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Learning Perl Through Examples Part 2 L1110@BUMC 2/22/2017
www.perl.org Learning Perl Through Examples Part 2 L1110@BUMC 2/22/2017 Yun Shen, Programmer Analyst [email protected] IS&T Research Computing Services Spring 2017 Tutorial Resource Before we start, please take a note - all the codes and www.perl.org supporting documents are accessible through: • http://rcs.bu.edu/examples/perl/tutorials/ Yun Shen, Programmer Analyst [email protected] IS&T Research Computing Services Spring 2017 Sign In Sheet We prepared sign-in sheet for each one to sign www.perl.org We do this for internal management and quality control So please SIGN IN if you haven’t done so Yun Shen, Programmer Analyst [email protected] IS&T Research Computing Services Spring 2017 Evaluation One last piece of information before we start: www.perl.org • DON’T FORGET TO GO TO: • http://rcs.bu.edu/survey/tutorial_evaluation.html Leave your feedback for this tutorial (both good and bad as long as it is honest are welcome. Thank you) Yun Shen, Programmer Analyst [email protected] IS&T Research Computing Services Spring 2017 Today’s Topic • Basics on creating your code www.perl.org • About Today’s Example • Learn Through Example 1 – fanconi_example_io.pl • Learn Through Example 2 – fanconi_example_str_process.pl • Learn Through Example 3 – fanconi_example_gene_anno.pl • Extra Examples (if time permit) Yun Shen, Programmer Analyst [email protected] IS&T Research Computing Services Spring 2017 www.perl.org Basics on creating your code How to combine specs, tools, modules and knowledge. Yun Shen, Programmer Analyst [email protected] IS&T Research Computing -
Chemplugin™ User's Guide
The Geochemist’s Workbench® Release 15 ChemPlugin™ User’s Guide The Geochemist’s Workbench® Release 15 ChemPlugin™ User’s Guide Craig M. Bethke Aqueous Solutions, LLC Champaign, Illinois Printed August 31, 2021 This document © Copyright 2021 by Aqueous Solutions LLC. All rights reserved. Earlier editions copyright 2000–2020. This document may be reproduced freely to support any licensed use of the GWB software package. Software copyright notice: Programs GSS, Rxn, Act2, Tact, SpecE8, Gtplot, TEdit, React, Phase2, P2plot, X1t, X2t, Xtplot, and ChemPlugin © Copyright 1983–2021 by Aqueous Solutions LLC. An unpublished work distributed via trade secrecy license. All rights reserved under the copyright laws. The Geochemist’s Workbench®, ChemPlugin, We put bugs in our software, and The Geochemist’s Spreadsheet are a registered trademark and trademarks of Aqueous Solutions LLC; Microsoft®, MS®, Windows XP®, Windows Vista®, Windows 7®, Windows 8®, and Windows 10® are registered trademarks of Microsoft Corporation; PostScript® is a registered trademark of Adobe Systems, Inc. Other products mentioned in this document are identified by the trademarks of their respective companies; the authors disclaim responsibility for specifying which marks are owned by which companies. The software uses zlib © 1995-2005 Jean-Loup Gailly and Mark Adler, and Expat © 1998-2006 Thai Open Source Center Ltd. and Clark Cooper. The GWB software was originally developed by the students, staff, and faculty of the Hydrogeology Program in the Department of Geology at the University of Illinois Urbana-Champaign. The package is currently developed and maintained by Aqueous Solutions LLC at the University of Illinois Research Park. Address inquiries to Aqueous Solutions LLC 301 North Neil Street, Suite 400 Champaign, IL 61820 USA Warranty: The Aqueous Solutions LLC warrants only that it has the right to convey license to the GWB software. -
3.0 Installation Guide
Oratio® 3.0 installation Guide Summary • Requirements • Installation o Installation of files o Configurating Apache o Permission on files • Installing and configurating PostgreSQL database • Installing Perl modules • Configurating the environment for JasperReports • Configurating Oratio® o First installation o Launch the Software Requirements Oratio® is an ERP distributed with GPL licence. Oratio® uses PostgresSQL database and works in CGI modality, therefore it is accessible through an internet browser. Therefore, before the use of Oratio® it is necessary to make sure yourself that the instruments used by Oratio® are present on the server where Oratio® will be installed. List of programs 1. Perl, version 5 or above (Perl) 2. An http server Apache 3. A database system PostgreSQL, version 7.4 or above 4. The following Perl Libraries: DBD-Pg and DBI, downloadable from CPAN website 5. The following Perl Libraries downloadable from CPAN website XML::Parser XML::Writer XML::Writer::String XML::Encoding HTML::Template Text::Template CGI::session Unicode::String 6. For ready to print documents: - Java JDK version 1.5 and above - "Inline" and "Inline-Java" modules - JasperReports and related libraries (included in Oratio® download) - Optional: iReport for creating and editing reports in graphic modality Installation File installation: • Decompress .tar.gz file in /usr/local folder of your Linux server: tar xzvf oratio-x.x.x.tar.gz • you can find all files in /usr/local/oratio/ folder or /var/www/oratio/ Windows only • Download oratio3-windows.zip -
