PROGRAMMING FOR BIOLOGISTS. BIOL 6297 Monday, Wednesday 10 am -12 pm
|
|
- Job Booker
- 8 years ago
- Views:
Transcription
1 PROGRAMMING FOR BIOLOGISTS BIOL 6297 Monday, Wednesday 10 am -12 pm
2 Tomorrow is Ada Lovelace Day Ada Lovelace was the first person to write a computer program
3 Today s Lecture Overview of the course Philosophy & Goals Getting Started Logging onto xanadu (Jerry Ebalunode) Course Organization Grading UNIX operating system History Getting Started in UNIX Connecting remotely Working from the command-line
4 Contact Info Elizabeth Ostrowski SR2, Room 221E Office Hours: After class, Monday and Wednesday (or by appointment)
5 Course Goals Teach you a programming language Teach you how to carry out particular bioinformatics analyses You can teach yourself Everyone needs to learn something different (customize) Most intro programming is written for computer scientists or software engineers, not biologists. Data Scientist How to generate, analyze, and synthesize large data sets Introduce tools and techniques that are necessary for bioinformatics Use a computing cluster How to write scripts Universal features of languages e.g., loops How to build computational pipelines
6 Example Bioinformatics Task Text file of sequencing reads Sequence Alignments
7 An Example Pipeline Raw sequencing reads Mapping Perl script UNIX tools Ruby scripts MAQ Shell script List of Mismatches Filtering UNIX tools AWK List of high confidence SNPs Sequences UNIX tools Ruby BioRuby Genome Sequences Convert Gene Sequences Align Sequence Alignments Molecular Evolution Statistics R UNIX tools (Bio)Ruby RESULTS UNIX tools Muscle Macse Revtrans.py Ruby scripts UNIX tools Ruby Analysis package
8 What we will learn How to use the UNIX command line to efficiently submit, pipeline, and analyze large data sets Command-line to organize and sort data Shell programming Text editors (emacs) Awk and Sed: Extract and manipulate information from data sets Introduction to two programming languages An interpreted language (Python) A language for statistical analysis & data visualization (R) Ethics - Data Management and Reproducibility Good programming practices
9 Course Grading Attendance (10%) Class Exercises (30%) Submit answers by the end of class Quizzes (60%) Will drop the two worst grades No make-ups
10 The Hacker Mentality Code is not like writing or works of art you are encouraged to be resourceful and to re-purpose code from anywhere you can. Use Google or online user help forums: Debugging Establish proper syntax However, for any graded assignments in this class: You may discuss strategies in general terms ( pseudocode ) Do not show each other actual code (written or typed)
11 Course Organization Part I => UNIX Operating System Part II => Programming Languages Python Part III => R Data visualization and statistics
12 Connecting to the UH cluster Connect via ssh ( secure shell ) Installed by default on any UNIX-based machine (Mac/Linux) Mac (Applications->Utilities) Linux Machine (Terminal) Windows PuTTY, a free ssh software Need: A user account IP address Format: $ ssh username@ipaddress For example: ssh eaostrow@xanadu.tlc2.uh.edu ssh elizabeth@ For our class: ssh biol6297eo1@xanadu.tlc2.uh.edu Check out a node to use in interactive mode: $ qsub I $ exit Do not run jobs (i.e., work) on the login nodes!! Substitute your user name here
13 Let s Practice Practice Exercises: Learn Code the Hard Way (LCTHW) Command-line Start at: Paths, Folders and Directories
14 Shell is the user interface Locally, access the shell by opening a Terminal Remotely, use ssh (secure shell) This will open a secure (encrypted) session From a UNIX machine open a Terminal: $ ssh hpc13f52@xanadu.tlc2.uh.edu! Command prompt User name Host name From a Windows machine: Use PuTTY, or some other SSH software
15 Notes for Mac Users MacOSX is a UNIX-based operating system, but most UNIX utilities are not installed by default Two methods to get these tools from Apple: Install Xcode Preferences -> Command-line tools Download from Apple Developer Website Must register with Apple ID Or install a virtual machine Consider a ports software (e.g., Macports, Fink, or Homebrew)
16 Getting Started Windows Users: Install PuTTY and/or WinScp Linux Users: Open a Terminal Mac Users: Open a Terminal Developer Tools:
sftp - secure file transfer program - how to transfer files to and from nrs-labs
last modified: 2014-01-29 p. 1 CS 111 - useful details The purpose of this handout is to summarize several details you will need for this course: 1. sftp - how to transfer files to and from nrs-labs 2.
