Tutorial 1: PyCOMPSs Programming Language

  • Instructor: Rosa M Badia, Barcelona Supercomputing Center, Spain

  • Time: Monday September 23, 1:30-5:00pm

  • Location: Laboratorio 2, National High Technology Center (CeNAT), San Jose, Costa Rica

  • Registration (free, but you must register to secure a space):

  • Description: PyCOMPSs is a task-based programming model that enables the parallel execution of sequential Python codes in distributed computing platforms. The programming model is based on the annotation of the Python code in the form of method decorators that identify those methods that will become tasks at execution time. The programming model is empowered by the COMPSs runtime, which at execution time is able to detect the application tasks and the data dependencies between tasks. The runtime builds a task graph which represents the application and inherently expresses the potential concurrency. The tutorial will present the basics of the programming model and of the runtime. The tutorial will be based on Jupyter notebooks that enable to teach the programming model essentials in a very didactic way. The notebooks will be made available to the attendees. 

  • Requirements: participants should bring their own computer.

Tutorial 2: Foundations of Urban Informatics: Mobility Data Analysis

  • Instructors: (lecturer) Sebastián Baña, Universidad de la República, Uruguay; (lecturer) Renzo Massobrio, Universidad de la República, Uruguay; (coordinator) Sergio Nesmachnow, Universidad de la República, Uruguay.

  • Time: Monday September 23, 8:30am-6:30pm

  • Location: Sala Multiuso, National High Technology Center (CeNAT), San Jose, Costa Rica

  • Registration (free, but you must register to secure a space):

  • Description: In urban scenarios, citizens are required to travel frequently in order to engage in social and economic activities. Modern smart cities generate vast volumes of data that can help us better understand the dynamics of mobility and design better transport systems. This tutorial will introduce participants to the study of urban mobility using a data analysis workflow. Attendants will get hands-on experience in inspecting, cleansing, transforming, modeling, and visualizing data using real-world mobility datasets. The tutorial will be based on Python Jupyter notebooks, open datasets, and complementary material, which will be made available to the attendees. Prior knowledge in Python is encouraged but not strictly required.

  • Syllabus:

    • Introduction to urban mobility and urban data analysis. Urbanization and smart cities. Urban mobility and public transport. Automatic Data Collection Systems in public transport. Data analysis workflow.

    • Pandas. Data loading, transforming, inspecting, merging, and wrangling. Basic visualizations.

    • Geopandas. Introduction to Geospatial analysis: shapes, Coordinate Reference Systems, visualization and geoprocessing tools.

    • Advanced visualization. Interactive visualization with Bokeh. Massive data visualization with Datashader.

    • Machine learning toolset. Clustering analysis and regression models.

  • Requirements: participants should bring their own computer and have a personal Google account (a gmail address is sufficient)

  • Supporting projects: Project "Planificación de Transporte Urbano en Ciudades Inteligente" (Fondo Bilateral Uruguay-México, AUCI-AMEXCID)”, led by S. Nesmachnow, A. Tchernykh y A. Cristóbal.

Tutorial 3: Getting started with Containers in HPC

  • Instructor: Eduardo Arango, Sylabs Inc, Colombia.

  • Time: Monday September 23, 8:30am-3:30pm

  • Location: Laboratorio 1, National High Technology Center (CeNAT), San Jose, Costa Rica

  • Registration (free, but you must register to secure a space):

  • Description: Within just the past few years, the use of containers has revolutionized the way in which industries and enterprises have developed and deployed computational software and distributed systems. The containerization model is gaining traction within the HPC community as well with the promise of improved reliability, reproducibility, and levels customization that are not otherwise possible on supercomputers previously. From the onset of containerization in HPC, Singularity has lead the way in providing container services, ranging from small clusters to entire supercomputers.

