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Computations in Algebraic Geometry with Macaulay 2
Computations in algebraic geometry with Macaulay 2 Editors: D. Eisenbud, D. Grayson, M. Stillman, and B. Sturmfels Preface Systems of polynomial equations arise throughout mathematics, science, and engineering. Algebraic geometry provides powerful theoretical techniques for studying the qualitative and quantitative features of their solution sets. Re- cently developed algorithms have made theoretical aspects of the subject accessible to a broad range of mathematicians and scientists. The algorith- mic approach to the subject has two principal aims: developing new tools for research within mathematics, and providing new tools for modeling and solv- ing problems that arise in the sciences and engineering. A healthy synergy emerges, as new theorems yield new algorithms and emerging applications lead to new theoretical questions. This book presents algorithmic tools for algebraic geometry and experi- mental applications of them. It also introduces a software system in which the tools have been implemented and with which the experiments can be carried out. Macaulay 2 is a computer algebra system devoted to supporting research in algebraic geometry, commutative algebra, and their applications. The reader of this book will encounter Macaulay 2 in the context of concrete applications and practical computations in algebraic geometry. The expositions of the algorithmic tools presented here are designed to serve as a useful guide for those wishing to bring such tools to bear on their own problems. A wide range of mathematical scientists should find these expositions valuable. This includes both the users of other programs similar to Macaulay 2 (for example, Singular and CoCoA) and those who are not interested in explicit machine computations at all. -
ESS — Emacs Speaks Statistics
ESS — Emacs Speaks Statistics ESS version 5.14 The ESS Developers (A.J. Rossini, R.M. Heiberger, K. Hornik, M. Maechler, R.A. Sparapani, S.J. Eglen, S.P. Luque and H. Redestig) Current Documentation by The ESS Developers Copyright c 2002–2010 The ESS Developers Copyright c 1996–2001 A.J. Rossini Original Documentation by David M. Smith Copyright c 1992–1995 David M. Smith Permission is granted to make and distribute verbatim copies of this manual provided the copyright notice and this permission notice are preserved on all copies. Permission is granted to copy and distribute modified versions of this manual under the conditions for verbatim copying, provided that the entire resulting derived work is distributed under the terms of a permission notice identical to this one. Chapter 1: Introduction to ESS 1 1 Introduction to ESS The S family (S, Splus and R) and SAS statistical analysis packages provide sophisticated statistical and graphical routines for manipulating data. Emacs Speaks Statistics (ESS) is based on the merger of two pre-cursors, S-mode and SAS-mode, which provided support for the S family and SAS respectively. Later on, Stata-mode was also incorporated. ESS provides a common, generic, and useful interface, through emacs, to many statistical packages. It currently supports the S family, SAS, BUGS/JAGS, Stata and XLisp-Stat with the level of support roughly in that order. A bit of notation before we begin. emacs refers to both GNU Emacs by the Free Software Foundation, as well as XEmacs by the XEmacs Project. The emacs major mode ESS[language], where language can take values such as S, SAS, or XLS. -
GOOL: a Generic Object-Oriented Language (Extended Version)
GOOL: A Generic Object-Oriented Language (extended version) Jacques Carette Brooks MacLachlan W. Spencer Smith Department of Computing and Department of Computing and Department of Computing and Software Software Software McMaster University McMaster University McMaster University Hamilton, Ontario, Canada Hamilton, Ontario, Canada Hamilton, Ontario, Canada [email protected] [email protected] [email protected] Abstract it to the others. Of course, this can be made to work — one We present GOOL, a Generic Object-Oriented Language. It could engineer a multi-language compiler (such as gcc) to demonstrates that a language, with the right abstractions, de-compile its Intermediate Representation (IR) into most can capture the essence of object-oriented programs. We of its input languages. The end-results would however be show how GOOL programs can be used to generate human- wildly unidiomatic; roughly the equivalent of a novice in a readable, documented and idiomatic source code in multi- new (spoken) language “translating” word-by-word. ple languages. Moreover, in GOOL, it is possible to express What if, instead, there was a single meta-language de- common programming idioms and patterns, from simple signed to embody the common semantic concepts of a num- library-level functions, to simple tasks (command-line argu- ber of OO languages, encoded so that the necessary informa- ments, list processing, printing), to more complex patterns, tion for translation is present? This source language could such as methods with a mixture of input, output and in-out be agnostic about what eventual target language will be used parameters, and finally Design Patterns (such as Observer, – and free of the idiosyncratic details of any given language. -
