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👷 Upgrade docker image
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@ThierryO
ThierryO committed Feb 11, 2025
1 parent 2857abe commit 1fc1109
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135 changes: 23 additions & 112 deletions Dockerfile
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Original file line number Diff line number Diff line change
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FROM ubuntu:22.04
FROM ubuntu:24.04

ARG BUILD_DATE
ARG VCS_REF
Expand All @@ -23,8 +23,7 @@ WORKDIR /github/workspace
## User should also have & own a home directory (for rstudio or linked volumes to work properly).
RUN useradd docker \
&& mkdir /home/docker \
&& chown docker:docker /home/docker \
&& addgroup docker staff
&& chown docker:docker /home/docker

## Configure default locale, see /~https://github.com/rocker-org/rocker/issues/19
RUN apt-get update \
Expand Down Expand Up @@ -68,8 +67,7 @@ RUN apt-get update -qq \
software-properties-common \
dirmngr \
&& wget -qO- https://cloud.r-project.org/bin/linux/ubuntu/marutter_pubkey.asc | tee -a /etc/apt/trusted.gpg.d/cran_ubuntu_key.asc \
&& add-apt-repository "deb https://cloud.r-project.org/bin/linux/ubuntu $(lsb_release -cs)-cran40/" \
&& add-apt-repository ppa:c2d4u.team/c2d4u4.0+
&& add-apt-repository "deb https://cloud.r-project.org/bin/linux/ubuntu $(lsb_release -cs)-cran40/"

## R
RUN apt-get update \
Expand All @@ -83,110 +81,26 @@ RUN wget /~https://github.com/jgm/pandoc/releases/download/3.1.8/pandoc-3.1.8-1-a

COPY docker/.Rprofile /usr/lib/R/etc/Rprofile.site

## R packages
## install pak
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
r-cran-assertthat \
r-cran-bookdown \
r-cran-digest \
r-cran-dplyr \
r-cran-fastmap \
r-cran-fs \
r-cran-ggplot2 \
r-cran-htmltools \
r-cran-knitr \
r-cran-pander \
r-cran-pdftools \
r-cran-qpdf \
r-cran-remotes \
r-cran-rmarkdown \
r-cran-rstudioapi \
r-cran-stringi \
r-cran-tibble \
r-cran-tidyverse \
r-cran-tinytex \
r-cran-webshot

## Install textshape
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
libfribidi-dev \
libharfbuzz-dev \
&& Rscript -e 'remotes::install_cran("textshape")'

## Install ragg
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
libfreetype6-dev \
libjpeg-dev \
libpng-dev \
libtiff5-dev \
&& Rscript -e 'remotes::install_cran("ragg")'

## Install xml2
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
libxml2-dev \
&& Rscript -e 'remotes::install_cran("xml2")'

## Install checklist
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
r-cran-codetools \
r-cran-crul \
r-cran-curl \
r-cran-desc \
r-cran-devtools \
r-cran-htmlwidgets \
r-cran-hunspell \
r-cran-lazyeval \
r-cran-pingr \
r-cran-pkgdown \
r-cran-profvis \
r-cran-rcmdcheck \
r-cran-renv \
r-cran-rex \
r-cran-roxygen2 \
r-cran-rprojroot \
r-cran-shiny \
r-cran-xtable \
&& Rscript -e 'remotes::install_github("inbo/checklist")'

## Install DT
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
r-cran-crosstalk \
r-cran-htmlwidgets \
r-cran-later \
r-cran-lazyeval \
r-cran-promises \
&& Rscript -e 'remotes::install_cran("DT")'

## Install INBOtheme
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
libfreetype6-dev \
&& Rscript -e 'remotes::install_cran("INBOtheme")'

## Install qrcode
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
r-cran-stringr \
r-cran-R.utils \
&& Rscript -e 'remotes::install_cran("qrcode")'

## Install lipsum
RUN Rscript -e 'remotes::install_cran("lipsum")'

## Install here
RUN Rscript -e 'remotes::install_cran("here")'

## Install gert
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
libcurl4-openssl-dev \
libssl-dev \
&& Rscript -e 'remotes::install_cran("gert")'
&& Rscript --no-save --no-restore -e 'install.packages("pak")'

