XSEDE Workshop at South Carolina State University

Submitter: Kate Cahill
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-10-21
Description: Training Materials from the XSEDE Regional Workshop at South Carolina State University, October, 2017

XSEDE Workshop at Jackson State University

Submitter: Katharine Cahill
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-05-05
Description: Training Materials from the XSEDE Regional Workshop at Jackson State University, May, 2017

XSEDE Workshop at Southern University

Submitter: Katharine Cahill
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-04-01
Description: Training Materials from the XSEDE Regional Workshop at Southern University, March, 2017

The Scientific Computing PhD Program at University of Michigan

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: We established a unique degree program at Michigan in 1989: a student in any PhD-granting department in the University can add \"...and Scientific Computing\" to their degree name by meeting some course and doctoral prelim requirements specific to scientific computing. The program, which has graduated close to 100 PhD\'s in a wide variety of departments, is experiencing a resurgence of interest, and currently has close to fifty students enrolled.

Code.org and Bringing Computer Science to All

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: Across the United States teachers, parents, governments, and students are increasingly calling for computer science education to be made available across the K-12 curriculum. Working with a coalition of teachers, districts, and partner organizations, Code.org is helping to make this vision a reality. This endeavor began with a single viral video and the Hour of Code campaign which draws millions of students each year. Today Code.org has expanded their efforts to include the development of high quality curricula and classroom tools, ongoing professional learning for teachers, and outreach efforts to with school districts and the CS education community. As districts and teachers face the complex challenges of bringing CS to all students, Code.org is committed to being a consistent ally and advocate.

Computational Thinking for All: The Power and the Peril

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: Serving as an introduction to computational thinking –and in particular parallel thinking– we will explore ways to introduce modeling and simulation across the curriculum to draw more students into high performance computing. We will explore sources and resources for computational explorations in undergraduate and introductory graduate classes.

Using Digital Badges to Recognize HPC Competencies

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: Using Digital Badges to Recognize HPC Competencies
Presentation by Sandie Kappes, Sr Project Coordinator/Instructional Designer, National Center for Supercomputing Applications

Undergraduate Computational Physics Competencies Presentation

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: Presentation of Draft Competencies for Undergraduate Computational Physics led by Dr. Richard Gass

MOOCs and SPOCs for Big Data: Lessons Learned and Visions of the Future

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: Seminar: MOOCs and SPOCs for Big Data: Lessons Learned and Visions of the Future. Covers concepts and benefits of MOOCs in the context of lerning Big Data and HPC applications

Teaching Computational and Data Science in the 21st Century University

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: SIGHPC Seminar Teaching computational and data science in the 21st century university: The MSU Department of Computational Mathematics, Science and Engineering

Software and Data Carpentry

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-02
Description: Introduction to data and software carpentry training to enable more effective computational research. Focused on training researchers who are not specialists in the domains of data analytics and software development.

Bringing HPC Big Ideas to high school students and learners worldwide

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-02-01
Description: The Beauty and Joy of Computing is a non-majors university course developed at UC Berkeley that is being offered as a College Board endorsed AP Computer Science Principles course in over a hundred high schools across the country. We teach powerful HPC big ideas of concurrency and distributed computing, and the functional programming ideas of map, keep and combine using Snap!, an easy-to-learn graphical programming language.

Wofford College Emphasis in Computational Science

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2017-01-12
Description: Educational Module on High Performance Computing Bioinformatics Algorithms

Introduction to Unix/Linux

Submitter: Afnan Rehman
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2016-11-03
Description: Introduction to Linux for new users including how to use it and its benefits. Presented as part of an XSEDE webinar series at the University of Puerto Rico, Mayaguez.

R Workshop at Morgan State

Submitter: Kate Cahill
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2016-09-21
Description: Introduction to R, Analytics for R and R for HPC presented by David Walling

XSEDE Education Program Overview for Campus Champions

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2016-06-28
Description: Webinar presentation slides for XSEDE Campus Champions tech talk June 29, 2016

Workshop at Hampton University

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2016-05-13
Description: XSEDE workshop at Hampton University May 12, 2016

University of Virginia, College of Engineering Seminar

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2016-04-24
Description: Seminar for campus visit to University of Virginia, April 26, 2016

Regional Workshop at Albany State University

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2016-04-23
Description: XSEDE regional workshop at Albany State University, Albany, GA. April 22-23, 2016

Presentations for Campus Visit, West Virginia University

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2016-02-22
Description: Presentations for the graduate student seminar and meeting with faculty at West Virginia University, February 22, 2016

Boise State Research Computing Days

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2016-02-10
Description: Presentation and workshop materials for the computing days event at Boise State, February 16. 2016

High Throughput Computing with parametric job launchers on Stampede

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

Prerequisites: Linux, C/Fortran/Python, HPC Cluster Programming Environement

This course introduces concepts of parametric job submission for high throughput.

Hybrid Parallel Applications with MPI and OpenMP

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

Using MPI and Open MP together to get the full benefit of not only CPUs but also accelerators is the focus of this course.

Intel Xeon Phi Native Execution and Optimization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Intel Xeon Phi Offload Execution

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Intel Xeon Phi Symmetric Execution

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Introduction to Computer Graphics and Scientific Visualization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

In this one-and-half-day training session, we will teach the attendees fundamental concepts in scientific visualization and computer graphics, and introduce them to various visualization software packages that TACC supports.

Introduction to Data Management

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

Prerequisites: Linux, C/Fortran/Python, HPC Cluster Programming Environement

This course will cover data management as the data deluge becomes more significant.

Introduction to Information Visualization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2016-01-22
Description: TACC

Prerequisites: Linux

Users will receive instructions on the use of remote visualization software to visualize data sets generated on systems such as Ranger.  A review of the scientific visualization process will precede an overview of the visualization software available to TACC users, including the parallel visualization software VisIt and Paraview.  Labs will provide students with the opportunity to prepare data sets to be visualized using these applications. In addition, attendees will be introduced to the Longhorn visualization portal.

