Persistent Predecessor Search and Orthogonal Point Location on the Word
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Search Trees
Lecture III Page 1 “Trees are the earth’s endless effort to speak to the listening heaven.” – Rabindranath Tagore, Fireflies, 1928 Alice was walking beside the White Knight in Looking Glass Land. ”You are sad.” the Knight said in an anxious tone: ”let me sing you a song to comfort you.” ”Is it very long?” Alice asked, for she had heard a good deal of poetry that day. ”It’s long.” said the Knight, ”but it’s very, very beautiful. Everybody that hears me sing it - either it brings tears to their eyes, or else -” ”Or else what?” said Alice, for the Knight had made a sudden pause. ”Or else it doesn’t, you know. The name of the song is called ’Haddocks’ Eyes.’” ”Oh, that’s the name of the song, is it?” Alice said, trying to feel interested. ”No, you don’t understand,” the Knight said, looking a little vexed. ”That’s what the name is called. The name really is ’The Aged, Aged Man.’” ”Then I ought to have said ’That’s what the song is called’?” Alice corrected herself. ”No you oughtn’t: that’s another thing. The song is called ’Ways and Means’ but that’s only what it’s called, you know!” ”Well, what is the song then?” said Alice, who was by this time completely bewildered. ”I was coming to that,” the Knight said. ”The song really is ’A-sitting On a Gate’: and the tune’s my own invention.” So saying, he stopped his horse and let the reins fall on its neck: then slowly beating time with one hand, and with a faint smile lighting up his gentle, foolish face, he began.. -
Lock-Free Search Data Structures: Throughput Modeling with Poisson Processes
Lock-Free Search Data Structures: Throughput Modeling with Poisson Processes Aras Atalar Chalmers University of Technology, S-41296 Göteborg, Sweden [email protected] Paul Renaud-Goud Informatics Research Institute of Toulouse, F-31062 Toulouse, France [email protected] Philippas Tsigas Chalmers University of Technology, S-41296 Göteborg, Sweden [email protected] Abstract This paper considers the modeling and the analysis of the performance of lock-free concurrent search data structures. Our analysis considers such lock-free data structures that are utilized through a sequence of operations which are generated with a memoryless and stationary access pattern. Our main contribution is a new way of analyzing lock-free concurrent search data structures: our execution model matches with the behavior that we observe in practice and achieves good throughput predictions. Search data structures are formed of basic blocks, usually referred to as nodes, which can be accessed by two kinds of events, characterized by their latencies; (i) CAS events originated as a result of modifications of the search data structure (ii) Read events that occur during traversals. An operation triggers a set of events, and the running time of an operation is computed as the sum of the latencies of these events. We identify the factors that impact the latency of such events on a multi-core shared memory system. The main challenge (though not the only one) is that the latency of each event mainly depends on the state of the caches at the time when it is triggered, and the state of caches is changing due to events that are triggered by the operations of any thread in the system. -
X-Fast and Y-Fast Tries
x-Fast and y-Fast Tries Outline for Today ● Bitwise Tries ● A simple ordered dictionary for integers. ● x-Fast Tries ● Tries + Hashing ● y-Fast Tries ● Tries + Hashing + Subdivision + Balanced Trees + Amortization Recap from Last Time Ordered Dictionaries ● An ordered dictionary is a data structure that maintains a set S of elements drawn from an ordered universe � and supports these operations: ● insert(x), which adds x to S. ● is-empty(), which returns whether S = Ø. ● lookup(x), which returns whether x ∈ S. ● delete(x), which removes x from S. ● max() / min(), which returns the maximum or minimum element of S. ● successor(x), which returns the smallest element of S greater than x, and ● predecessor(x), which returns the largest element of S smaller than x. Integer Ordered Dictionaries ● Suppose that � = [U] = {0, 1, …, U – 1}. ● A van Emde Boas tree is an ordered dictionary for [U] where ● min, max, and is-empty run in time O(1). ● All other operations run in time O(log log U). ● Space usage is Θ(U) if implemented deterministically, and O(n) if implemented using hash tables. ● Question: Is there a simpler data structure meeting these bounds? The Machine Model ● We assume a transdichotomous machine model: ● Memory is composed of words of w bits each. ● Basic arithmetic and bitwise operations on words take time O(1) each. ● w = Ω(log n). A Start: Bitwise Tries Tries Revisited ● Recall: A trie is a simple data 0 1 structure for storing strings. 0 1 0 1 ● Integers can be thought of as strings of bits. 1 0 1 1 0 ● Idea: Store integers in a bitwise trie. -
Indexing Tree-Based Indexing
