14 Search Results for "Gu, Yan"

Document
DOI: 10.4230/LIPIcs.ESA.2024.84
Insights into (k, ρ)-Shortcutting Algorithms

Authors: Alexander Leonhardt, Ulrich Meyer, and Manuel Penschuck

Published in: LIPIcs, Volume 308, 32nd Annual European Symposium on Algorithms (ESA 2024)

Abstract
A graph is called a (k, ρ)-graph iff every node can reach ρ of its nearest neighbors in at most k hops. This property has proven useful in the analysis and design of parallel shortest-path algorithms [Blelloch et al., 2016; Dong et al., 2021]. Any graph can be transformed into a (k, ρ)-graph by adding shortcuts. Formally, the (k,ρ)-Minimum-Shortcut-Problem (kρ-MSP) asks to find an appropriate shortcut set of minimal cardinality. We show that kρ-MSP is NP-complete in the practical regime of k ≥ 3 and ρ = Θ(n^ε) for ε > 0. With a related construction, we bound the approximation factor of known kρ-MSP heuristics [Blelloch et al., 2016] from below and propose algorithmic countermeasures improving the approximation quality. Further, we describe an integer linear problem (ILP) that optimally solves kρ-MSP. Finally, we compare the practical performance and quality of all algorithms empirically.
Cite as

Alexander Leonhardt, Ulrich Meyer, and Manuel Penschuck. Insights into (k, ρ)-Shortcutting Algorithms. In 32nd Annual European Symposium on Algorithms (ESA 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 308, pp. 84:1-84:17, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{leonhardt_et_al:LIPIcs.ESA.2024.84,
  author =	{Leonhardt, Alexander and Meyer, Ulrich and Penschuck, Manuel},
  title =	{{Insights into (k, \rho)-Shortcutting Algorithms}},
  booktitle =	{32nd Annual European Symposium on Algorithms (ESA 2024)},
  pages =	{84:1--84:17},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-338-6},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{308},
  editor =	{Chan, Timothy and Fischer, Johannes and Iacono, John and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2024.84},
  URN =		{urn:nbn:de:0030-drops-211554},
  doi =		{10.4230/LIPIcs.ESA.2024.84},
  annote =	{Keywords: Complexity, Approximation, Optimal algorithms, Parallel shortest path}
}
Document
RANDOM
DOI: 10.4230/LIPIcs.APPROX/RANDOM.2024.47
Upper Bounds on the 2-Colorability Threshold of Random d-Regular k-Uniform Hypergraphs for k ≥ 3

Authors: Evan Chang, Neel Kolhe, and Youngtak Sohn

Published in: LIPIcs, Volume 317, Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024)

Abstract
For a large class of random constraint satisfaction problems (csp), deep but non-rigorous theory from statistical physics predict the location of the sharp satisfiability transition. The works of Ding, Sly, Sun (2014, 2016) and Coja-Oghlan, Panagiotou (2014) established the satisfiability threshold for random regular k-nae-sat, random k-sat, and random regular k-sat for large enough k ≥ k₀ where k₀ is a large non-explicit constant. Establishing the same for small values of k ≥ 3 remains an important open problem in the study of random csps. In this work, we study two closely related models of random csps, namely the 2-coloring on random d-regular k-uniform hypergraphs and the random d-regular k-nae-sat model. For every k ≥ 3, we prove that there is an explicit d_⋆(k) which gives a satisfiability upper bound for both of the models. Our upper bound d_⋆(k) for k ≥ 3 matches the prediction from statistical physics for the hypergraph 2-coloring by Dall’Asta, Ramezanpour, Zecchina (2008), thus conjectured to be sharp. Moreover, d_⋆(k) coincides with the satisfiability threshold of random regular k-nae-sat for large enough k ≥ k₀ by Ding, Sly, Sun (2014).
Cite as

Evan Chang, Neel Kolhe, and Youngtak Sohn. Upper Bounds on the 2-Colorability Threshold of Random d-Regular k-Uniform Hypergraphs for k ≥ 3. In Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 317, pp. 47:1-47:23, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{chang_et_al:LIPIcs.APPROX/RANDOM.2024.47,
  author =	{Chang, Evan and Kolhe, Neel and Sohn, Youngtak},
  title =	{{Upper Bounds on the 2-Colorability Threshold of Random d-Regular k-Uniform Hypergraphs for k ≥ 3}},
  booktitle =	{Approximation, Randomization, and Combinatorial Optimization. Algorithms and Techniques (APPROX/RANDOM 2024)},
  pages =	{47:1--47:23},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-348-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{317},
  editor =	{Kumar, Amit and Ron-Zewi, Noga},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.APPROX/RANDOM.2024.47},
  URN =		{urn:nbn:de:0030-drops-210402},
  doi =		{10.4230/LIPIcs.APPROX/RANDOM.2024.47},
  annote =	{Keywords: Random constraint satisfaction problem, replica symmetry breaking, interpolation bound}
}
Document
DOI: 10.4230/LIPIcs.ECOOP.2024.4
Dynamically Generating Callback Summaries for Enhancing Static Analysis

