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Porting and optimising star: a case study of suffering and surfacing

Authors:

F. H. D. van Batenburg,

V. Bos,

J. J. M. Riethoven,

J. P. Abrahams,

C. PleyAuthors Info & Claims

ACM SIGAPL APL Quote Quad, Volume 23, Issue 1

Pages 265 - 274

https://doi.org/10.1145/144052.144166

Published: 15 July 1992 Publication History

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Abstract

This paper has three main parts. The first part is a description of our project STAR. It explains what our program does and what makes it special compared to other similar programs.

The second part pertains to the porting of our program to other platforms. It enumerates the errors of our ways, how we struggled to overcome them and what we learned in the process.

The last part narrates our strategy to optimise the program. We will explain why we deviated from the general accepted strategy to optimise those parts with the highest potential gain.

References

[1]

Abrahams, J.P., Berg, M.v.d., Batenburg, E.v. & Pleij, C. Prediction of RNA secondary structure, including pseudoknotting, by computer simulation. Nucleic Acids Research 18(10)3035-3044 (1990).

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Batenburg, F.H.D.v. L1.2.3 considered harmful. QQ.21(4)330-337 (1991).

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Jackson, M. Principles on program design. New York, Academic press (1975).

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Kerf, J.L.F. de Second generation APL and ISO APL Extended (APL 9x). APL-CAM J.13(1)189-270 (1991).

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Mavor, J.W. & Manner, H.W. General biology p.565; New York, MacMillan Company (1966).

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Zuker, M. & Stiegler, P. Optimal computer folding of large RNA sequences using thermodynamics and auxiliary information. Nucleic Acid Research 9(1) 133-148 (1981).

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Porting and optimising star: a case study of suffering and surfacing

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Porting and optimising star: a case study of suffering and surfacing
APL '92: Proceedings of the international conference on APL

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Information

Published In

ACM SIGAPL APL Quote Quad Volume 23, Issue 1

July 1992

309 pages

ISSN:0163-6006

DOI:10.1145/144052

Editor:
Lynne C. Shaw

Issue’s Table of Contents

APL '92: Proceedings of the international conference on APL
July 1992
326 pages
ISBN:0897914775
DOI:10.1145/144045
Editor:
Lynne C. Shaw

Publisher

Association for Computing Machinery

New York, NY, United States

Publication History

Published: 15 July 1992

Published in SIGAPL Volume 23, Issue 1

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Abstract

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