Indexing Chapter 8, 10, 11 Database Management Systems 3ed, R. Ramakrishnan and J. Gehrke 1 Tree-Based Indexing The data entries are arranged in sorted order by search key value. A hierarchical search data structure (tree) is maintained that directs searches to the correct page of data entries. Tree-structured indexing techniques support both range searches and equality searches. Database Management Systems 3ed, R. Ramakrishnan and J. Gehrke 2 Trees Tree A structure with a unique starting node (the root), in which each node is capable of having child nodes and a unique path exists from the root to every other node Root The top node of a tree structure; a node with no parent Leaf Node A tree node that has no children Database Management Systems 3ed, R. Ramakrishnan and J. Gehrke 3 Trees Level Distance of a node from the root Height The maximum level Database Management Systems 3ed, R. Ramakrishnan and J. Gehrke 4 Time Complexity of Tree Operations Time complexity of Searching: . O(height of the tree) Time complexity of Inserting: . O(height of the tree) Time complexity of Deleting: . O(height of the tree) Database Management Systems 3ed, R. Ramakrishnan and J. Gehrke 5 Multi-way Tree If we relax the restriction that each node can have only one key, we can reduce the height of the tree. A multi-way search tree is a tree in which the nodes hold between 1 to m-1 distinct keys Database Management Systems 3ed, R. Ramakrishnan and J. Gehrke 6 Range Searches ``Find all students with gpa > 3.0’’ . -
Lecture III BALANCED SEARCH TREES
§1. Keyed Search Structures Lecture III Page 1 Lecture III BALANCED SEARCH TREES Anthropologists inform that there is an unusually large number of Eskimo words for snow. The Computer Science equivalent of snow is the tree word: we have (a,b)-tree, AVL tree, B-tree, binary search tree, BSP tree, conjugation tree, dynamic weighted tree, finger tree, half-balanced tree, heaps, interval tree, kd-tree, quadtree, octtree, optimal binary search tree, priority search tree, R-trees, randomized search tree, range tree, red-black tree, segment tree, splay tree, suffix tree, treaps, tries, weight-balanced tree, etc. The above list is restricted to trees used as search data structures. If we include trees arising in specific applications (e.g., Huffman tree, DFS/BFS tree, Eskimo:snow::CS:tree alpha-beta tree), we obtain an even more diverse list. The list can be enlarged to include variants + of these trees: thus there are subspecies of B-trees called B - and B∗-trees, etc. The simplest search tree is the binary search tree. It is usually the first non-trivial data structure that students encounter, after linear structures such as arrays, lists, stacks and queues. Trees are useful for implementing a variety of abstract data types. We shall see that all the common operations for search structures are easily implemented using binary search trees. Algorithms on binary search trees have a worst-case behaviour that is proportional to the height of the tree. The height of a binary tree on n nodes is at least lg n . We say that a family of binary trees is balanced if every tree in the family on n nodes has⌊ height⌋ O(log n). -
Finger Search Trees
11 Finger Search Trees 11.1 Finger Searching....................................... 11-1 11.2 Dynamic Finger Search Trees ....................... 11-2 11.3 Level Linked (2,4)-Trees .............................. 11-3 11.4 Randomized Finger Search Trees ................... 11-4 Treaps • Skip Lists 11.5 Applications............................................ 11-6 Optimal Merging and Set Operations • Arbitrary Gerth Stølting Brodal Merging Order • List Splitting • Adaptive Merging and University of Aarhus Sorting 11.1 Finger Searching One of the most studied problems in computer science is the problem of maintaining a sorted sequence of elements to facilitate efficient searches. The prominent solution to the problem is to organize the sorted sequence as a balanced search tree, enabling insertions, deletions and searches in logarithmic time. Many different search trees have been developed and studied intensively in the literature. A discussion of balanced binary search trees can e.g. be found in [4]. This chapter is devoted to finger search trees which are search trees supporting fingers, i.e. pointers, to elements in the search trees and supporting efficient updates and searches in the vicinity of the fingers. If the sorted sequence is a static set of n elements then a simple and space efficient representation is a sorted array. Searches can be performed by binary search using 1+⌊log n⌋ comparisons (we throughout this chapter let log x denote log2 max{2, x}). A finger search starting at a particular element of the array can be performed by an exponential search by inspecting elements at distance 2i − 1 from the finger for increasing i followed by a binary search in a range of 2⌊log d⌋ − 1 elements, where d is the rank difference in the sequence between the finger and the search element. -
Lecture 1 — 24 January 2017 1 Overview 2 Administrivia 3 The