Authors: Steven Arzt, Marc Miltenberger, and Julius Näumann

Published in: LIPIcs, Volume 313, 38th European Conference on Object-Oriented Programming (ECOOP 2024)

Abstract
Interprocedural static analyses require a complete and precise callgraph. Since third-party libraries are responsible for large portions of the code of an app, a substantial fraction of the effort in callgraph generation is therefore spent on the library code for each app. For analyses that are oblivious to the inner workings of a library and only require the user code to be processed, the library can be replaced with a summary that allows to reconstruct the callbacks from library code back to user code. To improve performance, we propose the automatic generation and use of precise pre-computed callgraph summaries for commonly used libraries. Reflective method calls within libraries and callback-driven APIs pose further challenges for generating precise callgraphs using static analysis. Pre-computed summaries can also help analyses avoid these challenges. We present CGMiner, an approach for automatically generating callgraph models for library code. It dynamically observes sample apps that use one or more particular target libraries. As we show, CGMiner yields more than 94% of correct edges, whereas existing work only achieves around 33% correct edges. CGMiner avoids the high false positive rate of existing tools. We show that CGMiner integrated into FlowDroid uncovers 40% more data flows than our baseline without callback summaries.
Cite as

Steven Arzt, Marc Miltenberger, and Julius Näumann. Dynamically Generating Callback Summaries for Enhancing Static Analysis. In 38th European Conference on Object-Oriented Programming (ECOOP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 313, pp. 4:1-4:27, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{arzt_et_al:LIPIcs.ECOOP.2024.4,
  author =	{Arzt, Steven and Miltenberger, Marc and N\"{a}umann, Julius},
  title =	{{Dynamically Generating Callback Summaries for Enhancing Static Analysis}},
  booktitle =	{38th European Conference on Object-Oriented Programming (ECOOP 2024)},
  pages =	{4:1--4:27},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-341-6},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{313},
  editor =	{Aldrich, Jonathan and Salvaneschi, Guido},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ECOOP.2024.4},
  URN =		{urn:nbn:de:0030-drops-208533},
  doi =		{10.4230/LIPIcs.ECOOP.2024.4},
  annote =	{Keywords: dynamic analysis, callback detection, java, android}
}
Document
DOI: 10.4230/LIPIcs.DNA.30.3
Simulation of the Abstract Tile Assembly Model Using Crisscross Slats

Authors: Phillip Drake, Daniel Hader, and Matthew J. Patitz

Published in: LIPIcs, Volume 314, 30th International Conference on DNA Computing and Molecular Programming (DNA 30) (2024)

Abstract
The abstract Tile Assembly Model (aTAM) provides an excellent foundation for the mathematical study of DNA-tile-based self-assembling systems, especially those wherein logic is embedded within the designs of the tiles so that they follow prescribed algorithms. While such algorithmic self-assembling systems are theoretically powerful, being computationally universal and capable of building complex shapes using information-theoretically optimal numbers of tiles, physical DNA-based implementations of these systems still encounter formidable error rates and undesired nucleation that hinder this theoretical potential. Slat-based self-assembly is a recent development wherein DNA forms long slats that combine together in 2 layers, rather than square tiles in a plane. In this approach, the length of the slats is key; while tiles typically only bind to 2 neighboring tiles at a time, slats may bind to dozens of other slats. This increased coordination between slats means that several mismatched slats must coincidentally meet in just the right way for errors to persist, unlike tiles where only a few are required. Consequently, while still a novel technology, large slat-based DNA constructions have been successfully implemented in the lab with resilience to many tile-based construction problems. These improved error characteristics come at a cost however, as slat-based systems are often more difficult to design and simulate than tile-based ones. Moreover, it has not been clear whether slats, with their larger sizes and different geometries, have the same theoretical capabilities as tiles. In this paper, we show that slats are capable of doing anything that tiles can, at least at scale. We demonstrate that any aTAM system may be converted to and simulated by an effectively equivalent system of slats. Furthermore, we show that these simulating slat systems can be made more efficiently, using shorter slats and a smaller scale factor, if the simulated tile system avoids certain uncommon growth patterns. Specifically, we consider 5 classes of aTAM systems with increasing complexity, from zig-zag systems which grow in a rigid pattern to the full class of all aTAM systems, and show how they may be converted to equivalent slat systems. We show that the simplest class may be simulated by slats at only a 2c × 2c scale, where c is the freely chosen coordination number of the slats, and further show that the full class of aTAM systems can be simulated at only a 5c × 5c scale. These results prove that slats have the full theoretical power of aTAM tiles while also providing constructions that are compact enough for potential DNA-based implementations of slat systems that are both capable of powerful algorithmic self-assembly and possessing of the strong error resilience of slats.
Cite as

