gCubeSystem
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docker-jenkins-integration-test
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Merge pull request 'Do not install R packages from github.' (#5) from andrea.dellamico/docker-jenkins-integration-test:master into master 

Reviewed-on: #5
This commit is contained in:
Andrea Dell'Amico 2022-03-29 18:22:52 +02:00
parent c3f4ffa01c 9f0896e466
commit 1e0311a71c
1 changed files with 6 additions and 5 deletions
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@ -45,14 +45,15 @@ 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=$GITHUB_PAT" >> /etc/R/Renviron.site
#RUN mkdir -p /etc/R
#RUN echo "GITHUB_PAT=$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
#RUN 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
#RUN installGithub.r -d TRUE -u FALSE -r https://packagemanager.rstudio.com/all/__linux__/focal/latest DanOvando/sraplus ; done
# Ensure that we remove the source packages
RUN rm -fr /tmp/downloaded_packages/*