Our Workshop Series is sponsored by Research Technology, Digital Design Studio (DDS), Tisch Library, Ginn Library and Hirsh Health Sciences Library. There are a variety of short workshops including Geospatial Technologies, Statistics, Data Analysis and Management, Data Visualization, Design, and Digital Humanities. The workshops are offered on the Medford, Boston and Grafton campuses and all are welcome!
See below for dates/times, workshop descriptions, and registration information.
An Intro to LabArchives Digital Research Notebook Workshop
Ideal for replacement of paper notebooks, a LabArchives Digital Notebook can be used to document ideas, notes, research, experiments, and procedures. They are designed for intuitive use, ease of search, copying and versioning. They support collaboration with many users and includes access controls. In this workshop you will be provided an overview of the LabArchives Digital Research Notebooks. For new users that need help with the basics or current users that need a refresher on how to create notebooks, add and manage your data, notebook access controls, collaboration tools, and export options. We will go over the feature tools and show you the benefits of moving from a paper to a Digital Notebook.
SIGN-UP at https://labarchives.zoom.us/webinar/register/WN_ogTEV14xRfm8DCiGrWA3Kg
ATTENTION: Please request access to Tufts LabArchives (https://access.tufts.edu/labarchives) 24 hours or more before workshop.
Dates: Thursdays at 10AM-11AM from 04/04/2021 to 12/09/2021
Location: Online via Zoom
Instructor: LabArchives Instructor
XSEDE HPC Workshop: MPI
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two-day MPI workshop.
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.
This workshop will be remote to desktop only due to the COVID-19 pandemic. When the registration has filled, there will be no more students added due to our current limits. Please do not ask to be added to the workshop after the registration period has ended.
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
Please address any general workshop questions to Tom Maiden at tmaiden@psc.edu.
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2336/session/3999
Date: 2-Days, TUE-WED, 05/04/2021 to 05/05/2021 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede?p_p_id=58&p_p_lifecycle=0&p_p_state=maximized&p_p_mode=view&_58_struts_action=%2Flogin%2Fcreate_account
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
AGENDA ITEMS
Tuesday, May 4th (All times given are Eastern)
11:00 Welcome
11:15 Computing Environment
12:00 Intro to Parallel Computing
1:00 Lunch Break
2:00 Introduction to MPI
3:30 Introductory Exercises
4:10 Intro Exercises Review
4:15 Scalable Programming: Laplace code
5:00 Adjourn/Laplace Exercises
Wednesday, May 5th (All times given are Eastern)
11:00 Advanced MPI
1:00 Lunch Break
2:00 Laplace Review
2:30 Outro to Parallel Computing
3:15 Parallel Debugging and Profiling Tools
3:30 Exercises
4:30 Adjourn
XSEDE HPC Workshop: Big Data & Machine Learning
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two day Big Data and Machine Learning workshop. This workshop will focus on topics such as Hadoop and Spark and will be presented using the Wide Area Classroom (WAC) training platform. Due to COVID-19, this workshop will be remote, using Zoom.
AGENDA - Day 1
| 11:00 | Welcome |
| 11:25 | A Brief History of Big Data |
| 12:25 | Intro to Spark |
| 01:00 | Lunch break |
| 02:00 | More Spark and Exercises |
| 03:00 | Intro to Machine Learning |
| 05:00 | Adjourn |
AGENDA - Day 2
| 11:00 | Machine Learning: Recommender System with Spark |
| 01:00 | Lunch Break |
| 02:00 | Deep Learning with Tensorflow |
| 05:00 | Trying it All Together |
| 05:30 | Adjourn |
SIGN-UP: https://portal.xsede.org/course-calendar/-/training-user/class/2313/session/3973
Date: 2-Days, TUE-WED, 04/06/2021 to 04/07/2021 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
XSEDE HPC Workshop: GPU Programming Using OpenACC
XSEDE, along with the Pittsburgh Supercomputing Center is pleased to present an OpenACC GPU programming workshop.
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 using the Bridges-2 computing platform at the Pittsburgh Supercomputing Center.