Phillip Drake, Daniel Hader, and Matthew J. Patitz. Simulation of the Abstract Tile Assembly Model Using Crisscross Slats. In 30th International Conference on DNA Computing and Molecular Programming (DNA 30). Leibniz International Proceedings in Informatics (LIPIcs), Volume 314, pp. 3:1-3:25, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{drake_et_al:LIPIcs.DNA.30.3,
  author =	{Drake, Phillip and Hader, Daniel and Patitz, Matthew J.},
  title =	{{Simulation of the Abstract Tile Assembly Model Using Crisscross Slats}},
  booktitle =	{30th International Conference on DNA Computing and Molecular Programming (DNA 30)},
  pages =	{3:1--3:25},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-344-7},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{314},
  editor =	{Seki, Shinnosuke and Stewart, Jaimie Marie},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.DNA.30.3},
  URN =		{urn:nbn:de:0030-drops-209315},
  doi =		{10.4230/LIPIcs.DNA.30.3},
  annote =	{Keywords: DNA origami, tile-assembly, self-assembly, aTAM, kinetic modeling, computational modeling}
}
Document
DOI: 10.4230/LIPIcs.SEA.2024.5
Buffered Streaming Edge Partitioning

Authors: Adil Chhabra, Marcelo Fonseca Faraj, Christian Schulz, and Daniel Seemaier

Published in: LIPIcs, Volume 301, 22nd International Symposium on Experimental Algorithms (SEA 2024)

Abstract
Addressing the challenges of processing massive graphs, which are prevalent in diverse fields such as social, biological, and technical networks, we introduce HeiStreamE and FreightE, two innovative (buffered) streaming algorithms designed for efficient edge partitioning of large-scale graphs. HeiStreamE utilizes an adapted Split-and-Connect graph model and a Fennel-based multilevel partitioning scheme, while FreightE partitions a hypergraph representation of the input graph. Besides ensuring superior solution quality, these approaches also overcome the limitations of existing algorithms by maintaining linear dependency on the graph size in both time and memory complexity with no dependence on the number of blocks of partition. Our comprehensive experimental analysis demonstrates that HeiStreamE outperforms current streaming algorithms and the re-streaming algorithm 2PS in partitioning quality (replication factor), and is more memory-efficient for real-world networks where the number of edges is far greater than the number of vertices. Further, FreightE is shown to produce fast and efficient partitions, particularly for higher numbers of partition blocks.
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Adil Chhabra, Marcelo Fonseca Faraj, Christian Schulz, and Daniel Seemaier. Buffered Streaming Edge Partitioning. In 22nd International Symposium on Experimental Algorithms (SEA 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 301, pp. 5:1-5:21, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{chhabra_et_al:LIPIcs.SEA.2024.5,
  author =	{Chhabra, Adil and Fonseca Faraj, Marcelo and Schulz, Christian and Seemaier, Daniel},
  title =	{{Buffered Streaming Edge Partitioning}},
  booktitle =	{22nd International Symposium on Experimental Algorithms (SEA 2024)},
  pages =	{5:1--5:21},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-325-6},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{301},
  editor =	{Liberti, Leo},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SEA.2024.5},
  URN =		{urn:nbn:de:0030-drops-203701},
  doi =		{10.4230/LIPIcs.SEA.2024.5},
  annote =	{Keywords: graph partitioning, edge partitioning, streaming, online, buffered partitioning}
}
Document
DOI: 10.4230/LIPIcs.ECRTS.2024.5
Shared Resource Contention in MCUs: A Reality Check and the Quest for Timeliness

Authors: Daniel Oliveira, Weifan Chen, Sandro Pinto, and Renato Mancuso

Published in: LIPIcs, Volume 298, 36th Euromicro Conference on Real-Time Systems (ECRTS 2024)

Abstract
Microcontrollers (MCUs) are steadily embracing multi-core technology to meet growing performance demands. This trend marks a shift from their traditionally simple, deterministic designs to more complex and inherently less predictable architectures. While shared resource contention is well-studied in mid to high-end embedded systems, the emergence of multi-core architectures in MCUs introduces unique challenges and characteristics that existing research has not fully explored. In this paper, we conduct an in-depth investigation of both mainstream and next-generation MCU-based platforms, aiming to identify the sources of contention on systems typically lacking these problems. We empirically demonstrate substantial contention effects across different MCU architectures (i.e., from single- to multi-core configurations), highlighting significant application slowdowns. Notably, we observe that slowdowns can reach several orders of magnitude, with the most extreme cases showing up to a 3800x (times, not percent) increase in execution time. To address these issues, we propose and evaluate muTPArtc, a novel mechanism designed for Timely Progress Assessment (TPA) and TPA-based runtime control specifically tailored to MCUs. muTPArtc is an MCU-specialized TPA-based mechanism that leverages hardware facilities widely available in commercial off-the-shelf MCUs (i.e., hardware breakpoints and cycle counters) to successfully monitor applications' progress, detect, and mitigate timing violations. Our results demonstrate that muTPArtc effectively manages performance degradation due to interference, requiring only minimal modifications to the build pipeline and no changes to the source code of the target application, while incurring minor overheads.
Cite as

