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External Memory Algorithms and Data Structures
, 1998
"... Data sets in large applications are often too massive to fit completely inside the computer's internal memory. The resulting input/output communication (or I/O) between fast internal memory and slower external memory (such as disks) can be a major performance bottleneck. In this paper, we surve ..."
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Cited by 333 (25 self)
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Data sets in large applications are often too massive to fit completely inside the computer's internal memory. The resulting input/output communication (or I/O) between fast internal memory and slower external memory (such as disks) can be a major performance bottleneck. In this paper, we survey the state of the art in the design and analysis of external memory algorithms and data structures (which are sometimes referred to as "EM" or "I/O" or "outofcore" algorithms and data structures). EM algorithms and data structures are often designed and analyzed using the parallel disk model (PDM). The three machineindependent measures of performance in PDM are the number of I/O operations, the CPU time, and the amount of disk space. PDM allows for multiple disks (or disk arrays) and parallel CPUs, and it can be generalized to handle tertiary storage and hierarchical memory. We discuss several important paradigms for how to solve batched and online problems efficiently in external memory. Programming tools and environments are available for simplifying the programming task. The TPIE system (Transparent Parallel I/O programming Environment) is both easy to use and efficient in terms of execution speed. We report on some experiments using TPIE in the domain of spatial databases. The newly developed EM algorithms and data structures that incorporate the paradigms we discuss are significantly faster than methods currently used in practice.
The buffer tree: A new technique for optimal I/Oalgorithms
 University of Aarhus
, 1995
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ExternalMemory Algorithms for Processing Line Segments in Geographic Information Systems
, 2007
"... In the design of algorithms for largescale applications it is essential to consider the problem of minimizing I/O communication. Geographical information systems (GIS) are good examples of such largescale applications as they frequently handle huge amounts of spatial data. In this paper we develop ..."
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Cited by 78 (31 self)
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In the design of algorithms for largescale applications it is essential to consider the problem of minimizing I/O communication. Geographical information systems (GIS) are good examples of such largescale applications as they frequently handle huge amounts of spatial data. In this paper we develop efficient externalmemory algorithms for a number of important problems involving line segments in the plane, including trapezoid decomposition, batched planar point location, triangulation, red–blue line segment intersection reporting, and general line segment intersection reporting. In GIS systems the first three problems are useful for rendering and modeling, and the latter two are frequently used for overlaying maps and extracting information from them.
I/OComplexity of Graph Algorithms
, 1999
"... We show lower bounds of \Omega\Gamma E V Sort(V )) for the I/Ocomplexity of graph theoretic problems like connected components, biconnected components, and minimum spanning trees, where E and V are the number of edges and vertices in the input graph, respectively. We also present a deterministic O ..."
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Cited by 73 (0 self)
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We show lower bounds of \Omega\Gamma E V Sort(V )) for the I/Ocomplexity of graph theoretic problems like connected components, biconnected components, and minimum spanning trees, where E and V are the number of edges and vertices in the input graph, respectively. We also present a deterministic O( E V Sort(V ) \Delta max(1; log log V BD E )) algorithm for the problem of graph connectivity, where B and D denote respectively the block size and number of disks. Our algorithm includes a breadth first search; this maybe of independent interest. 1 Introduction Data sets of many modern applications are too large to fit into main memory, and must reside on disk. To run such applications efficiently, it is often necessary to explicitly manage disk accesses as a part of the algorithm. In other words, the algorithm must be designed for a model that includes disk, rather than the customary RAM model. Recently, this area has received a lot of attention, and algorithms have been developed for...
On the limits of cacheobliviousness
 IN PROC. 35TH ANNUAL ACM SYMPOSIUM ON THEORY OF COMPUTING
, 2003
"... In this paper, we present lower bounds for permuting and sorting in the cacheoblivious model. We prove that (1) I/O optimal cacheoblivious comparison based sorting is not possible without a tall cache assumption, and (2) there does not exist an I/O optimalcacheoblivious algorithm for permuting, ..."
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Cited by 41 (8 self)
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In this paper, we present lower bounds for permuting and sorting in the cacheoblivious model. We prove that (1) I/O optimal cacheoblivious comparison based sorting is not possible without a tall cache assumption, and (2) there does not exist an I/O optimalcacheoblivious algorithm for permuting, not even in the presence of a tall cache assumption.Our results for sorting show the existence of an inherent tradeoff in the cacheoblivious model between the strength of the tall cache assumption and the overhead for the case M >> B, and show that Funnelsort and recursive binary mergesort are optimal algorithms in the sense that they attain this tradeoff.
Efficient ExternalMemory Data Structures and Applications
, 1996
"... In this thesis we study the Input/Output (I/O) complexity of largescale problems arising e.g. in the areas of database systems, geographic information systems, VLSI design systems and computer graphics, and design I/Oefficient algorithms for them. A general theme in our work is to design I/Oeffic ..."