Associated Colleges of the Chicago Area Computer Science (ACCA-CS) Fall 2015 Seminar/Workshop

Submitter: Aaron Weeden
Submitter's Institution: The Shodor Education Foundation, Inc.
Submission Date: 2016-01-15
Description: Every fall the Associated Colleges of the Chicago Area (ACCA) computer science division offers a seminar series centered on a topic. This year the topic centered on the general topics of High Performance Computing and Parallel Thinking. Often, part of every series is a collection of webinars relevant to the topic. This year Shodor and Elmhurst College hosted, via Adobe Connect, 5 webinars (September 16, October 7/14/21/28, 2015) of one hour each to train students from ACCA on topics related to parallel computing, specifically focusing on programming technologies available on the Blue Waters supercomputer such as OpenMP, MPI, OpenACC, and CUDA. A forest fire simulation problem was used as a common theme and parallel algorithms were implemented using the above-mentioned parallel models of computations using C and related libraries.

Instructions for obtaining an education allocation on Blue Waters are available here: https://bluewaters.ncsa.illinois.edu/education-allocations

Data Analysis on TACC Resources

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-31
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environemnt, R

Introduction to R, data mining in R and running R jobs on Stampede

Debugging Parallel Applications

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-31
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The course covers profiling and debugging technologies available at TACC for performance optimization and debugging of serial and parallel codes. The course contains instructions for beginners and advanced users, along with a lab with demos and examples.

Fortran 90/05 Programming

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-31
Description: TACC

Prerequisites: Linux

Fortran programming skills are essential for researchers in areas of High Performance Computing. These skills can be directly applied to resources at the Texas Advanced Computing Center and in any Unix environment. The class is intended for the intermediate user wishing to gain more experience in Fortran90/95 programming. Basic knowledge of Fortran or another mid/high-level programming language is a prerequisite.

C++ Programming Basics

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-22
Description: TACC

Prerequisites: Linux

C++ is a powerful language used in in a number of extensible numerical software libraries.  Its multi-paradigm feature set allows for a number of applications without sacrificing the performance that low-level code can provide.  While C++ is often characterized as an \\\\\\\"experts-only\\\\\\\" language, the basic features are both accessible to novices and provide useful abstractions for any code. Our class will be broken into a morning session on basic language syntax, e.g., control flow, IO, and objects.  The afternoon session will focus on intermediate features, e.g., memory management, templates, and the STL.  Our examples will largely be drawn from scientific computing codes and each session will include a lab with help getting started. Prerequisite: Basic unix skills will be assumed and some programming knowledge would be beneficial.

Puerto Rico Outreach Event

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-12-18
Description: Outreach event in Puerto Rico on December 11, 2015

Hadoop Essentials

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2015-12-15
Description: SDSC

This two-day, hands-on training course is designed for data analysts, business intelligence specialists, developers,
administrators or anyone who wants to quickly process massive and complex data directly in Hadoop.

Introduction to Hadoop on Gordon

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2015-12-15
Description: SDSC

Prerequisites: Linux, C/Fortran

Introduction to using Hadoop on the Gordon supercomputer at SDSC.

Introduction to Scientific and Remote Visualization on Gordon

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2015-12-15
Description: SDSC

Prerequisites: Linux, C/Fortran

Introduction to using Scientific Visualization tools on the Gordon supercomputer at SDSC.

Preparing and Translating Data for use with VisIt

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2015-12-15
Description: SDSC

Prerequisites: Linux, C/Fortran

Introduction to using the Scientific Visualization tool VisIt on the Gordon supercomputer at SDSC.

Advanced MPI

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-15
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Compuigin, MPI

This course delves into topics in advanced Message Passing, with information about how haradware affects MPI decisions.

C Programming Basics

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-15
Description: TACC

Prerequisites: Linux

Basic C programming skills are essential for researchers in areas of High Performance Computing. These skills can bedirectly applied to resources at the Texas Advanced Computing Center and in any Unix environment. This class is intended for the beginner wishing to gain more experience in C programming.

XSEDE New User Training

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2015-12-11
Description: PSC

The XSEDE new user training is a 90 minute webinar providing general overview and reference information for first-time users of XSEDE resources at any of XSEDE’s service providers. This session is particularly targeted at users who have just received their first allocation on XSEDE. It is not intended to teach programming, numerical methods, or computational science, but rather to provide a quick tour of what XSEDE has to offer.

Building A raspberry Pi Cluster for Visualization and Teaching

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2015-12-11
Description: SDSC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

Using the Raspberry Pi, a commodity ARM implementation, concepts in the hardware and software involved in creating a parallel cluster are explored.

XSEDE New User Training

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2015-12-11
Description: TACC

An introduction to XSEDE is given, including information about how to get accounts, allocations, etc.

Introduction to Scientific Workflows

Submitter: Yuan Zhang
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-12-11
Description: Scientific workflows allow users to easily express multi-step computational tasks, for example retrieve data from an instrument or a database, reformat the data, and run an analysis. A scientific workflow describes the dependencies between the tasks and in most cases the workflow is described as a directed acyclic graph (DAG), where the nodes are tasks and the edges denote the task dependencies. A defining property for a scientific workflow is that it manages data flow. The tasks in a scientific workflow can be everything from short serial tasks to very large parallel tasks (MPI for example) surrounded by a large number of small, serial tasks used for pre- and post-processing.

Batch rendering with VisIt on Stampede @ TACC

Submitter: Yuan Zhang
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-12-11
Description: Often there is a need to perform visualization on large number of files. We could create a VisIt session file on our personal computer then copy this session file to a cluster then point to the larger data on the cluster and render visualizations in batch. This process is not very intuitive and requires a bit of VisIt foo, so here is how to accomplish batch rendering on Stampede cluster at Texas Advanced Computing Center (TACC)

HPC Monthly Training-Big Data

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2015-12-08
Description: PSC

Prerequisites: Unix

This workshop will focus on topics such as Hadoop and SPARQL.

HPC Monthly Training-MPI

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2015-12-08
Description: PSC

Prerequisites: Unix, C or Fortran

This workshop is intended to give C and Fortran programmers a hands-on introduction to MPI programming. Both days are compact, to accommodate multiple time zones, but packed with useful information and lab exercises. Attendees will leave with a working knowledge of how to write scalable codes using MPI – the standard programming tool of scalable parallel computing.