Daniel Oliveira, Weifan Chen, Sandro Pinto, and Renato Mancuso. Shared Resource Contention in MCUs: A Reality Check and the Quest for Timeliness. In 36th Euromicro Conference on Real-Time Systems (ECRTS 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 298, pp. 5:1-5:25, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{oliveira_et_al:LIPIcs.ECRTS.2024.5,
  author =	{Oliveira, Daniel and Chen, Weifan and Pinto, Sandro and Mancuso, Renato},
  title =	{{Shared Resource Contention in MCUs: A Reality Check and the Quest for Timeliness}},
  booktitle =	{36th Euromicro Conference on Real-Time Systems (ECRTS 2024)},
  pages =	{5:1--5:25},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-324-9},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{298},
  editor =	{Pellizzoni, Rodolfo},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ECRTS.2024.5},
  URN =		{urn:nbn:de:0030-drops-203088},
  doi =		{10.4230/LIPIcs.ECRTS.2024.5},
  annote =	{Keywords: multi-core microcontrollers, shared resources contention, progress-aware regulation}
}
Document
Track A: Algorithms, Complexity and Games
DOI: 10.4230/LIPIcs.ICALP.2024.18
It’s Hard to HAC Average Linkage!

Authors: MohammadHossein Bateni, Laxman Dhulipala, Kishen N. Gowda, D. Ellis Hershkowitz, Rajesh Jayaram, and Jakub Łącki

Published in: LIPIcs, Volume 297, 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)

Abstract
Average linkage Hierarchical Agglomerative Clustering (HAC) is an extensively studied and applied method for hierarchical clustering. Recent applications to massive datasets have driven significant interest in near-linear-time and efficient parallel algorithms for average linkage HAC. We provide hardness results that rule out such algorithms. On the sequential side, we establish a runtime lower bound of n^{3/2-ε} on n node graphs for sequential combinatorial algorithms under standard fine-grained complexity assumptions. This essentially matches the best-known running time for average linkage HAC. On the parallel side, we prove that average linkage HAC likely cannot be parallelized even on simple graphs by showing that it is CC-hard on trees of diameter 4. On the possibility side, we demonstrate that average linkage HAC can be efficiently parallelized (i.e., it is in NC) on paths and can be solved in near-linear time when the height of the output cluster hierarchy is small.
Cite as

MohammadHossein Bateni, Laxman Dhulipala, Kishen N. Gowda, D. Ellis Hershkowitz, Rajesh Jayaram, and Jakub Łącki. It’s Hard to HAC Average Linkage!. In 51st International Colloquium on Automata, Languages, and Programming (ICALP 2024). Leibniz International Proceedings in Informatics (LIPIcs), Volume 297, pp. 18:1-18:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@InProceedings{bateni_et_al:LIPIcs.ICALP.2024.18,
  author =	{Bateni, MohammadHossein and Dhulipala, Laxman and Gowda, Kishen N. and Hershkowitz, D. Ellis and Jayaram, Rajesh and {\L}\k{a}cki, Jakub},
  title =	{{It’s Hard to HAC Average Linkage!}},
  booktitle =	{51st International Colloquium on Automata, Languages, and Programming (ICALP 2024)},
  pages =	{18:1--18:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-322-5},
  ISSN =	{1868-8969},
  year =	{2024},
  volume =	{297},
  editor =	{Bringmann, Karl and Grohe, Martin and Puppis, Gabriele and Svensson, Ola},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2024.18},
  URN =		{urn:nbn:de:0030-drops-201613},
  doi =		{10.4230/LIPIcs.ICALP.2024.18},
  annote =	{Keywords: Clustering, Hierarchical Graph Clustering, HAC, Fine-Grained Complexity, Parallel Algorithms, CC}
}
Document
Position
DOI: 10.4230/TGDK.2.1.2
Grounding Stream Reasoning Research

Authors: Pieter Bonte, Jean-Paul Calbimonte, Daniel de Leng, Daniele Dell'Aglio, Emanuele Della Valle, Thomas Eiter, Federico Giannini, Fredrik Heintz, Konstantin Schekotihin, Danh Le-Phuoc, Alessandra Mileo, Patrik Schneider, Riccardo Tommasini, Jacopo Urbani, and Giacomo Ziffer

Published in: TGDK, Volume 2, Issue 1 (2024): Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge, Volume 2, Issue 1

Abstract
In the last decade, there has been a growing interest in applying AI technologies to implement complex data analytics over data streams. To this end, researchers in various fields have been organising a yearly event called the "Stream Reasoning Workshop" to share perspectives, challenges, and experiences around this topic. In this paper, the previous organisers of the workshops and other community members provide a summary of the main research results that have been discussed during the first six editions of the event. These results can be categorised into four main research areas: The first is concerned with the technological challenges related to handling large data streams. The second area aims at adapting and extending existing semantic technologies to data streams. The third and fourth areas focus on how to implement reasoning techniques, either considering deductive or inductive techniques, to extract new and valuable knowledge from the data in the stream. This summary is written not only to provide a crystallisation of the field, but also to point out distinctive traits of the stream reasoning community. Moreover, it also provides a foundation for future research by enumerating a list of use cases and open challenges, to stimulate others to join this exciting research area.
Cite as