Due to Covid-19, this workshop will delivered via zoom.
AGENDA
| 11:00 | Welcome |
| 11:15 | Computing Environment |
| 11:45 | Parallel Computing and Accelerators |
| 12:15 | Introduction to OpenACC |
| 1:00 | Lunch break |
| 2:00 | Introduction to OpenACC, con’t |
| 3:45 | Using OpenACC with CUDA Libraries |
| 4:00 | Advanced OpenACC |
| 4:30 | OpenMP 4.0 and Beyond |
| 5:00 | Final Notes and Adjourn |
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2307/session/3967
Date: 1-Day, TUE, 03/02/2021 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
LabArchives Love Data Week 2021
Celebrating Data, Improving Data Management, and Increasing Productivity through the LabArchives Research Notebook
What could be better than an entire week dedicated to celebrating data? National Doughnut Day and National Puppy Day are also close to our hearts, but a week commemorating data just cannot be beat!
Love Data Week is an international celebration of data that aims to promote good data practices, while building and engaging a community around topics related to research data management, sharing, preservation, and reuse. Join us for our weeklong series of events dedicated to helping you improve the organization of your data while taking steps towards better overall data management through the LabArchives Research Notebook.
Pick and choose the sessions that interest you or attend all the sessions for a comprehensive look at LabArchives and how you can improve your research data management regimen.
Please view our schedule below and register now! Each session will be capped at 100 attendees. Limited spots remain!
Introduction to LabArchives for Researchers (60 minutes)
For new users that need help with the basics or current users that need a refresher on how to create notebooks, add and manage your data, notebook access controls, collaboration tools, and export options.
This webinar is offered every week and available in multiple time zones! Choose your region and then select the session. Good news - You don’t have to wait for Love Data Week to attend!
North & South America Time Zones
Europe & Middle East Time Zones
Creating Templates to Standardize the Collection and Management of Data (30 minutes)
We recommend using templates in LabArchives to create a consistent entry format for documenting and tracking information. Once created, this form can be reused by all members of the notebook to provide consistency and a clear list of data requirements. Join this session to see examples of templates, how you can create your own, and reuse them.
Monday, February 8 10:00 a.m. EST / 3:00 p.m. GMT
Wednesday, February 10 3:00 p.m. EST / 12:00 p.m. PST
Register here for the session that works best with your schedule.
Best Practices and Tips for Establishing Your Notebook’s Structure (30 minutes)
The LabArchives Research Notebook begins as a blank slate that is meant to be flexible so that you can customize the structure to complement current workflows. Join this session for a closer look at how you can use our built-in layouts or set up a notebook using other popular structures including: project and grant-based, individual researcher-based notebooks, date-based, or team and company notebooks to manage shared materials for reference purposes.
Monday, February 8 3:00 p.m. EST / 12:00 p.m. PST
Tuesday, February 9 10:00 a.m. EST / 3:00 p.m. GMT
Register here for the session that works best with your schedule.
Open Office Hours and Drop-in Consults (60 minutes)
Bring your questions (big or small) to this session and meet directly with one of our team members. We will be available for quick screen shares for feature questions and demos, and to discuss best practices and tips that are most relevant to you. Drop-in any time during the hour to speak with us. Registration is required.
Not a good time for you? Remember that you can set up consults directly through our support team at support@labarchives.com.
Thursday, February 11 2:00 p.m. EST / 11:00 a.m. PST
XSEDE HPC Workshop: Big Data & Machine Learning
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two day Big Data and Machine Learning workshop. This workshop will focus on topics such as Hadoop and Spark. Due to COVID-19, this workshop will be remote, using Zoom.