More informationCLC Server Command Line Tools USER MANUAL
CLC Server Command Line Tools USER MANUAL Manual for CLC Server Command Line Tools 2.5 Windows, Mac OS X and Linux September 4, 2015 This software is for research purposes only. QIAGEN Aarhus A/S Silkeborgvej
More informationCONNECTING TO DEPARTMENT OF COMPUTER SCIENCE SERVERS BOTH FROM ON AND OFF CAMPUS USING TUNNELING, PuTTY, AND VNC Client Utilities
CONNECTING TO DEPARTMENT OF COMPUTER SCIENCE SERVERS BOTH FROM ON AND OFF CAMPUS USING TUNNELING, PuTTY, AND VNC Client Utilities DNS name: turing.cs.montclair.edu -This server is the Departmental Server
More informationRemote Access to Unix Machines
Remote Access to Unix Machines Alvin R. Lebeck Department of Computer Science Department of Electrical and Computer Engineering Duke University Overview We are using OIT Linux machines for some homework
More informationSSH and Basic Commands
SSH and Basic Commands In this tutorial we'll introduce you to SSH - a tool that allows you to send remote commands to your Web server - and show you some simple UNIX commands to help you manage your website.
More informationLaboration 3 - Administration
Laboration 3 - Administration During this laboration we will learn how to install, configure and test servers that will allow you to have access remote machines, copy files between computers and file sharing.
More informationHow to Tunnel Remote Desktop Through SSH on a Windows Computer
College of Engineering > Computing Resources > Computing Best Practices > W indows Remote Desktop How to Tunnel Remote Desktop Through SSH on a Windows Computer Why me and why now? CAE has been charged
More informationMiami University RedHawk Cluster Connecting to the Cluster Using Windows
Miami University RedHawk Cluster Connecting to the Cluster Using Windows The RedHawk cluster is a general purpose research computing resource available to support the research community at Miami University.
More informationAccess Instructions for United Stationers ECDB (ecommerce Database) 2.0
Access Instructions for United Stationers ECDB (ecommerce Database) 2.0 Table of Contents General Information... 3 Overview... 3 General Information... 3 SFTP Clients... 3 Support... 3 WinSCP... 4 Overview...
More informationLinux Overview. Local facilities. Linux commands. The vi (gvim) editor
Linux Overview Local facilities Linux commands The vi (gvim) editor MobiLan This system consists of a number of laptop computers (Windows) connected to a wireless Local Area Network. You need to be careful
More informationNaviCell Data Visualization Python API
NaviCell Data Visualization Python API Tutorial - Version 1.0 The NaviCell Data Visualization Python API is a Python module that let computational biologists write programs to interact with the molecular
More informationINSTALLING KAAZING WEBSOCKET GATEWAY - HTML5 EDITION ON AN AMAZON EC2 CLOUD SERVER
INSTALLING KAAZING WEBSOCKET GATEWAY - HTML5 EDITION ON AN AMAZON EC2 CLOUD SERVER A TECHNICAL WHITEPAPER Copyright 2012 Kaazing Corporation. All rights reserved. kaazing.com Executive Overview This document
More informationWhat Does Tequila Have to Do with Managing Macs? Using Open Source Tools to Manage Mac OS in the Enterprise!