REDUCE User's Manual
REDUCE User’s Manual Version 3.8 Anthony C. Hearn Santa Monica, CA, USA Email: [email protected] February 2004 Copyright c 2004 Anthony C. Hearn. All rights reserved. Registered system holders may reproduce all or any part of this publication for internal purposes, provided that the source of the material is clearly acknowledged, and the copyright notice is retained. Contents Abstract 11 1 Introductory Information 15 2 Structure of Programs 19 2.1 The REDUCE Standard Character Set............... 19 2.2 Numbers............................... 19 2.3 Identifiers.............................. 21 2.4 Variables.............................. 22 2.5 Strings................................ 23 2.6 Comments.............................. 23 2.7 Operators.............................. 24 3 Expressions 27 3.1 Scalar Expressions......................... 27 3.2 Integer Expressions......................... 28 3.3 Boolean Expressions........................ 29 3.4 Equations.............................. 30 3.5 Proper Statements as Expressions................. 31 4 Lists 33 4.1 Operations on Lists......................... 33 4.1.1 LIST............................ 34 4.1.2 FIRST............................ 34 1 2 CONTENTS 4.1.3 SECOND.......................... 34 4.1.4 THIRD........................... 34 4.1.5 REST............................ 34 4.1.6 : (Cons) Operator...................... 34 4.1.7 APPEND.......................... 34 4.1.8 REVERSE......................... 35 4.1.9 List Arguments of Other Operators............ 35 4.1.10 Caveats and Examples................... 35 5 Statements 37 5.1 Assignment Statements....................... 38 5.1.1 Set Statement........................ 38 5.2 Group Statements.......................... 39 5.3 Conditional Statements....................... 39 5.4 FOR Statements........................... 40 5.5 WHILE . DO........................... 42 5.6 REPEAT . UNTIL......................... 43 5.7 Compound Statements....................... 43 5.7.1 Compound Statements with GO TO............ 45 5.7.2 Labels and GO TO Statements.............. -
Sif: Tutorial and Reference Manual
Sif Mjølner BETA Source Browser and Editor Tutorial and Reference Manual Mjølner Informatics Report MIA 90-11(2.1) August 1996 Copyright © 1990-96 Mjølner Informatics ApS. All rights reserved. No part of this document may be copied or distributed without prior written permission from Mjølner Informatics Contents 1. Introduction .........................................................................................................1 2. Basic User Interface Principles ...........................................................................5 2.1. The Mouse...............................................................................................5 2.2. Selection..................................................................................................5 3. Source Browser Tutorial .....................................................................................7 3.1. How to Get Started..................................................................................7 3.2. Browsing .................................................................................................8 3.3. Browsing ...............................................................................................10 3.4. Browsing at Code Level........................................................................11 3.4.1. Abstract Presentation.................................................................11 3.4.2. Semantic Links ..........................................................................12 3.4.3. Comments..................................................................................13 -
Introduction
1 Introduction A compiler translates source code to assembler or object code for a target machine. A retargetable compiler has multiple targets. Machine-specific compiler parts are isolated in modules that are easily replaced to target different machines. This book describes lcc, a retargetable compiler for ANSI C; it fo- cuses on the implementation. Most compiler texts survey compiling al- gorithms, which leaves room for only a toy compiler. This book leaves the survey to others. It tours most of a practical compiler for full ANSI C, including code generators for three target machines. It gives only enough compiling theory to explain the methods that it uses. 1.1 Literate Programs This book not only describes the implementation of lcc,itis the imple- mentation. The noweb system for “literate programming” generates both the book and the code for lcc from a single source. This source con- sists of interleaved prose and labelled code fragments. The fragments are written in the order that best suits describing the program, namely the order you see in this book, not the order dictated by the C program- ming language. The program noweave accepts the source and produces the book’s typescript, which includes most of the code and all of the text. The program notangle extracts all of the code, in the proper order for compilation. Fragments contain source code and references to other fragments. Fragment definitions are preceded by their labels in angle brackets. For example, the code ≡ a fragment label 1 ĭ2 sum=0; for (i = 0; i < 10; i++) increment sum 1 increment sum 1≡ 1 sum += x[i]; sums the elements of x. -