Pieter Bonte, Jean-Paul Calbimonte, Daniel de Leng, Daniele Dell'Aglio, Emanuele Della Valle, Thomas Eiter, Federico Giannini, Fredrik Heintz, Konstantin Schekotihin, Danh Le-Phuoc, Alessandra Mileo, Patrik Schneider, Riccardo Tommasini, Jacopo Urbani, and Giacomo Ziffer. Grounding Stream Reasoning Research. In Special Issue on Trends in Graph Data and Knowledge - Part 2. Transactions on Graph Data and Knowledge (TGDK), Volume 2, Issue 1, pp. 2:1-2:47, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2024)

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@Article{bonte_et_al:TGDK.2.1.2,
  author =	{Bonte, Pieter and Calbimonte, Jean-Paul and de Leng, Daniel and Dell'Aglio, Daniele and Della Valle, Emanuele and Eiter, Thomas and Giannini, Federico and Heintz, Fredrik and Schekotihin, Konstantin and Le-Phuoc, Danh and Mileo, Alessandra and Schneider, Patrik and Tommasini, Riccardo and Urbani, Jacopo and Ziffer, Giacomo},
  title =	{{Grounding Stream Reasoning Research}},
  journal =	{Transactions on Graph Data and Knowledge},
  pages =	{2:1--2:47},
  ISSN =	{2942-7517},
  year =	{2024},
  volume =	{2},
  number =	{1},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/TGDK.2.1.2},
  URN =		{urn:nbn:de:0030-drops-198597},
  doi =		{10.4230/TGDK.2.1.2},
  annote =	{Keywords: Stream Reasoning, Stream Processing, RDF streams, Streaming Linked Data, Continuous query processing, Temporal Logics, High-performance computing, Databases}
}
Document
DOI: 10.4230/LIPIcs.ESA.2023.40
Efficient Parallel Output-Sensitive Edit Distance

Authors: Xiangyun Ding, Xiaojun Dong, Yan Gu, Youzhe Liu, and Yihan Sun

Published in: LIPIcs, Volume 274, 31st Annual European Symposium on Algorithms (ESA 2023)

Abstract
In this paper, we study efficient parallel edit distance algorithms, both in theory and in practice. Given two strings A[1..n] and B[1..m], and a set of operations allowed to edit the strings, the edit distance between A and B is the minimum number of operations required to transform A into B. In this paper, we use edit distance to refer to the Levenshtein distance, which allows for unit-cost single-character edits (insertions, deletions, substitutions). Sequentially, a standard Dynamic Programming (DP) algorithm solves edit distance with Θ(nm) cost. In many real-world applications, the strings to be compared are similar to each other and have small edit distances. To achieve highly practical implementations, we focus on output-sensitive parallel edit-distance algorithms, i.e., to achieve asymptotically better cost bounds than the standard Θ(nm) algorithm when the edit distance is small. We study four algorithms in the paper, including three algorithms based on Breadth-First Search (BFS), and one algorithm based on Divide-and-Conquer (DaC). Our BFS-based solution is based on the Landau-Vishkin algorithm. We implement three different data structures for the longest common prefix (LCP) queries needed in the algorithm: the classic solution using parallel suffix array, and two hash-based solutions proposed in this paper. Our DaC-based solution is inspired by the output-insensitive solution proposed by Apostolico et al., and we propose a non-trivial adaption to make it output-sensitive. All of the algorithms studied in this paper have good theoretical guarantees, and they achieve different tradeoffs between work (total number of operations), span (longest dependence chain in the computation), and space. We test and compare our algorithms on both synthetic data and real-world data, including DNA sequences, Wikipedia texts, GitHub repositories, etc. Our BFS-based algorithms outperform the existing parallel edit-distance implementation in ParlayLib in all test cases. On cases with fewer than 10⁵ edits, our algorithm can process input sequences of size 10⁹ in about ten seconds, while ParlayLib can only process sequences of sizes up to 10⁶ in the same amount of time. By comparing our algorithms, we also provide a better understanding of the choice of algorithms for different input patterns. We believe that our paper is the first systematic study in the theory and practice of parallel edit distance.
Cite as

Xiangyun Ding, Xiaojun Dong, Yan Gu, Youzhe Liu, and Yihan Sun. Efficient Parallel Output-Sensitive Edit Distance. In 31st Annual European Symposium on Algorithms (ESA 2023). Leibniz International Proceedings in Informatics (LIPIcs), Volume 274, pp. 40:1-40:20, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2023)

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@InProceedings{ding_et_al:LIPIcs.ESA.2023.40,
  author =	{Ding, Xiangyun and Dong, Xiaojun and Gu, Yan and Liu, Youzhe and Sun, Yihan},
  title =	{{Efficient Parallel Output-Sensitive Edit Distance}},
  booktitle =	{31st Annual European Symposium on Algorithms (ESA 2023)},
  pages =	{40:1--40:20},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-295-2},
  ISSN =	{1868-8969},
  year =	{2023},
  volume =	{274},
  editor =	{G{\o}rtz, Inge Li and Farach-Colton, Martin and Puglisi, Simon J. and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2023.40},
  URN =		{urn:nbn:de:0030-drops-186935},
  doi =		{10.4230/LIPIcs.ESA.2023.40},
  annote =	{Keywords: Edit Distance, Parallel Algorithms, String Algorithms, Dynamic Programming, Pattern Matching}
}
Document
DOI: 10.4230/LIPIcs.ESA.2022.88
ParGeo: A Library for Parallel Computational Geometry