What Does Tequila Have to Do with Managing Macs? Using Open Source Tools to Manage Mac OS in the Enterprise! Josh Schripsema Sr. Systems Engineer Expedia, Inc. Caitlin Hodgins Sr. Systems Administrator
More informationHPCC - Hrothgar Getting Started User Guide
HPCC - Hrothgar Getting Started User Guide Transfer files High Performance Computing Center Texas Tech University HPCC - Hrothgar 2 Table of Contents Transferring files... 3 1.1 Transferring files using
More informationConnecting to the School of Computing Servers and Transferring Files
Connecting to the School of Computing Servers and Transferring Files Connecting This document will provide instructions on how to connect to the School of Computing s server. Connect Using a Mac or Linux
More informationHP-UX Essentials and Shell Programming Course Summary
Contact Us: (616) 875-4060 HP-UX Essentials and Shell Programming Course Summary Length: 5 Days Prerequisite: Basic computer skills Recommendation Statement: Student should be able to use a computer monitor,
More informationCisco Networking Academy Program Curriculum Scope & Sequence. Fundamentals of UNIX version 2.0 (July, 2002)
Cisco Networking Academy Program Curriculum Scope & Sequence Fundamentals of UNIX version 2.0 (July, 2002) Course Description: Fundamentals of UNIX teaches you how to use the UNIX operating system and
More informationAuthor A.Kishore/Sachin http://appsdba.info. VNC Background
VNC Background VNC means Virtual Network Computing, is an open-source, crossplatform protocol for viewing GUI desktops on remote machines within a LAN or over a WAN/Internet connection. This document discusses
More informationAdafruit's Raspberry Pi Lesson 6. Using SSH
Adafruit's Raspberry Pi Lesson 6. Using SSH Created by Simon Monk Last updated on 2015-04-09 03:47:50 PM EDT Guide Contents Guide Contents Overview Enabling SSH Using SSH on a Mac or Linux SSH under Windows
More informationCASHNet Secure File Transfer Instructions
CASHNet Secure File Transfer Instructions Copyright 2009, 2010 Higher One Payments, Inc. CASHNet, CASHNet Business Office, CASHNet Commerce Center, CASHNet SMARTPAY and all related logos and designs are
More informationCloud Server powered by Mac OS X. Getting Started Guide. Cloud Server. powered by Mac OS X. AKJZNAzsqknsxxkjnsjx Getting Started Guide Page 1
Getting Started Guide Cloud Server powered by Mac OS X Getting Started Guide Page 1 Getting Started Guide: Cloud Server powered by Mac OS X Version 1.0 (02.16.10) Copyright 2010 GoDaddy.com Software, Inc.
More informationInstructions for Accessing the Advanced Computing Facility Supercomputing Cluster at the University of Kansas
ACF Supercomputer Access Instructions 1 Instructions for Accessing the Advanced Computing Facility Supercomputing Cluster at the University of Kansas ACF Supercomputer Access Instructions 2 Contents Instructions
More informationFEEG6002 - Applied Programming 6 - Working Remotely on Linux Server
FEEG6002 - Applied Programming 6 - Working Remotely on Linux Server Sam Sinayoko 2015-11-06 1 / 25 Outline Learning Outcomes Introduction Connecting to Linux server Transfering files to Linux server Text
More informationPuTTY/Cygwin Tutorial. By Ben Meister Written for CS 23, Winter 2007
PuTTY/Cygwin Tutorial By Ben Meister Written for CS 23, Winter 2007 This tutorial will show you how to set up and use PuTTY to connect to CS Department computers using SSH, and how to install and use the
More informationAn Introduction to High Performance Computing in the Department
An Introduction to High Performance Computing in the Department Ashley Ford & Chris Jewell Department of Statistics University of Warwick October 30, 2012 1 Some Background 2 How is Buster used? 3 Software
More informationTSM for Windows Installation Instructions: Download the latest TSM Client Using the following link:
TSM for Windows Installation Instructions: Download the latest TSM Client Using the following link: ftp://ftp.software.ibm.com/storage/tivoli-storagemanagement/maintenance/client/v6r2/windows/x32/v623/
