Set up CI with Azure Pipelines

.Rbuildignore

@@ -1,4 +1,3 @@
-^data$
 ^doc$
 ^man-roxygen$
 ^Meta$

.gitignore

@@ -31,4 +31,8 @@ vignettes/*.pdf
 *.knit.md
 .Rproj.user
 # data files created through `configure`
-data/*.rda
+# data/*.rda
+# keep it here, this strategy got broken in Spring 2021, see e.g.:
+# https://stackoverflow.com/questions/66860659/lazydata-is-specified-without-a-data-directory-error-when-submitting-r-packa
+# note: at the same time, it has also become necessary to NOT exclude the data directory in .Rbuildignore.
+# https://stat.ethz.ch/R-manual/R-devel/doc/manual/R-exts.html#Checking-and-building-packages

Dockerfile

@@ -1,5 +1,13 @@
-FROM rocker/r-ver:3.5.3
+FROM rocker/r-ver:4.2.3
+## Ubuntu 22.04 jammy
+# -> don't use latest R release, since that will keep getting linked with later build-dates and RStudio packagemanager
+# -> sets repository to RStudio packagemanager for specific build date of R version, being 2023-04-20 for R 4.2.3
+# (see https://github.com/rocker-org/rocker-versioned2/blob/master/dockerfiles/r-ver_4.2.3.Dockerfile for reference)
+# -> installs R to /usr/local/lib/R
 
+# libnode-dev ?
+# graphics Cairo: libcairo2-dev libxt-dev
+# apt-utils
 ## Install required dependencies
 RUN apt-get update \
   && apt-get install -y --no-install-recommends \
@@ -23,19 +31,24 @@ RUN apt-get update \
 # - https://pandoc.org/installing.html#linux
 # We should use the same version as in rocker/rstudio:<R_VER>
 #   docker run --rm rocker/rstudio:<R_VER> /usr/lib/rstudio-server/bin/pandoc/pandoc -v
+# RSc: TODO: need to check and update pandoc version here
 ENV PANDOC_DEB="2.3.1/pandoc-2.3.1-1-amd64.deb"
 COPY docker/install_pandoc.sh .
 RUN sh install_pandoc.sh $PANDOC_DEB && rm install_pandoc.sh
 
 ## Install TinyTeX as LaTeX installation
 COPY docker/install_tinytex.sh .
 # - Use a version-stable tlnet archive CTAN repo from texlive.info
-#   - here we consider the frozen TeXLive 2016 snapshot, corresponding to the TeXLive release
-#     shipped as texlive-* in Debian stretch (base image for the rocker/verse currently used)
-#   - note that https was not supported in TeXLive 2016 for the CTAN repository
-ENV CTAN_REPO=http://www.texlive.info/tlnet-archive/2017/04/13/tlnet
+#   - here we consider a frozen TeXLive snapshot, corresponding to the TeXLive
+#     release shipped as texlive-* in Ubuntu 22.04 jammy (2021.20220204-1: all)
+ENV CTAN_REPO=https://www.texlive.info/tlnet-archive/2022/02/04/tlnet
+# rocker/verse:4.2.3 would pick texlive rather than tinytex, with the following vars:
+#   ENV CTAN_REPO=https://www.texlive.info/tlnet-archive/2023/04/20/tlnet
+#   ENV PATH=$PATH:/usr/local/texlive/bin/linux
+
 # - It is important to also install all required LaTeX packages when building the image
 RUN sh install_tinytex.sh fancyhdr
+
 ## Script for re-installation of TinyTeX in the running container
 #  - needed if at a certain point the "Remote repository is newer than local",
 #    for non-version-stable TinyTeX installations

azure-pipelines.yml

@@ -0,0 +1,40 @@
+# Docker
+# Build and push an image to Azure Container Registry
+# https://docs.microsoft.com/azure/devops/pipelines/languages/docker
+
+trigger:
+- develop
+
+resources:
+- repo: self
+
+variables:
+  # Container registry service connection established during pipeline creation
+  dockerRegistryServiceConnection: '6284f62b-b5ab-43fb-a236-b29ffaaada8e'
+  imageRepository: 'smarp'
+  containerRegistry: 'miraiappregistry.azurecr.io'
+  dockerfilePath: '$(Build.SourcesDirectory)/Dockerfile'
+  tag: '$(Build.BuildId)'
+
+  # Agent VM image name
+  vmImageName: 'ubuntu-latest'
+
+stages:
+- stage: Build
+  displayName: Build and push stage
+  jobs:
+  - job: Build
+    displayName: Build
+    pool:
+      vmImage: $(vmImageName)
+    steps:
+    - task: Docker@2
+      displayName: Build and push an image to container registry
+      inputs:
+        command: buildAndPush
+        repository: $(imageRepository)
+        dockerfile: $(dockerfilePath)
+        containerRegistry: $(dockerRegistryServiceConnection)
+        tags: |
+          $(tag)
+          latest

docker/install_tinytex.sh

@@ -6,12 +6,14 @@
 # - ghostscript (for pdfcrop)
 
 ## Admin-based install of TinyTeX:
-install2.r --error --skipinstalled tinytex \
-&& wget -qO- \
-  "https://github.com/yihui/tinytex/raw/master/tools/install-unx.sh" | \
+install2.r --error --skipinstalled tinytex
+
+wget -qO- \
+  "https://github.com/rstudio/tinytex/raw/main/tools/install-unx.sh" | \
   sh -s - --admin --no-path \
 && mv ~/.TinyTeX /opt/TinyTeX \
 && /opt/TinyTeX/bin/*/tlmgr path add
+
 ## LaTeX packages from rocker/verse and app-specific packages passed as arguments
 tlmgr install \
   ae inconsolata listings metafont mfware pdfcrop parskip tex \

tools/config/cleanup.R

@@ -1,4 +1,6 @@
 # Clean up files generated during configuration here.
 # Use 'remove_file()' to remove files generated during configuration.
 
-unlink("data", recursive = TRUE)
+# unlink("data", recursive = TRUE)
+# keep it here, this strategy got broken in Spring 2021, see e.g.:
+# https://stackoverflow.com/questions/66860659/lazydata-is-specified-without-a-data-directory-error-when-submitting-r-packa