HPC Monthly Training-OpenACC

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2015-12-08
Description: PSC

Prerequisites: Unix, C or Fortran

OpenACC is the accepted standard using compiler directives to allow quick development of GPU capable codes using standard languages and compilers. It has been used with great success to accelerate real applications within very short development periods. This workshop assumes knowledge of either C or Fortran programming. It will have a hands-on component.

HPC Monthly Training-OpenMP

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2015-12-08
Description: PSC

Prerequisites: Unix, C or Fortran

This workshop is intended to give C and Fortran programmers a hands-on introduction to OpenMP programming. Attendees will leave with a working knowledge of how to write scalable codes using OpenMP.

Unix Basics - Text Editing

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-12-02
Description: NICS

Prerequisites: Unix

This course gives an overview of Unix Basics - Text Editing

Using Scientific Libraries

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-12-02
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Using Scientific Libraries

Visualization on HPC

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-12-02
Description: NICS

Prerequisites: Unix

This course gives an overview of Visualization on HPC resources

What are XSEDE Science Gateways

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-12-02
Description: NICS

This course gives an overview of What are XSEDE Science Gateways

Simple Stormwater Runoff Model for Geosciences Education

Submitter: Yuan Zhang
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-11-18
Description: This web application is designed to support education in stormwater runoff by providing a straightforward interface and simple model. Users will enter information about a watershed, land use within the watershed, and a precipitation event. The web application will output a hydrograph showing the volume of water flowing out of the drainage over time. Users can select from various units of measure and the output display. The model is based on the NRCS curve number and unit hydrograph approach.

Land Use Change: Hellbranch Run

Submitter: Yuan Zhang
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-11-18
Description: This exercise will use a hydrologic model to project the impacts of land use change on stormwater runoff, flooding, and water quality on the Hellbranch Run watershed.

Programming with OpenACC

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Programming with OpenACC

Review of GPU Programming Methods

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro GPUs

This course gives an overview of Review of GPU Programming Methods

Review on Advanced Compiler Options

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Prerequisites: Unix, Programming

This course gives an overview of Review on Advanced Compiler Options

Supercomputing today, why its important for you?

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Supercomputing today, why its important for you?

The Art of File Transfers

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Prerequisites: Unix

This course gives an overview of The Art of File Transfers

Tools for Profiling your code

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Prerequisites: Unix, Parallel Programming, Debugging

This course gives an overview of Tools for Profiling your code

Two case studies of CUDA programming and optimization

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro GPUs, CUDA

This course gives an overview of Two case studies of CUDA programming and optimization

Unix Basics - Command line tools

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

This course gives an overview of Unix Basics - Command line tools

Unix basics - File Permissions

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-11-03
Description: NICS

This course gives an overview of Unix basics - File Permissions

Regional Workshop at Southern University New Orleans

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-10-24
Description: Materials from the regional workshop at Southern University New Orleans, October 23-24, 2015

Intro to the C language Part 1

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix

This course gives an overview of Intro to the C language: Basics

Intro to the Cray XC30 platform

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Intro to the Cray XC30 platform

Intro to Unix/Linux

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

This course gives an overview of Intro to Unix/Linux

Introduction to Linux Shell Programming pt 1

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix

This course gives an overview of Introduction to Linux Shell Programming: Basics

Introduction to the Intel MIC Architecture

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Introduction to the Intel MIC Architecture

New User: I have an account, now what?

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

This course helps the new user in XSEDE get up to speed with the benefits and rules inherent in the organization.

OpenMP - Advanced Features

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro OpenMP

This course gives an overview of OpenMP - Advanced Features

OpenMP - Introduction

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of OpenMP - Introduction

Optimization Techniques on MICS

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro to MICS

This course gives an overview of Optimization Techniques on MICS

Overview on UT/XSEDE and DOE/OLCF HPC resources

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Overview on UT/XSEDE and DOE/OLCF HPC resources

Parallel I/O Strategies Part 1 (Strategies)

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Parallel I/O Strategies

Intro to the C language Part 2

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix

This course gives an overview of Intro to the C language: Intermediate

Introduction to Linux Shell Programming pt 2

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix

This course gives an overview of Introduction to Linux Shell Programming: Intermediate

Parallel I/O Strategies Part 2 (I/O libraries)

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-10-07
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Parallel I/O libraries

Intro to Parallel Programming techniques

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-30
Description: NICS

Prerequisites: Unix, Programming

This course gives an overview of Intro to Parallel Programming techniques

Intro to MPI Part 2

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-30
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Intro to MPI: Intermediate

Intro to HPC and Supercomputing

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-29
Description: NICS

This course gives an overview of Intro to HPC and Supercomputing

Intro to MPI Part 1

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-29
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Intro to MPI:Basics

Intro to Fortran Language Part 1

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-28
Description: NICS

Prerequisites: Unix

This course gives an overview of Intro to Fortran Language

Intro to Fortran Language Part 2

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-28
Description: NICS

Prerequisites: Unix

This course gives an overview of Intro to Fortran Language: Intermediate

Intel Xeon Phi Programming on Beacon and Stampede

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-25
Description: This course gives an overview of Intel Xeon Phi Programming, the architecture, how to use hybrid MPI/OpenMP parallelism, and vectorization

Intel Xeon Phi Training 20140519

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-25
Description: This course gives an overview of Intel Xeon Phi Programming.