More informationGetting Started with HPC
Getting Started with HPC An Introduction to the Minerva High Performance Computing Resource 17 Sep 2013 Outline of Topics Introduction HPC Accounts Logging onto the HPC Clusters Common Linux Commands Storage
More informationUsing a login script for deployment of Kaspersky Network Agent to Mac OS X clients
Using a login script for deployment of Kaspersky Network Agent to Mac OS X clients EXECUTIVE SUMMARY This document describes how an administrator can configure a login script to deploy Kaspersky Lab Network
More informationTutorial. Reference http://www.openflowswitch.org/foswiki/bin/view/openflow/mininetgettingstarted for more thorough Mininet walkthrough if desired
Setup Tutorial Reference http://www.openflowswitch.org/foswiki/bin/view/openflow/mininetgettingstarted for more thorough Mininet walkthrough if desired Necessary Downloads 1. Download VM at http://www.cs.princeton.edu/courses/archive/fall10/cos561/assignments/cos561tutorial.zip
More informationIDS and Penetration Testing Lab II
IDS and Penetration Testing Lab II Software Requirements: 1. A secure shell (SSH) client. For windows you can download a free version from here: http://the.earth.li/~sgtatham/putty/latest/x86/putty-0.62-
More informationIBM WebSphere Application Server Version 7.0
IBM WebSphere Application Server Version 7.0 Centralized Installation Manager for IBM WebSphere Application Server Network Deployment Version 7.0 Note: Before using this information, be sure to read the
More informationCommand Line Interface User Guide for Intel Server Management Software
Command Line Interface User Guide for Intel Server Management Software Legal Information Information in this document is provided in connection with Intel products. No license, express or implied, by estoppel
More informationNavigating the Rescue Mode for Linux
Navigating the Rescue Mode for Linux SUPPORT GUIDE DEDICATED SERVERS ABOUT THIS GUIDE This document will take you through the process of booting your Linux server into rescue mode to identify and fix the
More informationIntroduction to Running Hadoop on the High Performance Clusters at the Center for Computational Research
Introduction to Running Hadoop on the High Performance Clusters at the Center for Computational Research Cynthia Cornelius Center for Computational Research University at Buffalo, SUNY 701 Ellicott St
More informationWinSCP PuTTY as an alternative to F-Secure July 11, 2006
WinSCP PuTTY as an alternative to F-Secure July 11, 2006 Brief Summary of this Document F-Secure SSH Client 5.4 Build 34 is currently the Berkeley Lab s standard SSH client. It consists of three integrated
More informationThere are many different ways in which we can connect to a remote machine over the Internet. These include (but are not limited to):
Remote Connection Protocols There are many different ways in which we can connect to a remote machine over the Internet. These include (but are not limited to): - telnet (typically to connect to a machine
More informationInstalling a Symantec Backup Exec Agent on a SnapScale Cluster X2 Node or SnapServer DX1 or DX2. Summary
Technical Bulletin Application Note April 2013 Installing a Symantec Backup Exec Agent on a SnapScale Cluster X2 Node or SnapServer DX1 or DX2 Summary This application note describes how to install the
More informationTREK HOSC PAYLOAD ETHERNET GATEWAY (HPEG) USER GUIDE
TREK HOSC PAYLOAD ETHERNET GATEWAY (HPEG) USER GUIDE April 2016 Approved for Public Release; Distribution is Unlimited. TABLE OF CONTENTS PARAGRAPH PAGE 1 Welcome... 1 1.1 Getting Started... 1 1.2 System
More informationUniversity of Toronto
1 University of Toronto APS 105 Computer Fundamentals A Tutorial about UNIX Basics Fall 2011 I. INTRODUCTION This document serves as your introduction to the computers we will be using in this course.