AGENDA - Day 1
| 11:00 | Welcome |
| 11:25 | Intro to Big Data |
| 12:00 | Hadoop |
| 12:30 | Intro to Spark |
| 01:00 | Lunch break |
| 02:00 | Spark Continued |
| 03:00 | Intro to Machine Learning |
| 05:00 | Adjourn |
AGENDA - Day 2
| 11:00 | Machine Learning: Recommender System with Spark |
| 01:00 | Lunch Break |
| 02:00 | Deep Learning with Tensorflow |
| 05:00 | Adjourn |
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2300/session/3960
Date: 2-Days, TUE-WED, 02/02/2021 to 02/03/2021 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
XSEDE HPC Workshop: OpenMP
XSEDE, along with the Pittsburgh Supercomputing Center, are pleased to announce a one day OpenMP workshop. 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. This event will be presented using the Wide Area Classroom(WAC) training platform.
Due to COVID-19, this workshop will be remote, using Zoom.
AGENDA
| 11:00 | Welcome |
| 11:15 | Computing Environment |
| 11:30 | It’s a Multi-core World |
| 12:00 | Intro to OpenMP |
| 01:00 | Lunch break |
| 02:00 | Intro Cont. |
| 04:15 | OpenMP 4.0 and Beyond |
| 05:00 | Adjourn |
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2237/session/3899
Date: 1-Day, TUE, 01/12/2021 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
XSEDE HPC Workshop: Big Data & Machine Learning
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two day Big Data and Machine Learning workshop. This workshop will focus on topics such as Hadoop and Spark. Due to COVID-19, this workshop will be remote, using Zoom.
AGENDA - Day 1
| 11:00 | Welcome |
| 11:25 | Intro to Big Data |
| 12:00 | Hadoop |
| 12:30 | Intro to Spark |
| 01:00 | Lunch break |
| 02:00 | Spark Continued |
| 03:00 | Intro to Machine Learning |
| 05:00 | Adjourn |
AGENDA - Day 2
| 11:00 | Machine Learning: Recommender System with Spark |
| 01:00 | Lunch Break |
| 02:00 | Deep Learning with Tensorflow |
| 05:00 | Adjourn |
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2236/session/3897
Date: 2-Days, TUE-WED, 12/01/2020 to 12/02/2020 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
XSEDE HPC Workshop: OpenMP
XSEDE, along with the Pittsburgh Supercomputing Center, are pleased to announce a one day OpenMP workshop. 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. This event will be presented using the Wide Area Classroom(WAC) training platform.
Due to COVID-19, this workshop will be remote, using Zoom.
AGENDA
| 11:00 | Welcome |
| 11:15 | Computing Environment |
| 11:30 | It’s a Multi-core World |
| 12:00 | Intro to OpenMP |
| 01:00 | Lunch break |
| 02:00 | Intro Cont. |
| 04:15 | OpenMP 4.0 and Beyond |
| 05:00 | Adjourn |
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2168/session/3829
Date: 1-Day, TUE-WED, 11/03/2020 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
Intro to Tufts HPC Cluster
This workshop is a brief introduction of the structure of the Tufts HPC cluster, as well as the basic usage of its scheduler “SLURM”.
This is a hands-on workshop and an account on the HPC cluster is required**.
Basic Linux knowledge is required.
**REQUIRED** Workshops utilize the Tufts High Performance Computer Cluster. If you don’t already have access to Tufts HPC cluster, please go to https://research.uit.tufts.edu/ and fill out the “Request account for Research Computing Cluster” Form at least 2 days before the workshop.
Sign-up: https://tufts.libcal.com/event/7203614
Date: 1-Day, FRI, 10/23/2020 1:00PM - 3:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede#/guest
XSEDE HPC Workshop: Big Data & Machine Learning
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two day Big Data and Machine Learning workshop. This workshop will focus on topics such as Hadoop and Spark. Due to COVID-19, this workshop will be remote, using Zoom.
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2101/session/3729
Date: 2-Days, TUE-WED, 10/06/2020 to 10/07/2020 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede?p_p_id=58&p_p_lifecycle=0&p_p_state=maximized&p_p_mode=view&_58_struts_action=%2Flogin%2Fcreate_account
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
AGENDA ITEMS
Tuesday, October 6 (All times given are Eastern)
11:00 - Welcome
11:25 - Intro to Big Data
12:00 - Hadoop
12:30 - Intro to Spark
01:00 - Lunch Break
02:00 - Spark Continued
03:00 - Intro to Machine Learning
05:00 - Adjourn
Wednesday, October 7 (All times given are Eastern)
11:00 - Machine Learning: Recommender System with Spark
01:00 - Lunch Break
02:00 - Deep Learning with Tensorflow
05:00 – Adjourn
XSEDE HPC Workshop: MPI
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two-day MPI workshop.
