Sommaire | 41023 | FUN-MOOC

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Module 0 : Introduction

Sequences	Units
Course presentation	🎬 Origins of the Mooc 🎬 📄 Course presentation 📄 Team presentation 📄 Prerequisites 📄 Terms of use
How to use the FUN Platform?	FUN platform guide
How to use the Forum ?	How to use the forum? General Terms of Use Privacy Policy Forum: Home page Forum: Introduce yourself
Assessment and Open Badges	Assessment and Open Badges
Introduction with expert interviews	🎬 Interview with Frederic Clette: Sunspots history and scientific questions 🎬 Interview with Thierry Dudok: Data processing and alternative sources 🎬 Interview with Sabrina Bechet: The present measurements at the Royal Observatory of Belgium
Getting started with JupyterLab and sunspot time series	📄 Using JupyterLab ☀️ Exercise M0.1: Discovering the Sunspots time series ☀️ Exercise M0.2: Automatic sunspot detection ☀️ Exercise M0.3: Comparing automatic sunspot counts and official sunspot numbers Experience
Reproducibility and research software communities	Where to find support on computational reproducibility
Start-of-course survey	Survey: profile and expectations

Module 1: Managing data

Sequences	Units
1.0 Introduction	Module presentation 🎬 Introduction
1.1 Archiving	🎬 Archiving concepts 📝 Exercise M1-01.1: Archiving concepts 🎬 What to archive, where and how? 📝 Exercise M1-01.2: What to archive, where and how? Experience
1.2 File formats	🎬 Data context / metadata 📝 Exercise M1-02.1: Metadata 🎬 Text files for tabular and semi-structured data 📝 Exercise M1-02.2: Text files for tabular and semi-structured data 🎬 Inhomogeneous "big" datasets and binary formats 📝 Exercise M1-02.3: Inhomogeneous big datasets and binary formats 🎬 FITS and HDF5 file formats 📄 Fitsio basics and more ☀️ Exercise M1-02.4: Getting practice with FITS Experience
1.3 Project Organization	🎬 Managing projets and naming things 📝 Exercise M1-03.1: Naming conventions 📝 Exercise M1-03.2: Project organization Experience
1.4 Git Annex	🎬 Version Control and Large Files 🎬 Introduction to Git-Annex 🎬 Scientific Data Management With Git-Annex 🎬 Git Annex Conclusion 📄Git Annex Basis 📝 Exercise M1-04.1: Git Annex basis (verification and archaeology) 📝 Exercise M1-04.2: Git Annex basis (archives and volatile publication) 📄Using Git Annex to prepare an archive ☀️ Exercise M1-04.3: Counting sunspots Experience
1.5 Conclusion	🎬 Conclusion

Module 2: Managing software

Sequences	Units
2.0 Introduction	Module presentation 🎬 Introduction
2.1 On the Importance of Software Environment	🎬 Software versions ? Why bother ? 📄 Listing dependencies 📝 Exercise M2-01: Capturing python package versions Experience
2.2 Package Management Principles	🎬 Building and Installing Software Packages 📄 Cheat Sheets 📝 Exercise M2-02.1: Getting information about software packages 📝 Exercise M2-02.2: Collecting information about the environment 📝 Exercise M2-02.3: Installing software with apt 📝 Exercise M2-02.4: Installing software with conda 📝 Exercise M2-02.5: Understanding how packages and libraries are found and what may go wrong Experience
2.3 Isolation and Containers	🎬 Fundamentals of Operating System Architecture 📝 Exercise M2-03.1: Operating Systems concepts 🎬 Isolation and containers 📝 Exercise M2-03.2: Virtual Machine and Container concepts Experience
2.4 Using Containers	📄 Requirements for this sequence 🎬 First steps with Docker 📝 Exercise M2-04.1: Docker basics (first steps with a simple environment) 🎬 Using Docker and Singularity on a daily basis 📝 Exercise M2-04.2: Docker basics (playing with more elaborate environments) 📄 Docker Cheatsheet 📝 Exercise M2-04.3: Manipulating container images and spotting differences ☀️ Exercise M2-04.4: Counting sunspots in a Docker/Singularity environments Experience
2.5 Building and Sharing Containers	📄 Building and sharing a custom Docker image 📄 Building a Reproducible Docker Image 📝 Exercise M2-05: Writing a reproducible Dockerfile Experience
2.6 Functional Package Managers	Table of contents
➤ 2.6.1 What is a functional package manager?	🎬 What is a functional package manager? 📄 Requirements for this sequence 📝 Exercise M2-06: Dependencies Experience
➤ 2.6.2 Packages in Guix	🎬 Anatomy of a Guix package 📝 Exercise M2-07.1: Exploring Guix packages 📝 Exercise M2-07.2: Dependencies Exploring Guix packages Understanding package dependencies Experience
➤ 2.6.3 Containers with Guix	🎬 Containers with Guix 📝 Exercise M2-08: Dependencies Exploring Guix packages Exploring Guix packages 📄 Guix containers for reproducible computations Experience
➤ 2.6.4 Managing software versions and variants	🎬 Managing software versions and variants ☀️ Exercise M2-09.1: Time machine 📝 Exercise M2-09.2: Multiple channels Experience
➤ 2.6.5 Docker and Singularity container images	📄 Creating container images for Docker and Singularity 📝 Exercise M2-10: Dependencies Exploring Guix packages Multiple channel Experience
➤ 2.6.6 Other use cases for Guix	📄 Other use cases for Guix
2.7 Conclusion	🎬 Isolation and dependencies: an overview

Module 3: Managing computations

Sequences	Units
3.0 Introduction	Module presentation 🎬 Introduction
3.1 Why do we need workflows?	🎬 Why do we need workflows? 📝 Exercise M3-01: Workflow concepts
3.2 From notebooks to shell scripts	🎬 From notebooks to shell scripts 📝 Exercise M3-02: Scaling up a notebook Experience
3.3 Workflows with `make`	🎬 Workflows with `make` 📝 Exercise M3-03.1: Using make 🎬 Advanced `make` features 📝 Exercise M3-03.2: Advanced make practice 🎬 `make` for scientific workflows 📄 From shell scripts to workflows Experience
3.4 Workflows with `snakemake`	🎬 Workflows with `snakemake` 📝 Exercise M3-04.1: Using snakemake 🎬 Advanced `snakemake` features 📝 Exercise M3-04.2: Advanced snakemake practice ☀️ Exercise M3-04.3: Exploring the sunspot detection workflow Experience
3.5 Workflows and environments	🎬 Workflows and environments
3.6 Conclusion	🎬 Conclusion

Final survey and Open Badge request

Sequences	Units
Ask for your completion badge!	Ask for your completion badge!
Your general feedback	Final Survey: your experience and overall impression