More informationVolume SYSLOG JUNCTION. User s Guide. User s Guide
Volume 1 SYSLOG JUNCTION User s Guide User s Guide SYSLOG JUNCTION USER S GUIDE Introduction I n simple terms, Syslog junction is a log viewer with graphing capabilities. It can receive syslog messages
More informationInstalling and Using No Machine to connect to the Redhawk Cluster. Mac version
Installing and Using No Machine to connect to the Redhawk Cluster Mac version No Machine (also called NX) is a tool that can be used to connect to Miami s Redhawk cluster when a graphical interface is
More informationCourse plan. MSc on Bioinformatics for Health Sciences. 2015-2016 Academic Year Qualification Master's Degree
Course plan MSc on Bioinformatics for Health Sciences 2015-2016 Academic Year Qualification Master's Degree 1. Description of the subject Subject name: Introduction to Programming with Perl Code: 31033
More informationVersion 5.0 Release Notes
Version 5.0 Release Notes 2011 Gene Codes Corporation Gene Codes Corporation 775 Technology Drive, Ann Arbor, MI 48108 USA 1.800.497.4939 (USA) +1.734.769.7249 (elsewhere) +1.734.769.7074 (fax) www.genecodes.com
More informationOverview. Remote access and file transfer. SSH clients by platform. Logging in remotely
Remote access and file transfer Overview Remote logins to Bio-Linux with ssh Running software from another machine Logging in from another machine Getting files on and off Bio-Linux Transferring files
More informationDownload and Install the Citrix Receiver for Mac/Linux
Download and Install the Citrix Receiver for Mac/Linux NOTE: WOW can only be used with Internet Explorer for Windows. To accommodate WOW customers using Mac or Linux computers, a Citrix solution was developed
More informationHow to Backup XenServer VM with VirtualIQ
How to Backup XenServer VM with VirtualIQ 1. Using Live Backup of VM option: Live Backup: This option can be used, if user does not want to power off the VM during the backup operation. This approach takes
More informationCode Estimation Tools Directions for a Services Engagement
Code Estimation Tools Directions for a Services Engagement Summary Black Duck software provides two tools to calculate size, number, and category of files in a code base. This information is necessary
More informationSSH Connections MACs the MAC XTerm application can be used to create an ssh connection, no utility is needed.
Overview of MSU Compute Servers The DECS Linux based compute servers are well suited for programs that are too slow to run on typical desktop computers but do not require the power of supercomputers. The
More informationViking VPN Guide Linux/UNIX
Viking VPN Guide Linux/UNIX Table Of Contents 1 : VPN Questions answered 2 : Installing the Linux Client 3 : Connecting with the Linux Client 4 : Reporting Problems Version 1.0 : 10/27/2010 Information
More informationFile Transfer Examples. Running commands on other computers and transferring files between computers
Running commands on other computers and transferring files between computers 1 1 Remote Login Login to remote computer and run programs on that computer Once logged in to remote computer, everything you
More informationIntroduction to UNIX and SFTP
Introduction to UNIX and SFTP Introduction to UNIX 1. What is it? 2. Philosophy and issues 3. Using UNIX 4. Files & folder structure 1. What is UNIX? UNIX is an Operating System (OS) All computers require
More informationProject 2: Firewall Design (Phase I)
Project 2: Firewall Design (Phase I) CS 161 - Joseph/Tygar November 12, 2006 1 Edits If we need to make clarifications or corrections to this document after distributing it, we will post a new version
More informationVHA Innovations Program Future Technology Laboratory. Linux Workstation Remote Desktop Connection Manual 2014-10- 01
VHA Innovations Program Future Technology Laboratory Linux Workstation Remote Desktop Connection Manual 2014-10- 01 Table of Contents VHA Innovations Program... 1 Purpose... 3 Prerequisites... 3 Windows
More informationUsing Symantec NetBackup with Symantec Security Information Manager 4.5
Using Symantec NetBackup with Symantec Security Information Manager 4.5 Using Symantec NetBackup with Symantec Security Information Manager Legal Notice Copyright 2007 Symantec Corporation. All rights
More informationimhosted Web Hosting Knowledge Base
imhosted Web Hosting Knowledge Base CGI, Perl, Sendmail Category Contents CGI, Perl, Sendmail 1 What directory do I upload my CGI scripts to? 1 What is CGI? 1 What is Perl? 1 Do you allow CGI to run on
More informationSendMIME Pro Installation & Users Guide
www.sendmime.com SendMIME Pro Installation & Users Guide Copyright 2002 SendMIME Software, All Rights Reserved. 6 Greer Street, Stittsville, Ontario Canada K2S 1H8 Phone: 613-831-4023 System Requirements
More informationMake a folder named Lab3. We will be using Unix redirection commands to create several output files in that folder.