Bull System Manager Server Add-Ons Installation and Administrator's Guide
BSM 2.1 Server Add-ons Installation and Administrator's Guide REFERENCE 86 A2 59FA 07 BSM 2.1 Server Add-ons Installation and Administrator's Guide Software June 2012 BULL CEDOC 357 AVENUE PATTON B.P.20845 49008 ANGERS CEDEX 01 FRANCE REFERENCE 86 A2 59FA 07 The following copyright notice protects this book under Copyright laws which prohibit such actions as, but not limited to, copying, distributing, modifying, and making derivative works. Copyright © Bull SAS 2008-2012 Printed in France Trademarks and Acknowledgements We acknowledge the rights of the proprietors of the trademarks mentioned in this manual. All brand names and software and hardware product names are subject to trademark and/or patent protection. Quoting of brand and product names is for information purposes only and does not represent trademark misuse. The information in this document is subject to change without notice. Bull will not be liable for errors contained herein, or for incidental or consequential damages in connection with the use of this material. Table of Contents Preface.........................................................................................................................................................ix Intended Readers.........................................................................................................................ix Highlighting Conventions .............................................................................................................ix Related Publications......................................................................................................................x -
Decide DRN Report 2
The DEcIDE (Developing Evidence to Inform Decisions about Effectiveness) network is part of AHRQ’s Effective Health Care program. It is a collaborative network of research centers that support the rapid development of new scientific information and analytic tools. The DEcIDE network assists health care providers, patients, and policymakers seeking unbiased information about the outcomes, clinical effectiveness, safety, and appropriateness of health care items and services, particularly prescription medications and medical devices. This report is based on research conducted by the DEcIDE (Developing Evidence to Inform Decisions about Effectiveness) Centers at the HMO Research Network and the University of Pennsylvania under contract to the Agency for Healthcare Research and Quality (AHRQ), Rockville, MD (Contract No. HHSA29020050033I TO5). The AHRQ Task Order Officer for this project was Scott R. Smith, Ph.D. The findings and conclusions in this document are those of the authors, who are responsible for its contents; the findings and conclusions do not necessarily represent the views of AHRQ. Therefore, no statement in this report should be construed as an official position of AHRQ or the U.S. Department of Health and Human Services. None of the authors has a financial interest in any of the products discussed in this report. Suggested citation: Brown J, Holmes J, Syat B, et al. Proof-of-principle evaluation of a distributed research network. Effective Health Care Research Report No. 26. (Prepared by the DEcIDE Centers at the HMO Research Network and the University of Pennsylvania Under Contract No. HHSA29020050033I T05.) Rockville, MD: Agency for Healthcare Research and Quality. June 2010. Available at: http://effectivehealthcare.ahrq.gov/reports/final.cfm. -
End-To-End Perl Solutions
END-TO-END PERL SOLUTIONS: ACTIVEPERL AND KOMODO IDE FOR PERL MILLIONS OF DEVELOPERS TRUST PERL FOR COMPUTATIONAL AND INTEGRATION TASKS— SYSTEM ADMINISTRATION, SCRIPTING, RUNNING DATABASE APPLICATIONS, AND MORE As an open source programming language, Perl immedi- FAIL-SAFE ACTIVEPERL FOR BUSINESS AND ately reduces up-front project costs. However, Perl alone MISSION-CRITICAL APPLICATIONS may not help you meet your business goals. With ActiveState commercial-grade technical support and consulting you don’t need to depend on overworked Like most open source projects, Perl isn’t quality assured internal resources or public Perl communities to solve or commercially supported. So, it may not be safe for development issue. business or mission-critical applications that must run effectively daily, weekly, even hourly. Don’t let Perl be a ActivePerl Enterprise Edition is designed for busi- point of failure for your internal systems and cost your nesses with large Perl deployments in essential, mission- business in lost revenue. Or worse, don’t let it compro- critical applications that, when down, could cost your mise relationships with your customers. CA, Siemens and business in lost revenue and a damaged reputation. Boeing are just a few Fortune 1000 companies that trust Deploy Perl with confidence knowing you’re using the ActiveState for end-to-end development, management most secure, enterprise-grade builds for platforms like and distribution solutions for fail-safe Perl. WORLD’S BEST PERL DISTRIBUTION “ActiveState’s trusted version of Perl has allowed us ActivePerl is the industry-standard, commercial-grade to continuously raise the bar on quality as well as Perl distribution used by millions of developers around cut the cost of expanding our product matrix.” the world for easy Perl installation and quality-assured Lawrence Backman, VP at CA code. -