CS 224: Advanced Algorithms Spring 2017 Lecture 1 | 24 January 2017 Prof. Jelani Nelson Scribe: Jerry Ma 1 Overview We introduce the word RAM model of computation, which features fixed-size storage blocks (\words") similar to modern integer data types. We also introduce the predecessor problem and demonstrate solutions to the problem that are faster than optimal comparison-based methods. 2 Administrivia • Personnel: Jelani Nelson (instructor) and Tom Morgan (TF) • Course site: people.seas.harvard.edu/~cs224 • Course staff email: [email protected] • Prerequisites: CS 124/125 and probability. • Coursework: lecture scribing, problem sets, and a final project. Students will also assist in grading problem sets. No coding. • Topics will include those from CS 124/125 at a deeper level of exposition, as well as entirely new topics. 3 The Predecessor Problem In the predecessor, we wish to maintain a ordered set S = fX1;X2; :::; Xng subject to the prede- cessor query: pred(z) = maxfx 2 Sjx < zg Usually, we do this by representing S in a data structure. In the static predecessor problem, S does not change between pred queries. In the dynamic predecessor problem, S may change through the operations: insert(z): S S [ fzg del(z): S S n fzg For the static predecessor problem, a good solution is to store S as a sorted array. pred can then be implemented via binary search. This requires Θ(n) space, Θ(log n) runtime for pred, and Θ(n log n) preprocessing time. 1 For the dynamic predecessor problem, we can maintain S in a balanced binary search tree, or BBST (e.g. -
Lock-Free Concurrent Van Emde Boas Array
Lock-free concurrent van Emde Boas Array Ziyuan Guo Reiji Suda (Adviser) [email protected] [email protected] The University of Tokyo Graduate School of Information Science and Technology Tokyo, Japan ABSTRACT To unleash the power of modern multi-core processors, concur- Lock-based data structures have some potential issues such as dead- rent data structures are needed in many cases. Comparing to lock- lock, livelock, and priority inversion, and the progress can be de- based data structures, lock-free data structures can avoid some po- layed indefinitely if the thread that is holding locks cannot acquire tential issues such as deadlock, livelock, and priority inversion, and a timeslice from the scheduler. Lock-free data structures, which guarantees the progress [5]. guarantees the progress of some method call, can be used to avoid these problems. This poster introduces the first lock-free concur- 2 OBJECTIVES rent van Emde Boas Array which is a variant of van Emde Boas • Create a lock-free search tree based on van Emde Boas Tree. Tree. It’s linearizable and the benchmark shows significant per- • Get better performance and scalability. formance improvement comparing to other lock-free search trees • Linearizability, i.e., each method call should appear to take when the date set is large and dense enough. effect at some instant between its invocation and response [5]. CCS CONCEPTS • Computing methodologies → Concurrent algorithms. 3 RELATED WORK The base of our data structure is van Emde Boas Tree, whichis KEYWORDS named after P. van Emde Boas, the inventor of this data structure [7]. -
Introduction to Algorithms, 3Rd
Thomas H. Cormen Charles E. Leiserson Ronald L. Rivest Clifford Stein Introduction to Algorithms Third Edition The MIT Press Cambridge, Massachusetts London, England c 2009 Massachusetts Institute of Technology All rights reserved. No part of this book may be reproduced in any form or by any electronic or mechanical means (including photocopying, recording, or information storage and retrieval) without permission in writing from the publisher. For information about special quantity discounts, please email special [email protected]. This book was set in Times Roman and Mathtime Pro 2 by the authors. Printed and bound in the United States of America. Library of Congress Cataloging-in-Publication Data Introduction to algorithms / Thomas H. Cormen ...[etal.].—3rded. p. cm. Includes bibliographical references and index. ISBN 978-0-262-03384-8 (hardcover : alk. paper)—ISBN 978-0-262-53305-8 (pbk. : alk. paper) 1. Computer programming. 2. Computer algorithms. I. Cormen, Thomas H. QA76.6.I5858 2009 005.1—dc22 2009008593 10987654321 Index This index uses the following conventions. Numbers are alphabetized as if spelled out; for example, “2-3-4 tree” is indexed as if it were “two-three-four tree.” When an entry refers to a place other than the main text, the page number is followed by a tag: ex. for exercise, pr. for problem, fig. for figure, and n. for footnote. A tagged page number often indicates the first page of an exercise or problem, which is not necessarily the page on which the reference actually appears. ˛.n/, 574 (set difference), 1159 (golden ratio), 59, 108 pr. jj y (conjugate of the golden ratio), 59 (flow value), 710 .n/ (Euler’s phi function), 943 (length of a string), 986 .n/-approximation algorithm, 1106, 1123 (set cardinality), 1161 o-notation, 50–51, 64 O-notation, 45 fig., 47–48, 64 (Cartesian product), 1162 O0-notation, 62 pr. -
On Data Structures and Memory Models