CMSC 355 Lab 3 : Penetration Testing Tools Due: September 31, 2010 In the previous lab, we used some basic system administration tools to figure out which programs where running on a system and which files
More informationCONFIGURING ECLIPSE FOR AWS EMR DEVELOPMENT
CONFIGURING ECLIPSE FOR AWS EMR DEVELOPMENT With this post we thought of sharing a tutorial for configuring Eclipse IDE (Intergrated Development Environment) for Amazon AWS EMR scripting and development.
More informationSAP HANA Client Installation and Update Guide
PUBLIC SAP HANA Platform SPS 12 Document Version: 1.0 2016-05-11 Content 1 Introduction....3 1.1 Supported Platforms.... 3 1.2 Software Download.... 4 2 SAP HANA Client on UNIX or Linux....7 2.1 Planning
More informationCommand Line - Part 1
Command Line - Part 1 STAT 133 Gaston Sanchez Department of Statistics, UC Berkeley gastonsanchez.com github.com/gastonstat Course web: gastonsanchez.com/teaching/stat133 GUIs 2 Graphical User Interfaces
More informationHosted Connecting Steps Client Installation Instructions
Hosted Connecting Steps Client Installation Instructions Thank you for purchasing B Squared s Hosted Connecting Steps System for Schools. Connecting Steps V4 currently requires you to install a client
More informationQuick Start Guide. User Manual. 1 March 2012
Quick Start Guide User Manual 1 March 2012 This document outlines the steps to install SAMLite system into a single box of server and configure it to run for passive collection (domain login script). This
More informationInstalling the SSH Client v3.2.2 For Microsoft Windows
WIN1011 June 2003 Installing the SSH Client v3.2.2 For Microsoft Windows OVERVIEW... 1 SYSTEM REQUIREMENTS... 2 INSTALLING THE SSH PACKAGE... 2 STARTING THE PROGRAMS... 5 USING THE SHELL CLIENT... 8 USING
More informationOracle EXAM - 1Z0-102. Oracle Weblogic Server 11g: System Administration I. Buy Full Product. http://www.examskey.com/1z0-102.html
Oracle EXAM - 1Z0-102 Oracle Weblogic Server 11g: System Administration I Buy Full Product http://www.examskey.com/1z0-102.html Examskey Oracle 1Z0-102 exam demo product is here for you to test the quality
More informationBasic processing of next-generation sequencing (NGS) data
Basic processing of next-generation sequencing (NGS) data Getting from raw sequence data to expression analysis! 1 Reminder: we are measuring expression of protein coding genes by transcript abundance
More informationCycleServer Grid Engine Support Install Guide. version 1.25
CycleServer Grid Engine Support Install Guide version 1.25 Contents CycleServer Grid Engine Guide 1 Administration 1 Requirements 1 Installation 1 Monitoring Additional OGS/SGE/etc Clusters 3 Monitoring
More informationSparkLab May 2015 An Introduction to
SparkLab May 2015 An Introduction to & Apostolos N. Papadopoulos Assistant Professor Data Engineering Lab, Department of Informatics, Aristotle University of Thessaloniki Abstract Welcome to SparkLab!