Literate Programming in Java Section 1 Is Always a Starred Section
304 TUGboat, Volume 23 (2002), No. 3/4 called limbo; in this case, the introduction.) Most Software & Tools sections consist of a short text part followed by a short code part. Some sections (such as this one) contain only text, some others contain only code. Rambutan: Literate programming in Java Section 1 is always a starred section. That just means it has a title: ‘Computing primes’ in this Prasenjit Saha case. The title is supposed to describe a large group Introduction. Rambutan is a literate program- of consecutive sections, and gets printed at the start and on the page headline. Long programs have ming system for Java with TEX, closely resembling CWEB and the original WEB system.* I developed it many starred sections, which behave like chapter using Norman Ramsey’s Spidery WEB. headings. This article is also the manual, as well as an The source for this section begins example of a Rambutan literate program; that @* Computing primes. This is... is to say, the file Manual.w consists of code and In the source, @* begins a starred section, and any documentation written together in the Rambutan text up to the first period makes up the title. idiom. From this common source, the Rambutan system does two things: 2. This is an ordinary (i.e., unstarred) section, javatangle Manual and its source begins extracts a compilable Java applet to compute the @ This is an ordinary... first N primes, and In the source, @ followed by space or tab or newline javaweave Manual begins an ordinary section. In the next section things get more interesting. -
Literate Programming and Reproducible Research
JSS Journal of Statistical Software January 2012, Volume 46, Issue 3. http://www.jstatsoft.org/ A Multi-Language Computing Environment for Literate Programming and Reproducible Research Eric Schulte Dan Davison University of New Mexico Counsyl Thomas Dye Carsten Dominik University of Hawai`i University of Amsterdam Abstract We present a new computing environment for authoring mixed natural and com- puter language documents. In this environment a single hierarchically-organized plain text source file may contain a variety of elements such as code in arbitrary program- ming languages, raw data, links to external resources, project management data, working notes, and text for publication. Code fragments may be executed in situ with graphical, numerical and textual output captured or linked in the file. Export to LATEX, HTML, LATEX beamer, DocBook and other formats permits working reports, presentations and manuscripts for publication to be generated from the file. In addition, functioning pure code files can be automatically extracted from the file. This environment is implemented as an extension to the Emacs text editor and provides a rich set of features for authoring both prose and code, as well as sophisticated project management capabilities. Keywords: literate programming, reproducible research, compendium, WEB, Emacs. 1. Introduction There are a variety of settings in which it is desirable to mix prose, code, data, and compu- tational results in a single document. Scientific research increasingly involves the use of computational tools. -
Name Synopsis Description Format of Noweb Files
NOWEB(1) NOWEB(1) NAME notangle, noweave,nountangle − noweb, a literate-programming tool SYNOPSIS notangle [−Rrootname ...] [−filter command] [−L[format]] [file] ... nountangle [−ml|−m3|−c|−c++|−awk|−tex|−f77|−f90|−lisp|−matlab][−Rrootname ...] [−filter command] [−wwidth] [file] ... noweave [options] [file] ... DESCRIPTION Noweb is a literate-programming tool likeKnuth’s WEB, only simpler.Anoweb file contains program source code interleavedwith documentation. When notangle is givenanoweb file, it writes the program on standard output. When noweave is givenanoweb file, it reads the noweb source and produces, on standard output, LaTeX, TeX, troff,or HTML source for typeset documentation. nountangle converts a literate pro- gram into an ordinary program by turning interleaveddocumentation into comments. The file name ‘−’ refers to standard input. FORMATOFNOWEB FILES A noweb file is a sequence of chunks,which may appear in anyorder.Achunk may contain code or docu- mentation. Documentation chunks begin with a line that starts with an at sign (@) followed by a space or newline. Theyhav e no names. Code chunks begin with <<chunk name>>= on a line by itself. The double left angle bracket (<<) must be in the first column. Chunks are terminated by the beginning of another chunk, or by end of file. If the first line in the file does not mark the beginning of a chunk, it is assumed to be the first line of a documentation chunk. Documentation chunks contain text that is ignored by notangle and copied verbatim to standard output by noweave (except for quoted code). noweave can work with LaTeX,plain TeX, troff or HTML.With plain TeX,itinserts a reference to a TeX macro package, nwmac,which defines commands like \chapter and \section. -