Authors: Yiqiu Wang, Rahul Yesantharao, Shangdi Yu, Laxman Dhulipala, Yan Gu, and Julian Shun

Published in: LIPIcs, Volume 244, 30th Annual European Symposium on Algorithms (ESA 2022)

Abstract
This paper presents ParGeo, a multicore library for computational geometry. ParGeo contains modules for fundamental tasks including kd-tree based spatial search, spatial graph generation, and algorithms in computational geometry. We focus on three new algorithmic contributions provided in the library. First, we present a new parallel convex hull algorithm based on a reservation technique to enable parallel modifications to the hull. We also provide the first parallel implementations of the randomized incremental convex hull algorithm as well as a divide-and-conquer convex hull algorithm in ℝ³. Second, for the smallest enclosing ball problem, we propose a new sampling-based algorithm to quickly reduce the size of the data set. We also provide the first parallel implementation of Welzl’s classic algorithm for smallest enclosing ball. Third, we present the BDL-tree, a parallel batch-dynamic kd-tree that allows for efficient parallel updates and k-NN queries over dynamically changing point sets. BDL-trees consist of a log-structured set of kd-trees which can be used to efficiently insert, delete, and query batches of points in parallel. On 36 cores with two-way hyper-threading, our fastest convex hull algorithm achieves up to 44.7x self-relative parallel speedup and up to 559x speedup against the best existing sequential implementation. Our smallest enclosing ball algorithm using our sampling-based algorithm achieves up to 27.1x self-relative parallel speedup and up to 178x speedup against the best existing sequential implementation. Our implementation of the BDL-tree achieves self-relative parallel speedup of up to 46.1x. Across all of the algorithms in ParGeo, we achieve self-relative parallel speedup of 8.1-46.61x.
Cite as

Yiqiu Wang, Rahul Yesantharao, Shangdi Yu, Laxman Dhulipala, Yan Gu, and Julian Shun. ParGeo: A Library for Parallel Computational Geometry. In 30th Annual European Symposium on Algorithms (ESA 2022). Leibniz International Proceedings in Informatics (LIPIcs), Volume 244, pp. 88:1-88:19, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2022)

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@InProceedings{wang_et_al:LIPIcs.ESA.2022.88,
  author =	{Wang, Yiqiu and Yesantharao, Rahul and Yu, Shangdi and Dhulipala, Laxman and Gu, Yan and Shun, Julian},
  title =	{{ParGeo: A Library for Parallel Computational Geometry}},
  booktitle =	{30th Annual European Symposium on Algorithms (ESA 2022)},
  pages =	{88:1--88:19},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-247-1},
  ISSN =	{1868-8969},
  year =	{2022},
  volume =	{244},
  editor =	{Chechik, Shiri and Navarro, Gonzalo and Rotenberg, Eva and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2022.88},
  URN =		{urn:nbn:de:0030-drops-170265},
  doi =		{10.4230/LIPIcs.ESA.2022.88},
  annote =	{Keywords: Computational Geometry, Parallel Algorithms, Libraries}
}
Document
DOI: 10.4230/LIPIcs.SoCG.2021.60
A Parallel Batch-Dynamic Data Structure for the Closest Pair Problem

Authors: Yiqiu Wang, Shangdi Yu, Yan Gu, and Julian Shun

Published in: LIPIcs, Volume 189, 37th International Symposium on Computational Geometry (SoCG 2021)

Abstract
We propose a theoretically-efficient and practical parallel batch-dynamic data structure for the closest pair problem. Our solution is based on a serial dynamic closest pair data structure by Golin et al., and supports batches of insertions and deletions in parallel. For a data set of size n, our data structure supports a batch of insertions or deletions of size m in O(m(1+log ((n+m)/m))) expected work and O(log (n+m)log^*(n+m)) depth with high probability, and takes linear space. The key techniques for achieving these bounds are a new work-efficient parallel batch-dynamic binary heap, and careful management of the computation across sets of points to minimize work and depth. We provide an optimized multicore implementation of our data structure using dynamic hash tables, parallel heaps, and dynamic k-d trees. Our experiments on a variety of synthetic and real-world data sets show that it achieves a parallel speedup of up to 38.57x (15.10x on average) on 48 cores with hyper-threading. In addition, we also implement and compare four parallel algorithms for static closest pair problem, for which we are not aware of any existing practical implementations. On 48 cores with hyper-threading, the static algorithms achieve up to 51.45x (29.42x on average) speedup, and Rabin’s algorithm performs the best on average. Comparing our dynamic algorithm to the fastest static algorithm, we find that it is advantageous to use the dynamic algorithm for batch sizes of up to 20% of the data set. As far as we know, our work is the first to experimentally evaluate parallel closest pair algorithms, in both the static and the dynamic settings.
Cite as

Yiqiu Wang, Shangdi Yu, Yan Gu, and Julian Shun. A Parallel Batch-Dynamic Data Structure for the Closest Pair Problem. In 37th International Symposium on Computational Geometry (SoCG 2021). Leibniz International Proceedings in Informatics (LIPIcs), Volume 189, pp. 60:1-60:16, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2021)