Intel MIC Programming as Accelerator

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-24
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro to MICS

This course gives an overview of Intel MIC Programming as Accelerator

Intel MIC Programming as CPU

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-24
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro to MICS

This course gives an overview of Intel MIC Programming as CPU

HPC for Life Sciences

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-22
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of HPC for Life Sciences

HPC in Engineering

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-22
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of HPC in Engineering

How to compile and build programs

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-21
Description: NICS

Prerequisites: Unix

This course gives an overview of How to compile and build programs

How to get time on a Supercomputer via the XSEDE and INCITE programs

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-21
Description: NICS

This course gives an overview of How to get time on a Supercomputer via the XSEDE and INCITE programs

How to run your Program on an HPC resource

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-09-21
Description: NICS

Prerequisites: Unix, Programming

This course gives an overview of How to run your Program on an HPC resource

Presentation at Bethune-Cookman University

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-09-21
Description: Presentation of Preparing the Future Workforce for Careers in Science and Engineering at Bethune-Cookman University, September 21, 2015

Campus visit to North Carolina A&T

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2015-09-04
Description: Visit to North Carolina A&T on September 4, 2015

How to effectively use the archiving system HPSS

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-08-24
Description: NICS

Prerequisites: Unix

This course gives an overview of How to effectively use the archiving system HPSS

From Equation to Code pt 1 & 2

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-08-21
Description: NICS

Prerequisites; Unix, Parallel Programming

From Equation to Code: This workshop helps programmers bring their science to a computational environment through numerical analysis techniques.

GPU Technology and CUDA Programming

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-08-21
Description: NICS

Prerequisites: Unix, Parallel Programming


This course gives an overview of GPU Technology and CUDA Programming

XSEDE Outreach Vanderbilt University

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-06-12
Description: Outreach meeting at Vanderbilt University June 10-11, 2015

Morgan State TIDES Faculty Professional Development Workshop

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-05-21
Description: XSEDE materials for Morgan State Workshop May 20-21, 2015

Kean University Computational Science Curriculum Meeting

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-05-05
Description: Meeting at Kean University on May 5, 2015

Jackson State University Campus Visit

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-04-15
Description: XSEDE Campus visit to Jackson State University

San Francisco State Workshop

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-04-03
Description: Workshop at San Francisco State April 2-3, 2015

Morgan State University Outreach Meeting

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-02-24
Description: Meeting to introduce XSEDE Services at Morgan State University, February 24, 2015

Doing Linear Algebra in Parallel

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2015-02-18
Description: NICS

Prerequisites: Unix, Parallel Programming, Intro Scientific Libraries

This course gives an overview of Doing Linear Algebra in Parallel

University of Puerto Rico Workshops January 2015

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2015-02-02
Description: Workshop materials for workshops on January 26 and 29, 2015 at University of Puerto Rico Rio Piedras and Mayaguez

Computational Chemistry - A quick Overview

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-12-04
Description: NICS

Prerequisites: Unix, Parallel Programming

Computational Chemistry Overview

Computational Physics - A quick Overview

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-12-04
Description: NICS Computational Physics Overview

Debugging Programs with DDT and TotalView

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-12-04
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Debugging Programs with DDT and TotalView

Parallel Computing Explained

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-04
Description: This tutorial provides an introduction to parallel computing. Topics covered include how to parallelize code, porting issues, scalar tuning, parallel code tuning, timing and profiling, cache tuning, and parallel performance analysis.

Parallel Numerical Libraries

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-04
Description: This tutorial provides an introduction to using parallel numerical library routines. Each lesson covers a specific mathematical area and describes the appropriate library routines to use.

Performance Tuning for Clusters

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-04
Description: This course introduces techniques for optimizing code performance on a cluster. You will learn how to measure your program\'s performance, what bottlenecks to look for, and techniques to eliminate or reduce these bottlenecks.

Introduction to MPI (CI-Tutor)

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-03
Description: This tutorial provides a comprehensive introduction to using the Message Passing Interface (MPI). MPI is a a standard library of subroutines (Fortran) or function calls (C) used to implement the message-passing parallel programming model. MPI allows for the coordination of a program running as multiple processes in a distributed memory environment, yet is also flexible enough to be used in a shared memory system. The standardization of the MPI library enables source code portability and efficient implementations across a range of architectures.

Multilevel Parallel Programming

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-03
Description: This tutorial provides a brief introduction to Distributed Shared Memory Architectures, a review of the features of both MPI and OpenMP, and describes how to develop multilevel parallel programs using MPI and OpenMP.

BigSim: Simulating PetaFLOPS Supercomputers

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-02
Description: BigSim is a software infrastructure for whole-system simulation of a large parallel machine. It is designed to support early application development and identification of performance bottlenecks on a target machine that does not yet exist or has limited access. BigSim makes it easy to experiment with different parallelization strategies, so you can use it to develop, debug and tune, scale, and predict performance of your application prior to getting access to your target parallel machine. You can conduct simulations at varying levels of fidelity for both the computation and communication aspects in your application.

Debugging Serial and Parallel Codes

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-02
Description: This course introduces you to techniques for debugging serial and parallel codes using debugger software. After completing the course you will be able to recognize a variety of bugs you might make and how to debug them using debugger software.

Intermediate MPI

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-02
Description: This tutorial covers intermediate-level topics in MPI derived from questions asked by students during face-to-face introductory MPI training courses. These topics are just beyond the difficulty level of an introductory course. Each topic addresses why you might want to use a particular technique, discusses the MPI routines used, and provides sample codes to demonstrate the technique.

MIC Native Execution and Optimization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-12-01
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Using Databases

Submitter: Yuan Zhang
Submitter's Institution: OSC
Submission Date: 2014-12-01
Description: In this module we will discuss relational databases, the most common type of database and what you are most likely to find available at a XSEDE site or your own IT department. This class includes Oracle, MySQL, and Microsoft SQL Server as well as developmental databases that you can install and run on your own desktop/laptop such as SQLite and SmallSQL.

Introduction to TACC\'s Visualization Laboratory

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-21
Description: TACC

The ACES Visualization Laboratory (\\\"Vislab\\\"), located in ACES 2.404a, has been refurbished and upgraded, and is now open to all UT faculty, students, and staff, as well as UT System and XSEDE users. In order to activate your account on systems in the Vislab, a training session is required. Previous Vislab users (before renovation) are also required to attend the training as we have a completely different set of equipment. All Vislab training is held in the lab itself.

Introduction to MPI

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-20
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing

This course delves into topics in advanced Message Passing, with information about how haradware affects MPI decisions.

