Moved reproducible environments to week 5

numbats · Mar 20, 2024 · 2f88684 · 2f88684
1 parent ad07079
commit 2f88684
Show file tree

Hide file tree

Showing 4 changed files with 63 additions and 33 deletions.
diff --git a/week4/index.qmd b/week4/index.qmd
@@ -23,7 +23,6 @@ schedule |>
 * Measuring performance
 * Efficient R programming
 * Caching
-* Reproducible environments
 
 ## Online resources
 

diff --git a/week4/slides.qmd b/week4/slides.qmd
@@ -461,34 +461,3 @@ memo_sq(2)
 ## Exercises
 
 4. Use `bench::mark()` to compare the speed of `sq()` and `memo_sq()`.
-
-# Reproducible environments
-
-## renv package
-
-![](../diagrams/renv.png)
-
-## renv package
-
-* `renv.init()` : initialize a new project with a new environment. Adds:
-  *  `renv/library` contains all packages used in project
-  *  `renv.lock` contains metadata about packages used in project
-  *  `.Rprofile` run every time R starts.
-
-* `renv.snapshot()` : save the state of the project to `renv.lock`.
-
-* `renv::restore()` : restore the project to the state saved in `renv.lock`.
-
-## renv package
-\fontsize{14}{16}\sf
-
-* renv uses a package cache so you are not repeatedly installing the same packages in multiple projects.
-* `renv::install()` can install from CRAN, Bioconductor, GitHub, Gitlab, Bitbucket, etc.
-* `renv::update()` gets latest versions of all dependencies from wherever they were installed from.
-* Only R packages are supported, not system dependencies, and not R itself.
-* renv is not a replacement for Docker or Singularity.
-* `renv::deactivate(clean = TRUE)` will remove the renv environment.
-
-## Exercises
-
-5. Add renv to your Assignment 1 project. Make sure the packages included are the latest CRAN versions of all packages.
diff --git a/week5/index.qmd b/week5/index.qmd
@@ -19,7 +19,8 @@ schedule |>
 
 ## What you will learn this week
 
-R Functional (functions, function arguments, function factories)
+* Reproducible environments
+* Functional programming (functions, function arguments, function factories)
 
 
 ```{r}

diff --git a/week5/slides.qmd b/week5/slides.qmd
@@ -0,0 +1,61 @@
+---
+title: ETC4500/ETC5450 Advanced&nbsp;R&nbsp;programming
+author: "Week 4: Debugging and performance"
+format:
+  beamer:
+    pdf-engine: pdflatex
+    aspectratio: 169
+    fontsize: "14pt,t"
+    section-titles: false
+    knitr:
+      opts_chunk:
+        dev: "cairo_pdf"
+    fig-width: 7.5
+    fig-height: 3.5
+    include-in-header: ../header.tex
+    keep-tex: true
+---
+
+```{r}
+#| label: setup
+#| include: false
+#| cache: false
+source(here::here("setup.R"))
+source(here::here("course_info.R"))
+```
+
+## Outline
+
+\vspace*{0.4cm}
+\tableofcontents
+
+# Reproducible environments
+
+## renv package
+
+![](../diagrams/renv.png)
+
+## renv package
+
+* `renv.init()` : initialize a new project with a new environment. Adds:
+  *  `renv/library` contains all packages used in project
+  *  `renv.lock` contains metadata about packages used in project
+  *  `.Rprofile` run every time R starts.
+
+* `renv.snapshot()` : save the state of the project to `renv.lock`.
+
+* `renv::restore()` : restore the project to the state saved in `renv.lock`.
+
+## renv package
+\fontsize{14}{16}\sf
+
+* renv uses a package cache so you are not repeatedly installing the same packages in multiple projects.
+* `renv::install()` can install from CRAN, Bioconductor, GitHub, Gitlab, Bitbucket, etc.
+* `renv::update()` gets latest versions of all dependencies from wherever they were installed from.
+* Only R packages are supported, not system dependencies, and not R itself.
+* renv is not a replacement for Docker or Singularity.
+* `renv::deactivate(clean = TRUE)` will remove the renv environment.
+
+## Exercises
+
+5. Add renv to your Assignment 1 project. Make sure the packages included are the latest CRAN versions of all packages.