2006:24 DOCTORAL T H E SI S On Data Structures and Memory Models Johan Karlsson Luleå University of Technology Department of Computer Science and Electrical Engineering 2006:24|: 402-544|: - -- 06 ⁄24 -- On Data Structures and Memory Models by Johan Karlsson Department of Computer Science and Electrical Engineering Lule˚a University of Technology SE-971 87 Lule˚a, Sweden May 2006 Supervisor Andrej Brodnik, Ph.D., Lule˚a University of Technology, Sweden Abstract In this thesis we study the limitations of data structures and how they can be overcome through careful consideration of the used memory models. The word RAM model represents the memory as a finite set of registers consisting of a constant number of unique bits. From a hardware point of view it is not necessary to arrange the memory as in the word RAM memory model. However, it is the arrangement used in computer hardware today. Registers may in fact share bits, or overlap their bytes, as in the RAM with Byte Overlap (RAMBO) model. This actually means that a physical bit can appear in several registers or even in several positions within one regis- ter. The RAMBO model of computation gives us a huge variety of memory topologies/models depending on the appearance sets of the bits. We show that it is feasible to implement, in hardware, other memory models than the word RAM memory model. We do this by implementing a RAMBO variant on a memory board for the PC100 memory bus. When alternative memory models are allowed, it is possible to solve a number of problems more efficiently than under the word RAM memory model. -
Lock-Free Van Emde Boas Array Lock-Free Van Emde Boas
Lock-free van Emde Boas Array Ziyuan Guo, Reiji Suda (Adviser) Graduate School of Information Science and Technology, The University of Tokyo Introduction Structure Insert Insert operation will put a descriptor on the first node Results that it should modify to effectively lock the entire path of This poster introduces the first lock-free concurrent van Emde The original plan was to implement a van Emde Boas Tree by the modification. Then help itself to finish the work by We compared the thoughput of our implementation with the Boas Array which is a variant of van Emde Boas Tree (vEB effectively using the cooperate technique as locks. However, execute CAS operations stored in the descriptor. lock-free binary search tree and skip-lists implemented by K. 1 bool insert(x) { tree). It's linearizable and the benchmark shows significant a vEB tree stores maximum and minimum elements on the 2 if (not leaf) { Fraser. performance improvement comparing to other lock-free search root node of each sub-tree, which create a severe scalability 3 do { Benchmark Environment 4 start_over: trees when the date set is large and dense enough. bottleneck. Thus, we choose to not store the maximum and 5 summary_snap = summary; • Intel Xeon E7-8890 v4 @ 2.2GHz Although van Emde Boas tree is not considered to be practical minimum element on each node, and use a fixed degree (64 6 if (summary_snap & (1 << HIGH(x))) 7 if (cluster[HIGH(x)].insert(LOW(x))) • 32GB DDR4 2133MHz before, it still can outperform traditional search trees in many on modern 64bit CPUs) for every node, then use a bit vec- 8 return true; 9 else • qemu-kvm 0.12.1.2-2.506.el6 10.1 situations, and there is no lock-free concurrent implementation tor summary to store whether the corresponding sub-tree is 10 goto start_over; 11 if (needs_help(summary_snap)) { • Kernel 5.1.15-300.fc30.x86 64 yet. -
Memory Optimization
Memory Optimization Some slides from Christer Ericson Sony Computer Entertainment, Santa Monica Overview ► We have seen how to reorganize matrix computations to improve temporal and spatial locality § Improving spatial locality required knowing the layout of the matrix in memory ► Orthogonal approach § Change the representation of the data structure in memory to improve locality for a given pattern of data accesses from the computation § Less theory exists for this but some nice results are available for trees: van Emde Boas tree layout ► Similar ideas can be used for graph algorithms as well § However there is usually not as much locality in graph algorithms Data cache optimization ► Compressing data ► Prefetching data into cache ► Cache-conscious data structure layout § Tree data structures ► Linearization caching Prefetching ► Software prefetching § Not too early – data may be evicted before use § Not too late – data not fetched in time for use § Greedy ► Instructions § iA-64: lfetch (line prefetch) ► Options: § Intend to write: begins invalidations in other caches § Which level of cache to prefetch into § Compilers and programmers can access through intrinsics Software prefetching // Loop through and process all 4n elements for (int i = 0; i < 4 * n; i++) Process(elem[i]); const int kLookAhead = 4; // Some elements ahead for (int i = 0; i < 4 * n; i += 4) { Prefetch(elem[i + kLookAhead]); Process(elem[i + 0]); Process(elem[i + 1]); Process(elem[i + 2]); Process(elem[i + 3]); } Greedy prefetching void PreorderTraversal(Node *pNode)