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.
This workshop will be remote to desktop only due to the COVID-19 pandemic. When the registration has filled, there will be no more students added due to our current limits. Please do not ask to be added to the workshop after the registration period has ended.
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
Please address any general workshop questions to Tom Maiden at tmaiden@psc.edu.
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2072
Date: 2-Days, TUE-WED, 09/01/2020 to 09/02/2020 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede?p_p_id=58&p_p_lifecycle=0&p_p_state=maximized&p_p_mode=view&_58_struts_action=%2Flogin%2Fcreate_account
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
AGENDA ITEMS
Tuesday, September 1 (All times given are Eastern)
11:00 Welcome
11:15 Computing Environment
12:00 Intro to Parallel Computing
1:00 Lunch Break
2:00 Introduction to MPI
3:30 Introductory Exercises
4:10 Intro Exercises Review
4:15 Scalable Programming: Laplace code
5:00 Adjourn/Laplace Exercises
Wednesday, September 2 (All times given are Eastern)
11:00 Advanced MPI
1:00 Lunch Break
2:00 Laplace Review
2:30 Outro to Parallel Computing
3:15 Parallel Debugging and Profiling Tools
3:30 Exercises
4:30 Adjourn
XSEDE HPC Workshop: Big Data & Machine Learning
XSEDE along with the Pittsburgh Supercomputing Center is pleased to present a two day Big Data and Machine Learning workshop. This workshop will focus on topics such as Hadoop and Spark. Due to COVID-19, this workshop will be remote, using Zoom.
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2067
Date: 2-Days, TUE-WED, 10/06/2020 to 10/07/2020 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede?p_p_id=58&p_p_lifecycle=0&p_p_state=maximized&p_p_mode=view&_58_struts_action=%2Flogin%2Fcreate_account
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
AGENDA ITEMS
Tuesday, October 6 (All times given are Eastern)
11:00 - Welcome
11:25 - Intro to Big Data
12:00 - Hadoop
12:30 - Intro to Spark
01:00 - Lunch Break
02:00 - Spark Continued
03:00 - Intro to Machine Learning
05:00 - Adjourn
Wednesday, October 7 (All times given are Eastern)
11:00 - Machine Learning: Recommender System with Spark
01:00 - Lunch Break
02:00 - Deep Learning with Tensorflow
05:00 – Adjourn
XSEDE HPC Workshop: Summer Boot Camp
XSEDE, along with the Pittsburgh Supercomputing Center is pleased to present a Hybrid Computing workshop.
This 4 day event will include MPI, OpenMP, GPU programming using OpenACC and accelerators. This event will conclude with a special hybrid exercise contest that will challenge the students to apply their skills over the following 3 weeks and be awarded the Annual XSEDE Summer Boot Camp Championship Trophy. In addition, an XSEDE Badge will be available to those who complete the Challenge.
This workshop will be remote to desktop only due to the COVID-19 pandemic. When the registration has filled, there will be no more students added due to our current limits.
Sign-up: https://portal.xsede.org/course-calendar/-/training-user/class/2054/session/3671
Date: 4-Days, TUE-WED, 06/02/2020 to 06/05/2020 from 11:00AM - 5:00PM EST
Online via Zoom
If you do not currently have an XSEDE Portal account, you will need to create one:
https://portal.xsede.org/my-xsede?p_p_id=58&p_p_lifecycle=0&p_p_state=maximized&p_p_mode=view&_58_struts_action=%2Flogin%2Fcreate_account
Should you have any problems with that process, please contact help@xsede.org and they will provide assistance.
