Table of Contents
Atelier Software Carpentry Workshop
24-25 octobre, 2016, Université de Montréal, Montréal (QC)
Informations: Eva Delmas, Mathilde Besson,Timothée Poisot,Zofia Taranu
Info général - General info
Où/ where:
Salle C-3061 (salle multi-fonctionnelle), Pavillon Lionel Groulx, métro Université de Montréal, 3150, rue Jean-Brillant, Montréal
Salles C2081-2083 pour le lunch
Repas/ meals:
Le petit déjeuner (8h30-9h), pause café matinale (10h15), lunch (12h15) et pausé café dans l'après midi (vers 15h) seront fournis par le CSBQ durant les deux jours.
Breakfast (8:30-9:00am), morning coffee break (10:15am), lunch (12:15pm), and afternoon coffee break (3:00pm) will be provided by the QCBS over the 2 days.
Pour y participer/To participate:
Tous les participants doivent cependant débourser des frais pour l'inscription (15\$ pour membres CSBQ et 50\$ pour les non-members).
However, all participants must pay a registration fee to cover for some of those costs (15\$ for QCBS members, 50\$ for non-members).
Inscription - Registration
Horaire - Schedule
Instructeurs - instructors : Timothée Poisot et Isabelle Laforest Lapointe
Aides- helpers : Eva Delmas, Mathilde Besson, Steve Vissault et Zofia Taranu
Jour - Day 1: The Unix Shell + Automation and Make Lessons
| 9:00 | Introducing the Shell | What is a command shell and why would I use one? |
|---|---|---|
| 9:05 | Navigating Files and Directories | How can I move around on my computer? How can I see what files and directories I have? How can I specify the location of a file or directory on my computer? |
| 9:20 | Working With Files and Directories | How can I create, copy, and delete files and directories? How can I edit files? |
| 9:35 | Pipes and Filters | How can I combine existing commands to do new things? |
| 9:50 | Loops | How can I perform the same actions on many different files? |
| 10:05 | Shell Scripts | How can I save and re-use commands? |
| 10:20 | Finding Things | How can I find files? How can I find things in files? |
| 10:35 | Pause Café | |
| 10:45 | Introduction to Make | How can I make my results easier to reproduce? |
| 11:15 | Makefiles | How do I write a simple Makefile? |
| 11:45 | Automatic Variables | How can I abbreviate the rules in my Makefiles? |
| 12:15 | Lunch | |
| 1:30 | Dependencies on Data and Code | How can I write a Makefile to update things when my scripts have changed rather than my input files? |
| 2:00 | Pattern Rules | How can I define rules to operate on similar files? |
| 2:30 | Variables | How else can I eliminate redundancy in my Makefiles? |
| 3:00 | Functions | How else can I eliminate redundancy in my Makefiles? |
| 3:30 | Self-Documenting Makefiles | How should I document a Makefile? |
| 4:00 | Conclusion | What are the advantages and disadvantages of using tools like Make? |
| 4:30 | Finish | |
Jour - Day 2: Version Control with Git + Databases and SQL
| 9:00 | Automated Version Control | What is version control and why should I use it? |
|---|---|---|
| 9:05 | Setting Up Git | How do I get set up to use Git? |
| 9:10 | Creating a Repository | Where does Git store information? |
| 9:20 | Tracking Changes | How do I record changes in Git? How do I check the status of my version control repository? How do I record notes about what changes I made and why? |
| 9:40 | Exploring History | How can I identify old versions of files? How do I review my changes? How can I recover old versions of files? |
| 10:05 | Ignoring Things | How can I tell Git to ignore files I don’t want to track? |
| 10:10 | Remotes in GitHub | How do I share my changes with others on the web? |
| 10:40 | Pause Café | |
| 10:50 | Collaborating | How can I use version control to collaborate with other people? |
| 11:15 | Conflicts | What do I do when my changes conflict with someone else’s? |
| 11:30 | Open Science | How can version control help me make my work more open? |
| 11:40 | Licensing | What licensing information should I include with my work? |
| 11:45 | Citation | How can I make my work easier to cite? |
| 11:47 | Hosting | Where should I host my version control repositories? |
| 11:57 | Using Git from RStudio | How can I use Git with RStudio? |
| 12:07 | Lunch | |
| 1:30 | Selecting Data | How can I get data from a database? |
| 1:45 | Sorting and Removing Duplicates | How can I sort a query’s results? How can I remove duplicate values from a query’s results? |
| 2:15 | Filtering | How can I select subsets of data? |
| 2:25 | Calculating New Values | How can I calculate new values on the fly? |
| 2:35 | Missing Data | How do databases represent missing information? What special handling does missing information require? |
| 3:15 | Aggregation | How can I calculate sums, averages, and other summary values? |
| 3:25 | Combining Data | How can I combine data from multiple tables? |
| 4:15 | Data Hygiene | How should I format data in a database, and why? |
| 4:35 | Creating and Modifying Data | How can I create, modify, and delete tables and data? |
| 5:10 | Programming with Databases - R | How can I access databases from programs written in R? |
| 5:45 | Finish | |