- A link to the recorded sessions can be found here.
- A full catalog of all our trainings at SDSC can be found here.
- Description
- Agenda
- Instructors
- Interactive Video: Will be posted within a few days of the workshop
- All presentations are located in this repository.
This repository contains all the presentations and training material used for the CIML Summer Institute. To work with the material, remember to CLONE this repo.
All times are in PST.
| TIME (PST) | TOPIC | PRESENTER |
|---|---|---|
| 9:00 AM - 9:20 AM | 1.1. Welcome & Orientation | Mary Thomas |
| 9:20 AM – 9:50 AM | 1.2. Accounts, Login, Environment, Running Jobs | Mary Thomas |
| 9:50 AM – 10:10 AM | 1.3. Running Secure Jupyter Notebooks on Expanse | Mary Thomas & Marty Kandes |
| 10:10 AM – 10:30 AM | 1.4. Installing your own miniconda & creating conda environments | Peter Rose |
| 10:30 AM – 10:50 AM | 1.5. Interactive Services Using the Expanse User Portal | Subha Sivagnanam & Marty Kandes |
| 10:50 AM – 11:00 AM | Q&A, Wrap-up | all |
| TIME (PST) | TOPIC | PRESENTER |
|---|---|---|
| 8:00 AM - 9:00 AM | 2.1 Welcome, Orientation, & Introductions | Mary Thomas |
| 9:00 AM – 9:40 AM | 2.2 Introduction HPC/Cyberinfrastructure | Robert Sinkovits |
| 9:40 AM – 10:20 AM | 2.3 CPU Computing - Hardware, architecture, and software infrastructure | Mary Thomas |
| 10:20 AM – 11:00 AM | 2.4 GPU Computing - Hardware architecture and software infrastructure | Andreas Goetz |
| 11:00 AM – 11:45 AM | Break/Lunch | |
| 11:45 PM – 12:25 PM | 2.5 Data Management and File Systems | Manu Shantharam |
| 12:25 PM – 1:05 PM | 2.6 Introduction to Singularity: Containers for Scientific and High-Performance Computing | Marty Kandes |
| 1:05 PM – 1:35 PM | 2.7 Reproducibility in Science and Machine Learning | Peter Rose |
| 1:35 PM – 2:00 PM. | Q&A, Wrap-up |
| TIME (PST) | TOPIC | PRESENTER |
|---|---|---|
| 8:00 AM – 8:30 AM | 3.1 Machine Learning (ML) Overview | Mai Nguyen |
| 8:30 AM – 9:15 AM | 3.2 R on High-Performance Computing (HPC) | Paul Rodriguez |
| 9:15 AM – 9:30 AM | Break | |
| 9:30 AM – 10:45 AM. | 3.3 Spark | Mai Nguyen |
| 10:45 AM – 11:45 AM | Break/Lunch | |
| 11:45 AM – 12:30 PM | 3.4 Intro to NN/CNN | Paul Rodriguez |
| 12:15 AM – 12:30 AM | Break/Lunch | |
| 12:30 PM – 1:45 PM | 3.5 Deep Learning | Mai Nguyen |
| 1:45 PM – 2:00 PM | 3.6 Q&A, Wrap-up |
| TIME (PST) | TOPIC | PRESENTER |
|---|---|---|
| 8:00 AM - 9:15 AM | 4.1 Writing and Sharing Computational Analyses in Jupyter Notebooks | Peter Rose |
| 9:15 AM – 9:30 AM | Break | |
| 9:30 AM – 10:00 AM | 4.2 Spark Hands-on | Mai Nguyen & Paul Rodriguez |
| 10:00 AM - 10:30 AM | 4.3 Continue Spark Hands-on Hands-on | Mai Nguyen & Paul Rodriguez |
| 10:30 AM - 11:30 AM | 4.4 Deep Learning Hands-on | Mai Nguyen & Paul Rodriguez |
| 11:30 AM – 12:30 PM | Break/Lunch | |
| 12:30 PM – 1:00 PM | 4.5 Deep Learning Transfer Learning Hands-on | Mai Nguyen & Paul Rodriguez |
| 1:00 PM – 1:45 PM | 4.6 Deep Sequence Learning Hands-on | Mai Nguyen & Paul Rodriguez |
| 1:45 PM – 2:00 PM | Q&A, Wrap-up |
| NAME | TITLE | ORG |
|---|---|---|
| Andy Goetz | Director - Computational Chemistry Laboratory (bio) | SDSC |
| Marty Kandes | Computational and Data Science Research Specialist (bio) | SDSC |
| Mai Nguyen | Lead - Data Analytics (bio) | SDSC |
| Paul Rodriguez | Research Programmer (bio) | SDSC |
| Peter Rose | Director - Structural Bioinformatics Laboratory (bio) | SDSC |
| Bob Sinkovits | Director for Scientific Computing Applications (bio) | SDSC |
| Manu Shantharam | TITLE (bio) | SDSC |
| Subha Sivagnanam | TITLE (bio) | SDSC |
| Mahidhar Tatineni | Director of User Services (bio) | SDSC |
| Mary Thomas | Computational Data Scientist, Lead - HPC Training (bio) | SDSC |
| Cindy Wong | Computational and Data Science Research Specialist (bio) | SDSC |
| Nicole Wolter | Computational and Data Science Research Specialist (bio) | SDSC |