More informationTIBCO ActiveMatrix BusinessWorks Plug-in for TIBCO Managed File Transfer Software Installation
TIBCO ActiveMatrix BusinessWorks Plug-in for TIBCO Managed File Transfer Software Installation Software Release 6.0 November 2015 Two-Second Advantage 2 Important Information SOME TIBCO SOFTWARE EMBEDS
More informationCenters for Medicare and Medicaid Services. Connect: Enterprise Secure Client (SFTP) Gentran. Internet Option Manual 2006-2007
Centers for Medicare and Medicaid Services Connect: Enterprise Secure Client (SFTP) Gentran Internet Option Manual 2006-2007 Version 8 The Connect: Enterprise Secure Client (SFTP) Manual is not intended
More informationWakanda Studio Features
Wakanda Studio Features Discover the many features in Wakanda Studio. The main features each have their own chapters and other features are documented elsewhere: Wakanda Server Administration Data Browser
More informationThere s a variety of software that can be used, but the approach described here uses freely available Cygwin software: (1) Cygwin/X (2) Cygwin/openssh
To do this you need two pieces of software: (1) An X server running on your PC, and (2) A secure shell for making a network connection to a UNIX host. There s a variety of software that can be used, but
More informationUsing and Contributing Virtual Machines to VM Depot
Using and Contributing Virtual Machines to VM Depot Introduction VM Depot is a library of open source virtual machine images that members of the online community have contributed. You can browse the library
More informationInstallation of PHP, MariaDB, and Apache
Installation of PHP, MariaDB, and Apache A few years ago, one would have had to walk over to the closest pizza store to order a pizza, go over to the bank to transfer money from one account to another
More informationClick Studios. Passwordstate. Password Discovery, Reset and Validation. Requirements
Passwordstate Password Discovery, Reset and Validation Requirements This document and the information controlled therein is the property of Click Studios. It must not be reproduced in whole/part, or otherwise
More informationSIMIAN systems. Setting up a Sitellite development environment on Windows. Sitellite Content Management System
Setting up a Sitellite development environment on Windows Sitellite Content Management System Introduction For live deployment, it is strongly recommended that Sitellite be installed on a Unix-based operating
More informationUsing the Yale HPC Clusters
Using the Yale HPC Clusters Stephen Weston Robert Bjornson Yale Center for Research Computing Yale University Oct 2015 To get help Send an email to: hpc@yale.edu Read documentation at: http://research.computing.yale.edu/hpc-support
More informationInstalling Bacula Client on Mac OS X Server
Installing Bacula Client on Mac OS X Server This tutorial guides you through a Bacula install on a fresh installation of Mac OS X Server 10.5 (Leopard). This does not include setting up firewall settings.
More informationWinSCP for Windows: Using SFTP to upload files to a server
WinSCP for Windows: Using SFTP to upload files to a server Quickstart guide Developed by: Academic Technology Services & User Support, CIT atc.cit.cornell.edu Last updated 9/9/08 WinSCP 4.1.6 Getting started
More informationCumulus 6 HELIOS Companion 2.0. Administrator Guide
Cumulus 6 HELIOS Companion 2.0 Administrator Guide Copyright 2004, Canto GmbH. All rights reserved. Canto, the Canto logo, the Cumulus logo, and Cumulus are registered trademarks of Canto, registered in
More informationScheduling in SAS 9.4 Second Edition
Scheduling in SAS 9.4 Second Edition SAS Documentation The correct bibliographic citation for this manual is as follows: SAS Institute Inc. 2015. Scheduling in SAS 9.4, Second Edition. Cary, NC: SAS Institute
More informationMySQL Quick Start Guide
Quick Start Guide MySQL Quick Start Guide SQL databases provide many benefits to the web designer, allowing you to dynamically update your web pages, collect and maintain customer data and allowing customers
More informationMicrosoft Windows PowerShell v2 For Administrators
Course 50414B: Microsoft Windows PowerShell v2 For Administrators Course Details Course Outline Module 1: Introduction to PowerShell the Basics This module explains how to install and configure PowerShell.
More informationTips for getting started! with! Virtual Data Center!
Tips for getting started with Virtual Data Center Last Updated: 1 July 2014 Table of Contents Safe Swiss Cloud Self Service Control Panel 2 Please note the following about for demo accounts: 2 Add an Instance
More informationWS_FTP Professional 12
WS_FTP Professional 12 Tools Guide Contents CHAPTER 1 Introduction Ways to Automate Regular File Transfers...5 Check Transfer Status and Logs...6 Building a List of Files for Transfer...6 Transfer Files
More informationRSA SecurID Token User Guide February 12, 2015
RSA SecurID Token User Guide Page i Table of Contents Section I How to request an RSA SecurID token... 1 Section II Setting your RSA SecurID PIN... 6 Section III Setting up PuTTY on your Windows workstation
More informationClearswift Information Governance
Clearswift Information Governance Implementing the CLEARSWIFT SECURE Encryption Portal on the CLEARSWIFT SECURE Email Gateway Version 1.10 02/09/13 Contents 1 Introduction... 3 2 How it Works... 4 3 Configuration
More informationUpgrading a Single Node Cisco UCS Director Express, page 2. Supported Upgrade Paths to Cisco UCS Director Express for Big Data, Release 2.