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@InProceedings{wang_et_al:LIPIcs.SoCG.2021.60,
  author =	{Wang, Yiqiu and Yu, Shangdi and Gu, Yan and Shun, Julian},
  title =	{{A Parallel Batch-Dynamic Data Structure for the Closest Pair Problem}},
  booktitle =	{37th International Symposium on Computational Geometry (SoCG 2021)},
  pages =	{60:1--60:16},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-184-9},
  ISSN =	{1868-8969},
  year =	{2021},
  volume =	{189},
  editor =	{Buchin, Kevin and Colin de Verdi\`{e}re, \'{E}ric},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.SoCG.2021.60},
  URN =		{urn:nbn:de:0030-drops-138594},
  doi =		{10.4230/LIPIcs.SoCG.2021.60},
  annote =	{Keywords: Closest Pair, Parallel Algorithms, Dynamic Algorithms, Experimental Algorithms}
}
Document
DOI: 10.4230/LIPIcs.ESA.2018.44
Algorithmic Building Blocks for Asymmetric Memories

Authors: Yan Gu, Yihan Sun, and Guy E. Blelloch

Published in: LIPIcs, Volume 112, 26th Annual European Symposium on Algorithms (ESA 2018)

Abstract
The future of main memory appears to lie in the direction of new non-volatile memory technologies that provide strong capacity-to-performance ratios, but have write operations that are much more expensive than reads in terms of energy, bandwidth, and latency. This asymmetry can have a significant effect on algorithm design, and in many cases it is possible to reduce writes at the cost of more reads. This paper studies which algorithmic techniques are useful in designing practical write-efficient algorithms. We focus on several fundamental algorithmic building blocks including unordered set/map implemented using hash tables, comparison sort, and graph traversal algorithms including breadth-first search and Dijkstra's algorithm. We introduce new algorithms and implementations that can reduce writes, and analyze the performance experimentally using a software simulator. Finally, we summarize interesting lessons and directions in designing write-efficient algorithms that can be valuable to share.
Cite as

Yan Gu, Yihan Sun, and Guy E. Blelloch. Algorithmic Building Blocks for Asymmetric Memories. In 26th Annual European Symposium on Algorithms (ESA 2018). Leibniz International Proceedings in Informatics (LIPIcs), Volume 112, pp. 44:1-44:15, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2018)

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@InProceedings{gu_et_al:LIPIcs.ESA.2018.44,
  author =	{Gu, Yan and Sun, Yihan and Blelloch, Guy E.},
  title =	{{Algorithmic Building Blocks for Asymmetric Memories}},
  booktitle =	{26th Annual European Symposium on Algorithms (ESA 2018)},
  pages =	{44:1--44:15},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-081-1},
  ISSN =	{1868-8969},
  year =	{2018},
  volume =	{112},
  editor =	{Azar, Yossi and Bast, Hannah and Herman, Grzegorz},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2018.44},
  URN =		{urn:nbn:de:0030-drops-95070},
  doi =		{10.4230/LIPIcs.ESA.2018.44},
  annote =	{Keywords: Asymmetric Memory, I/O Cost, Write-Efficient Algorithms, Hash Tables, Graph-Traversal Algorithms}
}
Document
DOI: 10.4230/LIPIcs.ICALP.2017.26
Efficient Construction of Probabilistic Tree Embeddings

Authors: Guy E. Blelloch, Yan Gu, and Yihan Sun

Published in: LIPIcs, Volume 80, 44th International Colloquium on Automata, Languages, and Programming (ICALP 2017)

Abstract
In this paper we describe an algorithm that embeds a graph metric (V,d_G) on an undirected weighted graph G=(V,E) into a distribution of tree metrics (T,D_T) such that for every pair u,v in V, d_G(u,v)<=d_T(u,v) and E_T[d_T(u,v)]<=O(log n)d_G(u,v). Such embeddings have proved highly useful in designing fast approximation algorithms, as many hard problems on graphs are easy to solve on tree instances. For a graph with n vertices and m edges, our algorithm runs in O(m log n) time with high probability, which improves the previous upper bound of O(m log^3 n) shown by Mendel et al. in 2009. The key component of our algorithm is a new approximate single-source shortest-path algorithm, which implements the priority queue with a new data structure, the bucket-tree structure. The algorithm has three properties: it only requires linear time in terms of the number of edges in the input graph; the computed distances have the distance preserving property; and when computing the shortest-paths to the k-nearest vertices from the source, it only requires to visit these vertices and their edge lists. These properties are essential to guarantee the correctness and the stated work bound. Using this shortest-path algorithm, we show how to generate an intermediate structure, the approximate dominance sequences of the input graph, in O(m log n) time, and further propose a simple yet efficient algorithm to converted this sequence to a tree embedding in O(n log n) time, both with high probability. Combining the three subroutines gives the stated work bound of the algorithm. We also show a new application of probabilistic tree embeddings: they can be used to accelerate the construction of a series of approximate distance oracles.
Cite as