Introduction to Programming with OpenMP

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-20
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing

This course, designed for the programmer with little or no experience with parallel computing or supercomputers, will present an introduction to the concepts of parallel programming, and specifically the use of OpenMP for C and Fortran programmers.  This course introduces basic OpenMP concepts and foundational programming techniques.

Introduction to Parallel I/O using MPI & HDF5

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-20
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallle Computing, MPI

When running massively large scale jobs, I/O can be a serious bottleneck. The use of tools like MPI_IO can help users have more flexibility in using parallel file systems and creating restart files.

Overview and Introduction to Scientific Visualization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-19
Description: TACC

Prerequisites: Linux, Parallel Computing

The use of Paraview is introduced in this training, with a great many examples.

Serial and Vector Optimization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-17
Description: TACC

Prerequisites: Linux, C/Fortran, Code analysis

What is old is new again…Vectors are back! Learn about adding vectorization into serial programs to get the most out of the CPU.

Writing a Successful XSEDE Allocation

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-17
Description: TACC

Writing a successful XSEDE allocation important to you? This is your starting point to write the best proposal you can!

Understanding the MPI framework on Darter

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-11-03
Description: NICS

Prerequisites: Unix, Parallel Programming

This course gives an overview of Understanding the MPI framework on Darter

Introduction to Intel Xeon Phi Coprocessors pt 2

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-11-03
Description: NICS

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

This course gives an overview of Introduction to Intel Xeon Phi Coprocessors: Intermediate

Scientific Writing

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-11-03
Description: NICS

This course covers topics on scientific writing, plagiarism, publishing, and clarity of style.

Bioinformatics Summer Institute

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2014-11-03
Description: PSC

This two-week intensive training workshop for students, faculty, and researchers at minority serving institutions provides a robust background in bioinformatics suitable for teaching and research. The first week of training focuses on the analysis of gene and protein families. The second week focuses on assembling and analyzing data from next-generation sequencers.

XSEDE HPC Monthly Training - Summer Bootcamp

Submitter: William McGrath
Submitter's Institution: PSC
Submission Date: 2014-11-03
Description: PSC

Prerequisites: Unix, Either C or Fortran

This 4 day event will include MPI, OpenMP, OpenACC and accelerators.  It will have a hands-on component.  We will conclude with a special hybrid exercise contest that will challenge the students to apply their skills over the following 3 weeks.

2-Day GPU Computing Event

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2014-11-03
Description: SDSC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

This course will help users learn to harness the power of Graphics Processing Units.

Data Mining Boot Camp

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2014-11-03
Description: SDSC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

Ride the wave of big data as we discuss the art and science of data mining.

Programming Techniques with MATLAB

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2014-11-03
Description: SDSC

The mathematical modeling programming language of MATLAB is covered in this course, as well as the toolkit that comes with Matlab for plotting, etc.

Summer Institute

Submitter: William McGrath
Submitter's Institution: SDSC
Submission Date: 2014-11-03
Description: SDSC

This summer institute covers a plethora of HPC topics over the course of one week.

Data Analysis Using Parallel R

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environemnt, Introduction to R, Intro to Sci Vis

Using the high level language, R, in parallel can significantly speed up data analysis

Defensive Programming

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran

Modern scientific programming is fraught with potential peril. Even simple programs routinely perform trillions of operations, making it impossible to check the calculations by hand. This talk provides tips, techniques, and tools for scientists and engineers to help them survive. Topics to be discussed are: effective tools for creating software; unit and system testing; designing with testing in mind; DRY: do not repeat yourself; language specific defenses; and out of bounds errors. Having introduced system testing in the first talk in this series, this talk will explain how system testing is used in developing scientific software. Dr. McLay will show how testing is important, reduces development time, and extends the use and lifetime of a project. Actual experiences with system testing will be presented. During hands-on lab sessions, \"TM\", a software testing tool will be introduced, and Dr. McLay will work with attendees to apply it to their projects. Either Part 1 or Part 2 can be taken independent of the other.

High Performance Computing for NextGen Sequence Analysis

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

This one–day workshop is intended to introduce life scientists to high performance computing at the Texas Advanced Computing Center (TACC) with a specific emphasis on NextGen Sequence analysis. Attendees will learn how to utilize an array of computational and software resources that TACC offers for Computational Biology. Topics to be covered include large-scale computing, data management, loading and running applications. An introduction to general sequence analysis concepts along with specific, real-world examples will also be provided. A hands-on lab session will give attendees an opportunity to work with TACC systems on NextGen sequence data sets. The class is intended for biologists and advanced programming skills are not required. However, a working knowledge of Unix is expected.

Introduction to High Performance Computing for Life Scientists

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

This one-day workshop is intended to introduce life scientists to high performance computing at TACC. Attendees will learn how to utilize the vast array of resources that TACC offers for Computational Biology. Topics to be covered include computing, storage and visualization systems, life science software, basic Unix and compiling methods. A hands-on lab session will provide an opportunity to work with TACC systems directly. The class is intended for high performance computing \"novices\" and advanced computing skills are NOT required. A working knowledge of Unix is helpful but not necessary.

Introduction to HPC

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran

This course provides an introduction to high performance computing and it\'s many facets: resources, scripting, etc.

Introduction to Intel Xeon Phi Coprocessors pt 1

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Introduction to MIC architecture

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Introduction to Parallel Computing with OpenMP

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran

This course, designed for the programmer with little or no experience with parallel computing or supercomputers, will present an introduction to the concepts of parallel programming, and specifically the use of OpenMP for C and Fortran programmers.  This course introduces basic OpenMP concepts and foundational programming techniques.

Introduction to R

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, HPC Cluster Programming Environment

Using the high level language, R, in parallel can significantly speed up data analysis

Introduction to Scientific Visualization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux

In this one-day class, users will learn about the scientific visualization and data analysis resources available at TACC, including remote visualization on Ranger and Spur, and large-scale visualization on Stallion and Bronco. A significant portion of the class will involve hands-on interaction with the systems, and users are encouraged to bring data for use in the class (sample data will be provided as well).