WORKSHOP AGENDA
Day one – Tuesday, June 2nd EST
11:00 Welcome
11:15 Computing Environment
11:45 Intro to Parallel Computing
12:30 Intro to OpenMP
01:30 Lunch break
02:30 Exercise 1 (zip folder of all exercises)
03:15 More OpenMP
04:30 Exercise 2
05:00 Adjourn
Day two – Wednesday, June 3rd EST
11:00 Intro to OpenACC
12:00 Exercise 1
12:30 Introduction to OpenACC (cont.)
01:00 Lunch break
02:00 Exercise 2
02:45 Introduction to OpenACC (cont.)
03:00 Using OpenACC with CUDA Libraries
03:30 Advanced OpenACC
04:00 OpenMP 4.0 Sneak Peek
05:00 Adjourn
Day three – Thursday, June 4th EST
11:00 Introduction to MPI
01:00 Lunch break
02:00 Intro exercises
03:10 Intro exercises review
03:15 Scalable Programming: Laplace code
03:45 Laplace Exercise
05:00 Adjourn
Day four – Friday, June 5th EST
11:00 Laplace Exercise (Cont)
12:30 Laplace Solution
01:00 Lunch break
02:00 Advanced MPI
03:00 Outro to Parallel Computing
04:00 Parallel Tools
04:20 Hybrid Computing
04:40 Hybrid Competition
05:00 Adjourn
Introduction to NGS Bioinformatics
Requirements: Access to Introduction to Linux, Introduction to HPC, VPN; HPC cluster account
Instructor: Rebecca Batorsky
Date: May 19th
Time: 11 am - 12 pm
Introduction to Tufts High Performance Compute (HPC) Cluster
Instructor: Delilah Maloney
Date: May 12th
Time: 11 am - 1 pm
Introduction to Ingenuity Pathway Analysis for Omics Data
Instructor: Rebecca Batorsky
Date: May 7th
Time: 10 am - 11:30 am
XSEDE HPC Workshop MPI
This workshop is intended to give C and Fortran programmers a hands-on introduction to MPI programming. Attendees will leave with a working knowledge of how to write scalable codes using MPI – the standard programming tool of scalable parallel computing.
Introduction to Linux
Requirements: Cluster account; interest in Command Line Mac, Windows or Linux
Instructor: Albert Tai
Date: April 30th
Time: 2 pm - 4 pm
Introduction to Geneious Software for Bioinformatics Topics
Instructors: Rebecca Batorsky, Helen Shearman
Date: April 27th
Time: 2 pm - 3:30 pm
Introduction to Linux
This is designed to be an introductory level workshop on Basic Linux (the command line environment and some useful commands). This is a hands-on workshop and an account on the HPC cluster is required. No previous Linux experience is required.
Introduction to COMSOL Multiphysics (R)
If you are interested in advancing your skills in multiphysics simulation, please join us. You will see the capabilities and workflow of the COMSOL Multiphysics(R) software and learn through a guided hands-on exercise. You will leave with new skills to work on your own applications using your free two-week COMSOL Multiphysics trial.
Introduction to Tufts High Performance Compute Cluster
This workshop is a brief introduction of the structure of the Tufts HPC cluster, as well as the basic usage of its scheduler "SLURM". This is a hands-on workshop and an account on the HPC cluster is required.
Basic Linux knowledge is required. If you are not familiar with Linux, please check out our "Introduction to Basic Linux" workshop.
XSEDE Workshop: Multicore Programming in C and Fortran Using OpenMP
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.
These workshops are sponsored by the National Science Foundation (NSF) funded eXtreme Science and Engineering Discovery Environment (XSEDE).
XSEDE Workshop: Big Data Using Python and Spark
Intro to Bioinformatics for NGS Data
This course will cover some examples of using the Tufts High Performance Compute Cluster (HPC) to manipulate Next Generation Sequencing (NGS) data. Topics covered include quality control, read alignment, transcript quantification and visualization.
It is recommended to take the “Introduction to Linux” and “Introduction to Tufts High Performance Compute Cluster” workshops in preparation for this class. An account on Tufts HPC Cluster is required.