gCubeSystem
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docker-jenkins-integration-test
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Global Renvironment. PAT when installing from github. #2

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andrea.dellamico merged 1 commits from andrea.dellamico/docker-jenkins-integration-test:master into master 2022-03-29 15:16:30 +02:00
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2 changed files with 9 additions and 4 deletions
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2
04_copy_env.sh
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@ -1,3 +1,3 @@
#!/usr/bin/with-contenv bash
printenv >> /home/$USER/.Renviron
printenv >> /etc/R/Renviron.site

11
Dockerfile
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@ -28,13 +28,18 @@ 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 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('$g')" ; done
#RUN for g in `cat /tmp/r_github_pkgs.txt` ; do \
# Rscript --slave --no-site-file --no-init-file --no-save --no-restore-history \
# -e " require(devtools); devtools::install_github('$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 /rocker_scripts/install_rstudio.sh
RUN /rocker_scripts/install_pandoc.sh
# Remove the rstudio user's home directory and add the mountpoint for the workspace
RUN rm -fr /home/rstudio
RUN mkdir /workspace
# This part comes from https://github.com/openanalytics/shinyproxy-rstudio-ide-demo/blob/master/Dockerfile
RUN echo "www-frame-origin=disabled" >> /etc/rstudio/disable_auth_rserver.conf
RUN echo "www-verify-user-agent=0" >> /etc/rstudio/disable_auth_rserver.conf