Introduction to Stampede as a Flexible Data Engine

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran/Python, HPC Cluster Programming Environement

This one day workshop will introduce participants to the four data intensive computing modes Stampede is designed to provide: 1) high throughput data processing, 2) parallel data analysis, 3) large shared memory applications, and 4) large-scale visualization.  The material will focus on using the job launchers, parallel R, and visualization tools available on Stampede. The workshop will use a mixture of lecture and hands-on training to explore how users can use Stampede for their data driven computing needs.

Linux Basics for HPC

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

This foundational class provides beginner and intermediate users with basic Linux/Unix command line environment experience. The lecture will emphasize common strategies used for interacting with clusters and HPC resources. A student guide with suggested supplemental reading and a Linux/Unix command line environment practice lab, as well as a Command Reference Guide (with interactive system and batch commands) are included. No prerequisite.

Linux HPC Cluster Programming Environments

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran

A discussion of different HPC programming environments on different resources is discussed.

Memory Intensive Computing

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

Memory intensive computing is discussed in detail.

MIC Offload Execution

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

MIC Symmetric Execution

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The Innovative Technology component of the XSEDE Stampede supercomputer at TACC provides access to 8 PetaFlops of computing power in the form of the new Intel Xeon Phi Coprocessor, also known as MIC. This workshop is designed to introduce Stampede users to the MIC architecture in a practical manner. Multiple lectures and hands-on exercises will be used to get the user acquainted with the MIC platform and explore the different execution modes as well as parallelization and optimization through example testing and reports.  The workshop will be divided in four sections: Introduction to the MIC architecture; native execution and optimization; offload execution; and symmetric execution. In each section the users will spend half the time doing guided hands-on exercises.

Parallel Computing on Stampede

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran

Parallel Computing on Stampede covers the architecture, user environment and proper use of Stampede.  This class should be of particular interest to computational scientists interested in developing and porting codes for this system.

Parallel Optimization for HPC

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallle Computing, MPI

The use of profiling tools such as Tau, mpiP, and IPM is discussed.

PerfExpert: Simple Program Optimization

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, Code analysis

This one-day workshop will introduce and apply PerfExpert, a performance optimization tool that is truly simple to use.  PerfExpert requires no expertise in performance assessment, and the measurement and analysis process works directly on the production program without annotations or modifications.  The goal is that at the end of the workshop, each participant will leave with a version of her/his favorite application that is optimized for execution on Stampede and the ability to apply PerfExpert independently to other programs.  The morning session will give examples of applying PerfExpert to several different types of applications.  The afternoon session will be a laboratory where the PerfExpert development team will work with each workshop participant to optimize an application code of her/his choice.

Profiling and Debugging Serial and Parallel Programs

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, Code analysis

The course covers profiling and debugging technologies available at TACC for performance optimization and debugging of serial and parallel codes. The course contains instructions for beginners and advanced users, along with a lab with demos and examples.

Profiling and Optimization of Parallel Programs

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, Code analysis

This course will cover the basic skills required to undertake detailed performance analysis of MPI applications. The training will use standard packages available including IPM and PerfExpert to derive floating point, memory subsystem and MPI application performance metrics.  The course will include instructions on general optimization strategies.  Instructors will present the instrumentation steps for an example application.

Profiling with TAU, mpiP, & IPM

Submitter: William McGrath
Submitter's Institution: TACC
Submission Date: 2014-11-03
Description: TACC

Prerequisites: Linux, C/Fortran, HPC Cluster Programming Environment, Parallel Computing, MPI, OpenMP

The use of profiling tools such as Tau, mpiP, and IPM is discussed.

Applications of Parallel Computing (Jim Demmel\\\'s 24 lectures)

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-31
Description: Cornell Virtual Workshop

Prerequisites: C programming or similar

This set of lectures is an online rendition of Applications of Parallel Computers taught by Jim Demmel at U.C. Berkeley in Spring 2012. This online course is sponsored by the Extreme Science and Engineering Discovery Environment (XSEDE), and is only available through the XSEDE User Portal.

Scientific Computing at NICS

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-10-31
Description: NICS

This course gives an overview of Scientific Computing at NICS

Introduction to Python (under revision)

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Python is a programming language designed with ease of programming and readable code as its foremost goals. Python has risen to prominence in scientific computing as the ideal tool for doing data conversions, scripting parameter studies, and in facilitating the scientific workflow. In this online course, a quick overview of the language is presented, along with a few tricks to maximize the utility of Python for engineering and science modeling.

Large Data Visualization

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

This module gives an introduction to some concepts of visualization with a focus on the parallel computing techniques used to handle large datasets.

MapReduce

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

This module describes the basic MapReduce paradigm, the Hadoop MapReduce framework, and techniques for running MapReduce frameworks on HPC resources such as Longhorn at TACC.

MATLAB Programming

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

MATLAB provides matrix manipulation, plotting, and general purpose scientific programming capability, as well as functionality through specialized \"toolboxes\" such as the Optimization toolbox, the Statistics toolbox, the Signal Processing toolbox, the Image Processing Toolbox, etc.

MIC

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: Parallel, batch, computer architecture

The Xeon Phi coprocessor is a system on a PCIe card designed to provide high levels of floating point performance for highly parallel HPC code. Its architecture is known as Many Integrated Core (MIC). This module describes the MIC architecture behind the Xeon Phi, its performance characteristics, how and when to run code on the coprocessors available within Stampede in order to best take advantage of the resources available.

MPI - Message Passing Interface

Submitter: William McGrath
Submitter's Institution: Cornel
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: C or Fortran programming

MPI is a de facto standard specifying the interface and functionality of a message-passing library, a collection of routines for facilitating communication (exchange of data and synchronization) among the tasks in a distributed memory parallel program. MPI is the first standard and portable message passing library that offers good performance.

MPI Advanced Topics

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: MPI Basics, C, Fortran

This module will introduce you to some of the advanced capabilities of MPI beyond ordinary message passing, including how to customize your environment in the following areas: derived datatypes; groups of processes and their associated communicators; virtual topologies among processes; and parallel I/O using MPI-IO. Application to specific architectures such as Stampede will be discussed.