Coleman-Coding-Freedom.Pdf
Coding Freedom !" Coding Freedom THE ETHICS AND AESTHETICS OF HACKING !" E. GABRIELLA COLEMAN PRINCETON UNIVERSITY PRESS PRINCETON AND OXFORD Copyright © 2013 by Princeton University Press Creative Commons Attribution- NonCommercial- NoDerivs CC BY- NC- ND Requests for permission to modify material from this work should be sent to Permissions, Princeton University Press Published by Princeton University Press, 41 William Street, Princeton, New Jersey 08540 In the United Kingdom: Princeton University Press, 6 Oxford Street, Woodstock, Oxfordshire OX20 1TW press.princeton.edu All Rights Reserved At the time of writing of this book, the references to Internet Web sites (URLs) were accurate. Neither the author nor Princeton University Press is responsible for URLs that may have expired or changed since the manuscript was prepared. Library of Congress Cataloging-in-Publication Data Coleman, E. Gabriella, 1973– Coding freedom : the ethics and aesthetics of hacking / E. Gabriella Coleman. p. cm. Includes bibliographical references and index. ISBN 978-0-691-14460-3 (hbk. : alk. paper)—ISBN 978-0-691-14461-0 (pbk. : alk. paper) 1. Computer hackers. 2. Computer programmers. 3. Computer programming—Moral and ethical aspects. 4. Computer programming—Social aspects. 5. Intellectual freedom. I. Title. HD8039.D37C65 2012 174’.90051--dc23 2012031422 British Library Cataloging- in- Publication Data is available This book has been composed in Sabon Printed on acid- free paper. ∞ Printed in the United States of America 1 3 5 7 9 10 8 6 4 2 This book is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE !" We must be free not because we claim freedom, but because we practice it. -
Teach Yourself Perl 5 in 21 Days
Teach Yourself Perl 5 in 21 days David Till Table of Contents: Introduction ● Who Should Read This Book? ● Special Features of This Book ● Programming Examples ● End-of-Day Q& A and Workshop ● Conventions Used in This Book ● What You'll Learn in 21 Days Week 1 Week at a Glance ● Where You're Going Day 1 Getting Started ● What Is Perl? ● How Do I Find Perl? ❍ Where Do I Get Perl? ❍ Other Places to Get Perl ● A Sample Perl Program ● Running a Perl Program ❍ If Something Goes Wrong ● The First Line of Your Perl Program: How Comments Work ❍ Comments ● Line 2: Statements, Tokens, and <STDIN> ❍ Statements and Tokens ❍ Tokens and White Space ❍ What the Tokens Do: Reading from Standard Input ● Line 3: Writing to Standard Output ❍ Function Invocations and Arguments ● Error Messages ● Interpretive Languages Versus Compiled Languages ● Summary ● Q&A ● Workshop ❍ Quiz ❍ Exercises Day 2 Basic Operators and Control Flow ● Storing in Scalar Variables Assignment ❍ The Definition of a Scalar Variable ❍ Scalar Variable Syntax ❍ Assigning a Value to a Scalar Variable ● Performing Arithmetic ❍ Example of Miles-to-Kilometers Conversion ❍ The chop Library Function ● Expressions ❍ Assignments and Expressions ● Other Perl Operators ● Introduction to Conditional Statements ● The if Statement ❍ The Conditional Expression ❍ The Statement Block ❍ Testing for Equality Using == ❍ Other Comparison Operators ● Two-Way Branching Using if and else ● Multi-Way Branching Using elsif ● Writing Loops Using the while Statement ● Nesting Conditional Statements ● Looping Using -
EGTDC Perl Course 2004
EGTDC Perl Course 2004 Making use of CPAN modules Perl on other platforms Tim Booth : [email protected] Environmental Genomics Thematic Programme Data Centre http://envgen.nox.ac.uk CPAN Recap • "Comprehensive Perl Archive Network". • Holds virtually every Perl module, among other things. • Access via the web (http) and by the CPAN shell. – search.cpan.org is probably your first point of call. • Most modules are standardised to make them easy to use right away: – Documentation in ©perldoc© format. – Standard installation procedure – Self-testing Environmental Genomics Thematic Programme Data Centre http://envgen.nox.ac.uk CPAN and modules • CPAN contains around 2860 modules - bits of code that can be plugged into your scripts. Some are small, some complex. • Need to interface with a database? Use the DBI/DBD modules. • Need to make webpages with Perl? Use the CGI module. • Need to make a graphical interface? Use the Tk module. • Need to do bioinformatics? Use the BioPerl modules! • To use an installed module you "use module_name;" in the same way as you "use strict;" • Modules can be installed in 2 ways – Manually, from source – From CPAN, using the CPAN shell. Environmental Genomics Thematic Programme Data Centre http://envgen.nox.ac.uk Installing modules from source • On Bio-Linux, log in as manager to install modules system-wide • Modules are distributed as .tar.gz files. • Download the module to the manager©s home directory. • if you are missing components required for the module to work you will be told at the 2nd step below. • Always check README or INSTALL files before installing. -