Deriving Pretty-Printing for Haskell
Deriving Pretty-printing for Haskell Yi Zhen Master of Science School of Informatics University of Edinburgh 2016 Abstract Print information of data type values can be used to help programmers understand the nature and the way the structure of instances of a certain data type is generated. This work aims to provide an interface wrapper which includes a pre-designed indentation format for printing arbitrary data types, called a pretty printer. It can be seen as an extension of the Show library which converts the value of the data type to a printable string in Haskell. This report describes the design, implementation and evaluation of such a pretty-printing library. The overall result is a pretty printer intended to be available, easy-to-use, and interesting for programmers to print the data type value in a visually appealing way. i Acknowledgements Many thanks to my supervisor Prof. Philip Wadler for the guidance and numerous explanations; and to my parents, for food and a place to live. ii Declaration I declare that this thesis was composed by myself, that the work contained herein is my own except where explicitly stated otherwise in the text, and that this work has not been submitted for any other degree or professional qualification except as specified. (Yi Zhen) iii Table of Contents 1 Introduction 1 1.1 Introduction and Purpose . .1 1.2 How to Use Pretty-printing in Haskell . .2 1.3 Related Work . .5 2 Background 7 2.1 Haskell . .8 2.1.1 Introduction . .8 2.1.2 Data Type in Haskell . -
Reproducible Research Tools for R
Reproducible Research Tools for R January 2017 Boriana Pratt Princeton University 1 Literate programming Literate programming (1984) “ I believe that the time is right for significantly better documentation of programs, and that we can best achieve this by considering programs to be works of literature. Hence, my title: ‘Literate Programming’. “ Donald E. Knuth. Literate Programming. The Computer Journal, 27(2):97-111, May1984. http://comjnl.oxfordjournals.org/content/27/2/97.full.pdf+html WEB “… is a combination of two other languages: (1) a document formatting language and (2) a programming language.” 2 terms • Tangle extract the code parts (code chunks), then run them sequentially • Weave extract the text part (documentation chunks) and weave back in the code and code output 3 Noweb Norman Ramsey (1989) – Noweb – simple literate programming tool… https://www.cs.tufts.edu/~nr/noweb/ “Literate programming is the art of preparing programs for human readers. “ Noweb syntax includes two parts: Code chunk: <<chink name>>= - section that starts with <<name>>= Documentation chunk: @ - line that starts with @ followed by a space; default for the first chunk 4 Tools for R 5 Tools for R • Sweave https://stat.ethz.ch/R-manual/R-devel/library/utils/doc/Sweave.pdf What is Sweave? A tool that allows to embed the R code in LaTeX documents. The purpose is to create dynamic reports, which can be updated automatically if data or analysis change. How do I cite Sweave? To cite Sweave please use the paper describing the first version: Friedrich Leisch. Sweave: Dynamic generation of statistical reports using literate data analysis. -
Hyperpro an Integrated Documentation Environment For
HyperPro An integrated documentation environment for CLP∗ AbdelAli Ed-Dbali LIFO - Universit d’Orlans BP 6759 - 45067 Orlans Cedex - France [email protected], http://www.univ-orleans.fr/SCIENCES/LIFI/Membres/eddbali Pierre Deransart INRIA Rocquencourt - BP 105 - 78153 Le Chesnay - France [email protected], http://contraintes.inria.fr/deransar~ Mariza A. S. Bigonha, Jos´ede Siqueira, Roberto da S. Bigonha DCC - UFMG - Brsil {mariza,jose,bigonha}@dcc.ufmg.br Abstract The purpose of this paper is to present some functionalities of the HyperPro System. HyperPro is a hypertext tool which allows to de- velop Constraint Logic Programming (CLP) together with their doc- umentation. The text editing part is not new and is based on the free software Thot. A HyperPro program is a Thot document written in a report style. The tool is designed for CLP but it can be adapted arXiv:cs/0111046v1 [cs.PL] 19 Nov 2001 to other programming paradigms as well. Thot offers navigation and editing facilities and synchronized static document views. HyperPro has new functionalities such as document exportations, dynamic views (projections), indexes and version management. Projection is a mech- anism for extracting and exporting relevant pieces of code program or of document according to specific criteria. Indexes are useful to find the references and occurrences of a relation in a document, i.e., where ∗In A. Kusalik (ed), Proceedings of the Eleventh Workshop on Logic Programming En- vironments (WLPE’01), December 1, 2001, Paphos, Cyprus. COmputer Research Reposi- tory (http://www.acm.org/corr/), ** your cs.PL/0111046 or cs.SE/0111046**; whole pro- ceedings: cs.PL/0111042.