Guy E. Blelloch, Yan Gu, and Yihan Sun. Efficient Construction of Probabilistic Tree Embeddings. In 44th International Colloquium on Automata, Languages, and Programming (ICALP 2017). Leibniz International Proceedings in Informatics (LIPIcs), Volume 80, pp. 26:1-26:14, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2017)

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@InProceedings{blelloch_et_al:LIPIcs.ICALP.2017.26,
  author =	{Blelloch, Guy E. and Gu, Yan and Sun, Yihan},
  title =	{{Efficient Construction of Probabilistic Tree Embeddings}},
  booktitle =	{44th International Colloquium on Automata, Languages, and Programming (ICALP 2017)},
  pages =	{26:1--26:14},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-041-5},
  ISSN =	{1868-8969},
  year =	{2017},
  volume =	{80},
  editor =	{Chatzigiannakis, Ioannis and Indyk, Piotr and Kuhn, Fabian and Muscholl, Anca},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ICALP.2017.26},
  URN =		{urn:nbn:de:0030-drops-75034},
  doi =		{10.4230/LIPIcs.ICALP.2017.26},
  annote =	{Keywords: Graph Algorithm, Metric Embeddings, Probabilistic Tree Embeddings, Single-source Shortest-paths}
}
Document
DOI: 10.4230/LIPIcs.ESA.2016.14
Efficient Algorithms with Asymmetric Read and Write Costs

Authors: Guy E. Blelloch, Jeremy T. Fineman, Phillip B. Gibbons, Yan Gu, and Julian Shun

Published in: LIPIcs, Volume 57, 24th Annual European Symposium on Algorithms (ESA 2016)

Abstract
In several emerging technologies for computer memory (main memory), the cost of reading is significantly cheaper than the cost of writing. Such asymmetry in memory costs poses a fundamentally different model from the RAM for algorithm design. In this paper we study lower and upper bounds for various problems under such asymmetric read and write costs. We consider both the case in which all but O(1) memory has asymmetric cost, and the case of a small cache of symmetric memory. We model both cases using the (M,omega)-ARAM, in which there is a small (symmetric) memory of size M and a large unbounded (asymmetric) memory, both random access, and where reading from the large memory has unit cost, but writing has cost omega >> 1. For FFT and sorting networks we show a lower bound cost of Omega(omega*n*log_{omega*M}(n)), which indicates that it is not possible to achieve asymptotic improvements with cheaper reads when omega is bounded by a polynomial in M. Moreover, there is an asymptotic gap (of min(omega,log(n)/log(omega*M)) between the cost of sorting networks and comparison sorting in the model. This contrasts with the RAM, and most other models, in which the asymptotic costs are the same. We also show a lower bound for computations on an n*n diamond DAG of Omega(omega*n^2/M) cost, which indicates no asymptotic improvement is achievable with fast reads. However, we show that for the minimum edit distance problem (and related problems), which would seem to be a diamond DAG, we can beat this lower bound with an algorithm with only O(omega*n^2/(M*min(omega^{1/3},M^{1/2}))) cost. To achieve this we make use of a "path sketch" technique that is forbidden in a strict DAG computation. Finally, we show several interesting upper bounds for shortest path problems, minimum spanning trees, and other problems. A common theme in many of the upper bounds is that they require redundant computation and a tradeoff between reads and writes.
Cite as

Guy E. Blelloch, Jeremy T. Fineman, Phillip B. Gibbons, Yan Gu, and Julian Shun. Efficient Algorithms with Asymmetric Read and Write Costs. In 24th Annual European Symposium on Algorithms (ESA 2016). Leibniz International Proceedings in Informatics (LIPIcs), Volume 57, pp. 14:1-14:18, Schloss Dagstuhl – Leibniz-Zentrum für Informatik (2016)

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@InProceedings{blelloch_et_al:LIPIcs.ESA.2016.14,
  author =	{Blelloch, Guy E. and Fineman, Jeremy T. and Gibbons, Phillip B. and Gu, Yan and Shun, Julian},
  title =	{{Efficient Algorithms with Asymmetric Read and Write Costs}},
  booktitle =	{24th Annual European Symposium on Algorithms (ESA 2016)},
  pages =	{14:1--14:18},
  series =	{Leibniz International Proceedings in Informatics (LIPIcs)},
  ISBN =	{978-3-95977-015-6},
  ISSN =	{1868-8969},
  year =	{2016},
  volume =	{57},
  editor =	{Sankowski, Piotr and Zaroliagis, Christos},
  publisher =	{Schloss Dagstuhl -- Leibniz-Zentrum f{\"u}r Informatik},
  address =	{Dagstuhl, Germany},
  URL =		{https://drops.dagstuhl.de/entities/document/10.4230/LIPIcs.ESA.2016.14},
  URN =		{urn:nbn:de:0030-drops-63656},
  doi =		{10.4230/LIPIcs.ESA.2016.14},
  annote =	{Keywords: Computational Model, Lower Bounds, Shortest-paths, Non-Volatile Memory, Sorting Networks, Fast Fourier Transform, Diamond DAG, Minimum Spanning Tree}
}
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