Combatting Spam Using Mimedefang, Spamassassin and Perl
Combating Spam Using SpamAssassin, MIMEDefang and Perl Copyright 2003 David F. Skoll Roaring Penguin Software Inc. (Booth #23) Administrivia Please turn off or silence cell phones, pagers, Blackberry devices, etc... After the tutorial, please be sure to fill out an evaluation form and return it to the USENIX folks. 2 Overview After this tutorial, you will: Understand how central mail filtering works. Know how to use MIMEDefang to filter mail. Be able to integrate SpamAssassin into your mail filter. Know how to implement mail filtering policies with MIMEDefang and Perl. Know how to fight common spammer tactics. 3 Outline Introduction to Mail Filtering Sendmail's Milter API MIMEDefang Introduction, Architecture Writing MIMEDefang Filters SpamAssassin Integration Advanced Filter Writing Fighting Common Spammer Tactics Advanced Topics Policy Suggestions 4 Assumptions I assume that you: Are familiar with Sendmail configuration. You don't need to be a sendmail.cf guru, but should know the basics. Are familiar with Perl. Again, you don't need to be able to write an AI program in a Perl one- liner, but should be able to read simple Perl scripts. Are running the latest version of Sendmail 8.12 on a modern UNIX or UNIX-like system. 5 Why Filter Mail? The old reason: to stop viruses. The new reason: to stop spam and inappropriate content. Blocking viruses is easy. Block .exe and similar files, and test against signature databases. Blocking spam is hard, but becoming increasingly important. Organizations can even face lawsuits over inappropriate content. 6 Mail filtering is required for many reasons. In addition to the reasons given on the slide, you might need to filter outgoing mail as well to prevent virus propagation, dissemination of sensitive information, etc. -
Perl Autosplit Ix Download
Perl autosplit ix download Download: The autosplit interface splits the specified file into a hierarchy rooted at the as needed to reflect class hierarchy, and creates the file Typical use of AutoSplit in the perl MakeMaker utility is via the command-line with DESCRIPTION · Multiple packages. So basically, downloading modules is the extent of my knowledge. I had to install a bunch of perl modules to get a certain program : can't locate auto/*/ in @INC. Can't locate auto/Config/Simple/ in @INC (@INC contains. Download and extract the [1]; Run perl from the. Hi, I am trying to use the TrueControlAPI in order to export device configurations from a NA install. However, I appear to have some issues. AutoSplit. Perl 5 version documentation. Go to top • Download PDF directories as needed to reflect class hierarchy, and creates the file DESCRIPTION · DIAGNOSTICS. I downloaded the MIME and Mail modules, and when I tried to execute a simple test script, I got the message: Can't locate auto/Mail/Internet/ blahb. in reply to Re: can't locate auto/*/ in @INC in thread can't locate Configure -des -Dprefix=$HOME/localperl make test make install. I've searched but couldn't find this file for downloading. This is the error message I get: "Can't locate auto/Mail/Internet/". In CPAN it is written that if you use Perl from Activestate, you just have to place the PM in. I am trying to use MIME::Tools which use Mail::Internet Mail::Internet uses Autoloader needs a fil call , but as I am. -
Perl for Windows NT Administrators
BY ROBERT MANGOLD Perl for Windows NT Administrators s the author demonstrates, scripting in Perl can save Windows NT administrators time when Aperforming a variety of tasks. this ever happened to you? The phone rings at WHY PERL? HAS your NT support desk. You are the person on duty, and the security enforcement officer tells you that the screen What is Perl? Perl stands for “Practical Extraction and saver should start after 10 minutes of idle time, not 15 minutes. Report Language,” or “Pathologically Eclectic Rubbish You’re faced with the agonizing task of changing the screen Lister”— both definitions are sanctioned by the Perl com- saver start time on the 1,000 Windows NT workstations that munity (seriously!). Perl is a programming language, like C you just deployed. What can you do? or Java. Wait! Before you mutter in disgust and hastily flip to In another scenario, say you are in a meeting with your the next article, bear with me. You may be thinking, “I’m not boss, and he tells you to rename the server that holds the a programmer, nor do not want to be a programmer. I will not roaming profiles. You will need to change the profile path on ‘go gentle into that good night.’” (I could not resist using a roughly 700 user accounts. Your boss asks you how long it quote from Dylan Thomas.) will take to accomplish this task, and you know that you will So, why should you become familiar with Perl? Simple. It have to make the changes after hours, but it’s your son’s second can save you time, win you friends, allow you to have a more birthday party tonight.