## install R packages using pak
RUN Rscript --no-save --no-restore -e 'pak::pkg_install("bookdown", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("checklist", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("dplyr", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("DT", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("here", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("INBOtheme", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("kableExtra", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("lipsum", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("pander", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("pdftools", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("qrcode", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'pak::pkg_install("webshot", dependencies = TRUE)' \
&& Rscript --no-save --no-restore -e 'if(as.package_version(sessionInfo("checklist")$otherPkgs$checklist$Version) < as.package_version("0.4.1")) {pak::pkg_install("inbo/checklist@0.4.1") }'

## Install webshot dependency
RUN Rscript -e 'webshot::install_phantomjs()'
Expand All @@ -198,7 +112,7 @@ RUN Rscript -e 'tinytex::install_tinytex()'
RUN apt-get update \
&& apt-get install -y --no-install-recommends \
ghostscript \
&& Rscript -e 'tinytex::tlmgr_install(c("babel-dutch", "babel-english", "babel-french", "beamer", "beamerswitch", "booktabs", "carlisle", "colortbl", "datetime", "dvips", "emptypage", "environ", "epstopdf", "eso-pic", "eurosym", "extsizes", "fancyhdr", "fancyvrb", "fmtcount", "float", "fontspec", "footmisc", "framed", "helvetic", "hyphen-dutch", "hyphen-french", "inconsolata", "lastpage", "lipsum", "makecell", "marginnote", "mdframed", "ms", "multirow", "parskip", "pdflscape", "pdfpages", "pdftexcmds", "placeins", "needspace", "tabu", "tex", "textpos", "threeparttable", "threeparttablex", "titlesec", "times", "tocloft", "translator", "trimspaces", "ulem", "upquote", "wrapfig", "xcolor", "xstring", "zref"))'
&& Rscript -e 'tinytex::tlmgr_install(c("babel-dutch", "babel-english", "babel-french", "beamer", "beamerswitch", "booktabs", "carlisle", "colortbl", "datetime", "draftwatermark", "dvips", "emptypage", "environ", "epstopdf", "eso-pic", "eurosym", "extsizes", "fancyhdr", "fancyvrb", "fmtcount", "float", "fontspec", "footmisc", "framed", "helvetic", "hyphen-dutch", "hyphen-french", "inconsolata", "lastpage", "lipsum", "makecell", "marginnote", "mdframed", "ms", "multirow", "parskip", "pdflscape", "pdfpages", "pdftexcmds", "placeins", "needspace", "tabu", "tex", "textpos", "threeparttable", "threeparttablex", "titlesec", "times", "tocloft", "translator", "trimspaces", "ulem", "upquote", "wrapfig", "xcolor", "xstring", "zref"))'

## Install fonts
RUN mkdir ${HOME}/.fonts \
Expand All @@ -210,9 +124,6 @@ RUN mkdir ${HOME}/.fonts \
&& fc-cache -fv \
&& Rscript -e 'tinytex:::updmap()'

## Install kableExtra
RUN Rscript -e 'remotes::install_cran("kableExtra")'

## Install current version of INBOmd
COPY .Rbuildignore inbomd/.Rbuildignore
COPY DESCRIPTION inbomd/DESCRIPTION
Expand All @@ -224,8 +135,8 @@ COPY R inbomd/R
COPY README.md inbomd/README.md
COPY vignettes inbomd/vignettes

RUN Rscript -e 'remotes::install_local("inbomd")' \
&& Rscript -e 'tinytex::tlmgr_conf(c("auxtrees", "add", system.file("local_tex", package = "INBOmd")))'
RUN Rscript --no-save --no-restore -e 'remotes::install_local("inbomd")' \
&& Rscript --no-save --no-restore -e 'tinytex::tlmgr_conf(c("auxtrees", "add", system.file("local_tex", package = "INBOmd")))'

COPY docker/entrypoint.sh /entrypoint.sh

Expand Down

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