Distributed BLAST in a grid computing context

被引：0
|
作者：
Bayer, MM [1 ]
Sinnott, R [1 ]
机构：
[1] Univ Glasgow, Natl eSci Ctr, Glasgow G12 8QQ, Lanark, Scotland
来源：
COMPUTATIONAL LIFE SCIENCES, PROCEEDINGS | 2005年 / 3695卷
关键词：
D O I：
暂无
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
The Basic Local Alignment Search Tool (BLAST) is one of the best known sequence comparison programs available in bioinformatics. It is used to compare query sequences to a set of target sequences, with the intention of finding similar sequences in the target set. Here, we present a distributed BLAST service which operates over a set of heterogeneous Grid resources and is made available through a Globus toolkit v.3 Grid service. This work has been carried out in the context of the BRIDGES project, a UK e-Science project aimed at providing a Grid based environment for biomedical research. Input consisting of multiple query sequences is partitioned into sub-jobs on the basis of the number of idle compute nodes available and then processed on these in batches. To achieve this, we have implemented our own Java-based scheduler which distributes sub-jobs across an array of resources utilizing a variety of local job scheduling systems.
引用
收藏
页码：241 / 252
页数：12
相关论文
共 50 条
  • [1] Distributed computing - GRID computing
    Mauthe, A
    Heckmann, O
    PEER-TO-PEER SYSTEMS AND APPLICATIONS, 2005, 3485 : 193 - 206
  • [2] LHCb distributed computing and the GRID
    Brook, N
    Bulten, H
    Closier, J
    Galli, D
    Gaspar, C
    Harris, F
    Harrison, K
    van Herwijnen, E
    Khan, A
    Klous, S
    Kuznetsov, G
    Marconi, U
    Mato, P
    McArthur, I
    Patrick, GN
    Soroko, A
    Tsaregorodtsev, A
    Vagnoni, VM
    NUCLEAR INSTRUMENTS & METHODS IN PHYSICS RESEARCH SECTION A-ACCELERATORS SPECTROMETERS DETECTORS AND ASSOCIATED EQUIPMENT, 2003, 502 (2-3): : 334 - 338
  • [3] Distributed computing with Triana on the Grid
    Taylor, I
    Wang, I
    Shields, M
    Majithia, S
    CONCURRENCY AND COMPUTATION-PRACTICE & EXPERIENCE, 2005, 17 (09): : 1197 - 1214
  • [4] LHCb distributed computing and the grid
    Brook, N
    Bulten, H
    Closier, J
    Galli, D
    Gaspar, C
    Harris, F
    Harrison, K
    van Herwijnen, E
    Khan, A
    Klous, S
    Kuznetsov, G
    Marconi, U
    Mato, P
    McArthur, I
    Patrick, GN
    Soroko, A
    Tsaregorodtsev, A
    Vagnoni, VM
    NUCLEAR PHYSICS B-PROCEEDINGS SUPPLEMENTS, 2003, 120 : 126 - 130
  • [5] Grid computing: Distributed graphics pipelines on the grid
    Fewings, Ade J.
    John, Nigel W.
    IEEE Distributed Systems Online, 2007, 8 (01):
  • [6] UNICORE: A grid computing environment for distributed and parallel computing
    Huber, V
    PARALLEL COMPUTING TECHNOLOGIES, 2001, 2127 : 258 - 265
  • [7] Strategies for distributed parallel computing on grid computing environments
    Lin, Weiwei
    Zhang, Zhili
    Qi, Deyu
    Jisuanji Gongcheng/Computer Engineering, 2006, 32 (09): : 104 - 106
  • [8] Grid computing as applied distributed computation: A graduate seminar on Internet and grid computing
    Browne, JC
    2004 IEEE INTERNATIONAL SYMPOSIUM ON CLUSTER COMPUTING AND THE GRID - CCGRID 2004, 2004, : 239 - 245
  • [9] International Journal of Grid and Distributed Computing
    1600, Science and Engineering Research Support Society, 20 Virginia Court, Sandy Bay, Tasmania, Prof B.H.Kang's Office,, Australia (06):
  • [10] PARALLELIZATION STRATEGIES FOR DISTRIBUTED GRID COMPUTING
    Khaddaj, Souheil
    DCABES 2009: THE 8TH INTERNATIONAL SYMPOSIUM ON DISTRIBUTED COMPUTING AND APPLICATIONS TO BUSINESS, ENGINEERING AND SCIENCE, PROCEEDINGS, 2009, : 256 - 260
12345