restructure renv

.Rprofile

-source("renv/activate.R")

renv/.gitignore

-library/
-local/
-cellar/
-lock/
-python/
-sandbox/
-staging/

renv/settings.json

-{
-  "bioconductor.version": null,
-  "external.libraries": [],
-  "ignored.packages": [],
-  "package.dependency.fields": [
-    "Imports",
-    "Depends",
-    "LinkingTo"
-  ],
-  "ppm.enabled": null,
-  "ppm.ignored.urls": [],
-  "r.version": null,
-  "snapshot.type": "implicit",
-  "use.cache": true,
-  "vcs.ignore.cellar": true,
-  "vcs.ignore.library": true,
-  "vcs.ignore.local": true,
-  "vcs.manage.ignores": true
-}

workflows/R-renv-docker/Dockerfile

+## Use pre-built base image coming with R and required system libraries
+
+FROM rstudio/r-base:4.3-jammy
+
+## Install package `renv` to Docker image
+RUN R -e "install.packages('renv', repos = c(CRAN = 'https://cloud.r-project.org'))"
+
+## pull in a manifest file and restore it
+COPY renv.lock ./
+RUN R -e 'renv::restore()'
\ No newline at end of file

workflows/R-renv-docker/README.md

+
+
+## Build docker image
+
+docker build --pull --rm -f "workflows/_R-docker/Dockerfile" -t rdocker-test:latest "workflows/_R-docker"

workflows/R-renv-docker/renv.rmd

+---
+title: "Using renv and docker"
+author: "Dominik Brilhaus"
+date: 2024-08-05
+output: html_document
+---
+
+
+```{r}
+install.packages("renv")
+
+renv::init(bare = TRUE)
+renv::status()
+renv::dependencies()
+
+renv::snapshot()
+
+```
+```{r}
+if (!require("BiocManager", quietly = TRUE))
+    install.packages("BiocManager")
+BiocManager::install(version = "3.19")
+```
+
+