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Cited by 39 (12 self)
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In this thesis we study the Input/Output (I/O) complexity of largescale problems arising e.g. in the areas of database systems, geographic information systems, VLSI design systems and computer graphics, and design I/Oefficient algorithms for them. A general theme in our work is to design I/Oefficient algorithms through the design of I/Oefficient data structures. One of our philosophies is to try to isolate all the I/O specific parts of an algorithm in the data structures, that is, to try to design I/O algorithms from internal memory algorithms by exchanging the data structures used in internal memory with their external memory counterparts. The results in the thesis include a technique for transforming an internal memory tree data structure into an external data structure which can be used in a batched dynamic setting, that is, a setting where we for example do not require that the result of a search operation is returned immediately. Using this technique we develop batched dynamic external versions of the (onedimensional) rangetree and the segmenttree and we develop an external priority queue. Following our general philosophy we show how these structures can be used in standard internal memory sorting algorithms
On External Memory MST, SSSP and Multiway Planar Graph Separation (Extended Abstract)
, 2000
"... Recently external memory graph algorithms have received considerable attention because massive graphs arise naturally in many applications involving massive data sets. Even though a large number of I/Oefficient graph algorithms have been developed, a number of fundamental problems still remain ..."
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Cited by 34 (11 self)
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Recently external memory graph algorithms have received considerable attention because massive graphs arise naturally in many applications involving massive data sets. Even though a large number of I/Oefficient graph algorithms have been developed, a number of fundamental problems still remain open. In this paper we develop improved algorithms for the problem of computing a minimum spanning tree of a general graph G = (V; E), as well as new algorithms for the single source shortest paths and the multiway graph separation problems on planar graphs.
On Sorting Strings in External Memory
, 1997
"... ) Lars Arge Paolo Ferragina y Roberto Grossi z Jeffrey Scott Vitter x Abstract. In this paper we address for the first time the I/O complexity of the problem of sorting strings in external memory, which is a fundamental component of many largescale text applications. In the standard unitcost RAM c ..."
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Cited by 27 (12 self)
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) Lars Arge Paolo Ferragina y Roberto Grossi z Jeffrey Scott Vitter x Abstract. In this paper we address for the first time the I/O complexity of the problem of sorting strings in external memory, which is a fundamental component of many largescale text applications. In the standard unitcost RAM comparison model, the complexity of sorting K strings of total length N is \Theta(K log 2 K+N). By analogy, in the external memory (or I/O) model, where the internal memory has size M and the block transfer size is B, it would be natural to guess that the I/O complexity of sorting strings is \Theta( K B log M=B K B + N B ), but the known algorithms do not come even close to achieving this bound. Our results show, somewhat counterintuitively, that the I/O complexity of string sorting depends upon the length of the strings relative to the block size. We first consider a simple comparison I/O model, where one is not allowed to break the strings into their characters, and we sho...
ExternalMemory Algorithms with Applications in Geographic Information Systems
 Algorithmic Foundations of GIS
, 1997
"... In the design of algorithms for largescale applications it is essential to consider the problem of minimizing Input/Output (I/O) communication. Geographical information systems (GIS) are good examples of such largescale applications as they frequently handle huge amounts of spatial data. In this n ..."
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Cited by 26 (9 self)
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In the design of algorithms for largescale applications it is essential to consider the problem of minimizing Input/Output (I/O) communication. Geographical information systems (GIS) are good examples of such largescale applications as they frequently handle huge amounts of spatial data. In this note we survey the recent developments in externalmemory algorithms with applications in GIS. First we discuss the AggarwalVitter I/Omodel and illustrate why normal internalmemory algorithms for even very simple problems can perform terribly in an I/Oenvironment. Then we describe the fundamental paradigms for designing I/Oefficient algorithms by using them to design efficient sorting algorithms. We then go on and survey externalmemory algorithms for computational geometry problems  with special emphasis on problems with applications in GIS  and techniques for designing such algorithms: Using the orthogonal line segment intersection problem we illustrate the distributionsweeping and ...
Experiments on the Practical I/O Efficiency of Geometric Algorithms: Distribution Sweep vs. Plane Sweep
, 1995
"... We present an extensive experimental study comparing the performance of four algorithms for the following orthogonal segment intersection problem: given a set of horizontal and vertical line segments in the plane, report all intersecting horizontalvertical pairs. The problem has important applicati ..."
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Cited by 26 (8 self)
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We present an extensive experimental study comparing the performance of four algorithms for the following orthogonal segment intersection problem: given a set of horizontal and vertical line segments in the plane, report all intersecting horizontalvertical pairs. The problem has important applications in VLSI layout and graphics, which are largescale in nature. The algorithms under evaluation are distribution sweep and three variations of plane sweep. Distribution sweep is specifically designed for the situations in which the problem is too large to be solved in internal memory, and theoretically has optimal I/O cost. Plane sweep is a wellknown and powerful technique in computational geometry, and is optimal for this particular problem in terms of internal computation. The three variations of plane sweep differ by the sorting methods (external vs. internal sorting) used in the preprocessing phase and the dynamic data structures (B tree vs. 234 tree) used in the sweeping ...