MPI Collective Communications

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: MPI Basics, C, Fortran

The purpose of collective communication is to manipulate a shared piece or set of information. In this module, we introduce these routines in three categories: synchronization, data movement, and global computation.

MPI One-Sided Communication

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: MPI Basics, C, Fortran

One-sided communication provides natural access to Remote Memory Access (RMA) functionality that is provided by low-latency interconnect fabrics such as InfiniBand. In this module, we will introduce the various components of MPI RMA and how to use them.

MPI Point-to-Point Communication

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: MPI Basics, C, Fortran

This module details and differentiates the various types of point-to-point communication available in MPI. Point-to-point communication involves transmission of a message between a pair of processes, as opposed to collective communication, which involves a group of processes.

OpenMP

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: Parallel programming

In the shared-memory, heterogeneous environment that Stampede has on each node, it is much easier to introduce parallelism into your code with OpenMP than to do pthread programming from scratch or to use MPI. This module introduces OpenMP and describes how to use it.

Optimization and Scalability Series, Part 1, Planning for Parallel

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

This set of three modules describes how to analyze and optimize the performance of an application on Stampede. It covers multiple scales, from collective MPI communication on thousands of nodes, down to individual threads on the AMD Barcelona processors.

Parallel I/O

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: mPI Basics, C, Fortran

This module presents basic concepts and techniques that will allow your application to take advantage of parallel I/O to increase throughput and improve scalability. Emphasis is placed on the Lustre parallel file system, and on MPI-IO as a fundamental API.

Parallel Programming Concepts and High-Performance Computing

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Concepts concerning parallel processing and its efficient realization within different hardware and software environments.

ParaView

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: Software requirements

ParaView is a visualization application highly capable for computational fluid dynamics and other subjects. It is open source and can run in parallel on Stampede. This module includes a lab which covers visualization of a sample dataset both on a local computer and on TACC resources.

PerfExpert

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: Profiling, C

PerfExpert is an easy to use profiling tool developed at TACC. This module shows how to use PerfExpert to obtain a concise assessment of a program\'s utilization of CPU resources by providing statistics on cache hits and misses, mis-predicted branches, FPU instructions, and more. In addition, PerfExpert is able to provide specific recommendations to improve an application\'s performance based upon its assessment.

Profiling and Debugging

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: Linux

This module describes how to obtain detailed performance data for jobs on Stampede. It also discusses tools and techniques for online parallel application debugging.

Python for High Performance

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

While Python is a scripting language, it has plenty of facilities for high performance computing. This article covers some of its features and libraries that are particularly helpful when moving scientific code to a large cluster resource. It also includes specific recipes for compilation and execution on the TACC clusters.

Use Cases

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

This module captures Felix Bachmann\'s presentation at XSEDE12 on Use Cases and Quality Attribute Scenarios.

Vectorization

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: Batch Submission, C, Fortran

Vectorization is a process by which mathematical operations found in tight loops in scientific code are executed in parallel on special vector hardware found in CPUs and coprocessors. This module describes the vectorization process as it relates to computing hardware, compilers, and coding practices.

VisIt

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: ssh, shell, software

VisIt is a visualization application highly capable for computational fluid dynamics and other subjects. It is open source and can run in parallel on Stampede. This module includes a lab which covers visualization of a sample dataset both on a local computer and on TACC resources. VisIt is a free visualization application that runs on Windows and Linux, as well as TACC\'s Stampede. This module will walk through logging into Stampede and running a sample visualization.

Engineering Parallel Software

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-29
Description: Cornell Virtual Workshop

Prerequisites: C programming or similar

This set of lectures is an online rendition of Applications of Parallel Computers taught by Jim Demmel at U.C. Berkeley in Spring 2012. This online course is sponsored by the Extreme Science and Engineering Discovery Environment (XSEDE), and is only available through the XSEDE User Portal.

Introduction to Multi-core Performance

Submitter: William McGrath
Submitter's Institution: NCSA
Submission Date: 2014-10-29
Description: NCSA - CI Tutor

Prerequisites: Basic knowledge of running HPC applications

This tutorial introduces the general concepts of multi-core systems and the methods used to improve the performance of HPC applications on them.

Introduction to Visualization

Submitter: William McGrath
Submitter's Institution: NCSA
Submission Date: 2014-10-29
Description: NCSA - CI Tutor

The field of scientific visualization is broad and requires technical knowledge and an understanding of many communication issues. This online tutorial provides information about its evolution, its uses in computational science, and the creative process involved.

Tuning Applications for High Performance Networks

Submitter: William McGrath
Submitter's Institution: NCSA
Submission Date: 2014-10-29
Description: NCSA - CI Tutor

This tutorial covers the basics of getting a TCP or UDP based application to work well on high-performance networks.

Using the Lustre Files System

Submitter: William McGrath
Submitter's Institution: NCSA
Submission Date: 2014-10-29
Description: NCSA - CI Tutor

Prerequisites: Parallel programming

Lustre is an object-based, parallel distributed file system that enables scaling to a large number of nodes (tens of thousands), petabytes (PB) of storage, and high aggregate throughput (hundreds of gigabytes per second). This tutorial describes how to use Lustre to achieve optimal I/O performance in a parallel programming application.

XSEDE: Customizing Your Computing Environment

Submitter: William McGrath
Submitter's Institution: NCSA
Submission Date: 2014-10-29
Description: NCSA - CI Tutor

Prerequisites: Unix

This tutorial covers how to customize your XSEDE environment to meet your specific usage and application development needs. Learn how to display your environment settings and customize your computing environment using UNIX commands and the Modules package.

XSEDE Cybersecurity

Submitter: William McGrath
Submitter's Institution: NCSA
Submission Date: 2014-10-29
Description: NCSA - CI Tutor

As an XSEDE user, it is important that you know how to manage your account in a manner that protects the security of XSEDE resources. In this lesson you will learn about your role in security, the main types of security threats and risks, the security measures you can take to safeguard your XSEDE account, and the actions you should take if you suspect that your account or computer system has been compromised.