  • Syllabus: This tutorial looks to educate users on the usability of containers on HPC resources through the use of Singularity. Specifically, the tutorial will walk through the processes of creating, deploying, and running Singularity containers on a Linux™ cluster. We will provide a detailed background of containers, along with introductory hands-on experience building and running containers on an cluster. Furthermore, the tutorial will provide more advanced information on how to run MPI-based HPC applications as well as cutting-edge machine learning toolkits. Users will leave the tutorial with a solid foundational understanding of how to utilize containers with HPC resources through Singularity, as well as in-depth knowledge to deploy custom containers on their own resources.

  • Requirements: participants should bring their own computer.

  • Biography: Eduardo Arango is a Software engineer at Sylabs Inc. Currently a PhD student at Universidad del Valle, Colombia, on Cloud computing architecture. His areas of research are High Performance Computing, linux containers, Distributed Systems, and cloud computing. Eduardo is a software engineer at Sylabs inc, the company behind the Singularity OSS project, working on quality assurance and the test infrastructure for the singularity project, Nomad integration with Singularity runtime, and also a Singularity OSS maintainer.

Tutorial 4: Modelling with COPASI

  • Instructor: Stefan Hoops, University of Virginia, United States of America.

  • Time: Monday September 23, 8:30am-5:30pm

  • Location: Sala 3, National High Technology Center (CeNAT), San Jose, Costa Rica

  • Registration (free, but you must register to secure a space):

  • Description: COPASI is a widely used software tool for creating, simulating and analyzing models of biochemical reaction networks. It is open source free software and available for all major operating systems. Its features include deterministic and stochastic simulation, steady state analysis, stoichiometric analysis, optimization and parameter estimation, time scale analysis, sensitivities and metabolic control analysis, Lyapunov exponents, linear noise approximation, etc. In the workshop we will provide and introduction to the modeling concepts as well as hands on experience using COPASI. We will also be available for the discussion of individual questions from the participants.

  • Requirements: participants should bring their own computer.

Tutorial 5: Machine Learning and its Applications in Astronomy

  • Instructor: Felipe Meza, Costa Rica Institute of Technology, Costa Rica.

  • Time: Monday September 23, 8:30am-12:30pm

  • Location: Auditorio CONARE, National High Technology Center (CeNAT), San Jose, Costa Rica

  • Registration (free, but you must register to secure a space):

  • Description: The use of machine learning in the field of Astronomy has become a fundamental technique for pattern recognition, resulting in surprising results and amazing discoveries in different sub-areas of this exciting science, at the same time, increasing the interest of machine learning uses not only in Astronomy but also in other scientific fields. In this session you will be able to learn about the most common machine learning algorithms, the progress achieved so far by the use of such techniques in astronomy and also, you’ll have the opportunity to participate in a practical session where you can interact with real astronomical data and apply machine learning to solve specific problems using the most common libraries in Python. This workshop is aimed at:

    • Astrophysicists and amateur astronomers seeking to learn about machine learning methods.

    • Programmers and Engineers who wish to learn about modern Astronomy and its current methods of analysis and use cases.

    • Students and Scientist who wish to improve their knowledge about machine learning.

  • Syllabus:

    • Introduction to Machine Learning.

    • Applications in the field of Astronomy.

    • Frameworks and tools for astronomical applications.

    • Big data astronomy projects.

    • Analysis of practical cases (labs).

  • Requirements: participants should bring their own computer. Basic knowledge of Python is recommended.

  • Biography: Felipe is an Engineer and Astrophysicist, Master in Electronic Engineering (Digital Signal Processing) also Master in Astrophysics and Astronomy. Currently PhD student in Engineering (TEC), where he investigates at the Space Research Center (CINESPA - UCR) the estimation of parameters associated to space weather using machine learning techniques, member of PARMA group (Pattern Recognition and Machine Learning Group) and researcher at LIANA (Artificial Intelligence Laboratory for Natural Sciences). Felipe has more than 20 years of experience in the industry in the field of wireless communications and applications of AI/ML. In the academy Felipe has been teaching in graduate and postgraduate programs at the UCR and TEC in courses related to Astronomy, Pattern Recognition, Machine Learning and Digital Communications.

Tutorials Chairs

Robinson Rivas, Universidad Central de Venezuela, Venezuela
Rodrigo Mora, Universidad de Costa Rica, Costa Rica