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docker-jenkins-integration-test
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/etc/R must be created.

This commit is contained in:
Andrea Dell'Amico 2022-03-29 17:04:30 +02:00
parent a489269e64
commit 74ac72dcb7
Signed by: andrea.dellamico
GPG Key ID: 147ABE6CEB9E20FF
1 changed files with 8 additions and 2 deletions
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@ -27,7 +27,8 @@ RUN apt-get update && apt-get install -y \
proj-bin \
proj-data \
libgsl23 \
postgresql-server-dev-all
postgresql-server-dev-all \
libsecret-1-0
# Install the R packages we need, using the binary distribution
# at https://packagemanager.rstudio.com/client/#/repos/1/overview
@ -44,12 +45,17 @@ RUN for l in `cat /tmp/r_non_cran_pkgs.txt` ; do \
# From github
ADD https://code-repo.d4science.org/gCubeSystem/r-packages-list/raw/branch/master/r_github_pkgs.txt /tmp
RUN mkdir -p /etc/R
RUN echo "GITHUB_PAT=$GITHUB_PAT" >> /etc/R/Renviron.site
#RUN for g in `cat /tmp/r_github_pkgs.txt` ; do \
# Rscript --slave --no-site-file --no-init-file --no-save --no-restore-history \
# -e " require(devtools); devtools::install_github('$g')" ; done
RUN export GITHUB_PAT ; for g in `cat /tmp/r_github_pkgs.txt` ; do installGithub.r -d TRUE -u FALSE -r https://packagemanager.rstudio.com/all/__linux__/focal/latest $g ; done
RUN grep -v "GITHUB_PATH" /etc/R/Renviron.site > /etc/R/Renviron.site.1
RUN mv -f /etc/R/Renviron.site.1 /etc/R/Renviron.site
# Ensure that we remove the source packages
RUN rm -fr /tmp/downloaded_packages/*
RUN /rocker_scripts/install_rstudio.sh
RUN /rocker_scripts/install_pandoc.sh