Upgrading Cisco UCS Director Express for Big Data, Release 2.0 This chapter contains the following sections: Supported Upgrade Paths to Cisco UCS Director Express for Big Data, Release 2.0, page 1 Upgrading
More informationLinux command line. An introduction to the Linux command line for genomics. Susan Fairley
Linux command line An introduction to the Linux command line for genomics Susan Fairley Aims Introduce the command line Provide an awareness of basic functionality Illustrate with some examples Provide
More information1. Installation Overview
Quick Install Guide 1. Installation Overview Thank you for selecting Bitdefender Business Solutions to protect your business. This document enables you to quickly get started with the installation of Bitdefender
More informationIntroduction to MSI* for PubH 8403
Introduction to MSI* for PubH 8403 Sep 30, 2015 Nancy Rowe *The Minnesota Supercomputing Institute for Advanced Computational Research Overview MSI at a Glance MSI Resources Access System Access - Physical
More informationEditing Files on Remote File Systems
Terminal Intro (Vol 2) Paul E. Johnson 1 2 1 Department of Political Science 2 Center for Research Methods and Data Analysis, University of Kansas 2015 Outline 1 Editing Without a Mouse! Emacs nano vi
More informationAn Introduction to Using Python with Microsoft Azure
An Introduction to Using Python with Microsoft Azure If you build technical and scientific applications, you're probably familiar with Python. What you might not know is that there are now tools available
More informationHow to Use Remote Desktop over a Secure Connection (SSH)
How to Use Remote Desktop over a Secure Connection (SSH) 1. Windows (anywhere) Windows (internal/desy) Introduction First of all you need PuTTY. If you have a win.desy.de PC/Notebook, you can simply install
More informationScyld Cloud Manager User Guide
Scyld Cloud Manager User Guide Preface This guide describes how to use the Scyld Cloud Manager (SCM) web portal application. Contacting Penguin Computing 45800 Northport Loop West Fremont, CA 94538 1-888-PENGUIN
More information2 Advanced Session... Properties 3 Session profile... wizard. 5 Application... preferences. 3 ASCII / Binary... Transfer
Contents I Table of Contents Foreword 0 Part I SecEx Overview 3 1 What is SecEx...? 3 2 Quick start... 4 Part II Configuring SecEx 5 1 Session Profiles... 5 2 Advanced Session... Properties 6 3 Session
More informationDownload/Install IDENTD
Download/Install IDENTD IDENTD is the small software program that must be installed on each user s computer if multiple filters are to be used in ComSifter. The program may be installed and executed locally
More informationContents. TSM Remote Server Installation guide
TSM Remote Server Installation guide Contents 1 Introduction... 3 2 Pre-installation requirements... 3 2.1.NET Framework 4.0... 3 2.2 Adobe Air... 3 2.3 IE8 or higher version... 3 3 Windows 7 x86 (32bit)...
More informationMobile Labs Plugin for IBM Urban Code Deploy
Mobile Labs Plugin for IBM Urban Code Deploy Thank you for deciding to use the Mobile Labs plugin to IBM Urban Code Deploy. With the plugin, you will be able to automate the processes of installing or
More informationOutpost Office Firewall
Technical Reference Outpost Office Firewall Office Firewall Software from Agnitum Abstract This document provides advanced technical information on administering Outpost Office Firewall in a corporate
More informationSETTING UP RASPBERRY PI FOR TOPPY FTP ACCESS. (Draft 5)
SETTING UP RASPBERRY PI FOR TOPPY FTP ACCESS (Draft 5) 1 INTRODUCTION These notes describe how I set up my Raspberry Pi to allow FTP connection to a Toppy. Text in blue indicates Linux commands or file
More information