An overview of Fortran 2003 and 2008

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-10-29
Description: NICS

Prerequisites: Unix, Intro to Fortran, Parallel Programming

This course gives an overview of Fortran 2003 and 2008

Art and Science of using Python in HPC

Submitter: William McGrath
Submitter's Institution: NICS
Submission Date: 2014-10-29
Description: NICS

Prerequisites: Unix, Intro Scientific Libraries

This course gives an overview of Using Python in HPC

Advanced SLURM

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

Prerequisites: Linux, OpenMP, MPI

SLURM (Simple Linux Utility for Resource Management) is a group of utilities used for managing workloads on compute clusters. On Stampede, all jobs executed on the compute nodes are managed by SLURM. This module is for users who are already familiar with the process of submitting jobs via SLURM, but whose needs go beyond submitting simple batch files or interactive jobs.

Balancing Scripts and Compiled Code in Scientific Applications

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

This module works through examples of scientific application code written in a mix of scripting languages and C++ or Fortran code in order to evaluate where, within an application, scripting is a good choice.

Data Transfer

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

There are a number of utilities available to accomplish the essential task of transferring data and/or code between the file system on your workstation and a larger computing resource. The one you choose depends on the size and number of files to be transferred as well as the ease of invoking the utility, and the ability to use a script. This module presents the various options and the pros and cons of each of them as well as ways to make these transfers faster.

Computational Steering

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

This module provides an introduction to what computational steering is, the potential benefits from using it, and examples on how you can integrate steering into your existing application.

Hybrid Programming with OpenMP and MPI

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

Prerequisites: MPI, OpenMP, Linux shell

In hybrid programming, the goal is to combine techniques from OpenMP and MPI to create a high-performance parallel code that is better tailored for the non-uniform and heterogeneous memory access characteristics of Stampede. To meet this goal, it is necessary to understand the effects of processor affinity and memory allocation policy, and to exert some control over them.

Introduction to C Programming

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

This module is for the beginning programmer who wants to learn the effective use of the C language. If you have never programmed before you can also use this document to learn the basic concepts of programming; however, you may want to have other references to guide you.

Introduction to Fortran Programming

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

This module is for the beginning programmer who is interested in learning the effective use of the Fortran language. If you have never programmed before you can also use this document to learn the basic concepts of programming; however, you may want to have other references to guide you.

Introduction to GPGPU and CUDA Programming

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

Prerequistes: C and Parallel programming

This module briefly covers general GPU topics such as hardware architecture and application speedup, followed by an introductory section of CUDA programming and performance optimization topics.

Introduction to Linux

Submitter: William McGrath
Submitter's Institution: Cornell
Submission Date: 2014-10-27
Description: Cornell Virtual Workshop

This tutorial is for the beginning Linux user, intended to get the user acquainted with some of the basic principals of the Linux operating system.

Baltimore Outreach Event

Submitter: Steven Gordon
Submitter's Institution: OSC
Submission Date: 2014-09-11
Description: Meeting at Johns Hopkins University to provide an overview of XSEDE September 11, 2014

Minneapolis Outreach Meeting

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2014-06-12
Description: Outreach meeting at the University of Minnesota, June 12, 2014

Clark Atlanta - Spelman College Regional Workshop

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2014-05-20
Description: Regional workshop at the Atlanta University Center

California State University Regional Workshop

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2014-04-10
Description: Overview of XSEDE held at California State University San Bernardino, April 3 and 4, 2014

Advanced MPI: MPI Tuning or How to Save SUs by Optimizing your MPI Library!

Submitter: John Lockman
Submitter's Institution: Texas Advanced Computing Center
Submission Date: 2014-04-09
Description: With the diversity of platforms, it is impossible for MPI libraries to automatically provide the best performance for all existing applications. Through this tutorial, attendees will discover that MPI libraries are not black boxes and contain several options allowing the user to enhance MPI applications. From basic (Process Mapping, Collective Tuning...) to advanced features (Multicast, Unreliable Datagram, Kernel-assisted Approaches), this tutorial will cover a large spectrum of possibilities offered by MPI libraries to improve the performance of parallel applications on both TACC systems and other clusters.

Arizona State Regional Workshop

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2014-04-02
Description: Overview of XSEDE resources and services held at Arizona State University March 31 - April 1 2014

Houston Outreach Event

Submitter: Steven Gordon
Submitter's Institution: Ohio Supercomputer Center
Submission Date: 2014-03-28
Description: Overview of XSEDE resources and services presented at an outreach event at Rice University on March 6, 2014

Introduction to Xeon Phi on Stampede

Submitter: Dr. Steve Gordon, OSU
Submitter's Institution:
Submission Date: 2014-02-09
Description: TACC Training Course

Introduction to Xeon Phi on Stampede

Submitter: John Lockman
Submitter's Institution:
Submission Date: 2014-01-16
Description: This one-day workshop is intended to introduce life scientists to high performance computing at TACC. Attendees will learn how to utilize the vast array of resources that TACC offers for Computational Biology. Topics to be covered include computing, storage and visualization systems, life science software, basic Unix and compiling methods. A hands-on lab session will provide an opportunity to work with TACC systems directly. The class is intended for high performance computing \"novices\" and advanced computing skills are NOT required. A working knowledge of Unix is helpful but not necessary.

Introduction to Xeon Phi on Stampede

Submitter: John Lockman III, Advanced Scien
Submitter's Institution:
Submission Date: 2014-01-16
Description: This is an introductory workshop on Xeon Phi. What is Xeon Phi. Intel Many Integrated Core Architecture or Intel MIC is a multiprocessor computer architecture developed by Intel incorporating earlier work on the Larrabee many core architecture, the Teraflops Research Chip multicore chip research project, and the Intel Single-chip Cloud Computer multicore microprocessor..\r\n

Puerto Rico Outreach Meeting Materials

Submitter: Josh Cassidy
Submitter's Institution:
Submission Date: 2014-01-08
Description: Materials from the December 12-13, 2013 Puerto Rico Outreach Meeting.