global property, unlike triangle counts • In “scale free” social networks: • Often one big component, and • many tiny ones. • Edge changes often sit within components. • Remaining insertions merge components. • Deletions are more difficult...SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 23/29
  • 24. Connected components • Maintain a mapping from vertex to component. • Global property, unlike triangle counts • In “scale free” social networks: • Often one big component, and • many tiny ones. • Edge changes often sit within components. • Remaining insertions merge components. • Deletions are more difficult...SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 24/29
  • 25. Connected components: Deleted edges The difficult case • Very few deletions matter. • Determining which matter may require a large graph search. • Re-running static component detection. • (Long history, see related work in [MTAAP11].) • Coping mechanisms: • Heuristics. • Second level of batching.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 25/29
  • 26. Deletion heuristics Rule out effect-less deletions • Use the spanning tree by-product of static connected component algorithms. • Ignore deletions when one of the following occur: 1 The deleted edge is not in the spanning tree. 2 If the endpoints share a common neighbor∗ . 3 If the loose endpoint can reach the root∗ . • In the last two (∗), also fix the spanning tree. Rules out 99.7% of deletions.SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 26/29
  • 27. Connected components: Performance 106 2.4e+03 1.6e+04 6.4e+03 3.2e+03 2.0e+03 105 100 Updates per seconds, both metric and STINGER 104 103 106 1.7e+04 7.7e+04 1.4e+04 1.9e+04 2.0e+04 105 Machine 1000 104 a 4 x E7−8870 a 2 x X5570 3 10 106 5.8e+04 1.3e+05 1.5e+05 5.5e+04 1.1e+05 5 10 10000 104 103 12 4 6 8 12 16 24 32 40 48 56 64 72 80 Threads Graph size: scale 22, edge factor 16SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 27/29
  • 28. Common aspects • Each parallelizes sufficiently well over the affected vertices V , those touched by new or removed edges. • Total amount of work is O(Vol(V )) = O( v ∈V deg(v )). • Our in-progress work on refining or re-agglomerating communities with updates also is O(Vol(V )). • How many interesting graph properties can be updated with O(Vol(V )) work? • Do these parallelize well? • The hidden constant and how quickly performance becomes asymptotic determines the metric update rate. What implementation techniques bash down the constant? • How sensitive are these metrics to noise and error? • How quickly can we “forget” data and still maintain metrics?SIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 28/29
  • 29. Session outline Emergent Behavior Detection in Massive Graphs : Nadya Bliss and Benjamin Miller, Massachusetts Institute of Technology, USA Scalable Graph Clustering and Analysis with KDT : John R. Gilbert and Adam Lugowski, University of California, Santa Barbara, USA; Steve Reinhardt, Cray, USA Multiscale Approach for Network Compression-friendly Ordering : Ilya Safro, Argonne National Laboratory, USA; Boris Temkin, Weizmann Institute of Science, IsraelSIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 29/29
  • 30. Acknowledgment of supportSIAM PP 2012—Scalable Algorithms for Analysis of Massive, Streaming Graphs—Jason Riedy 30/29

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