diff --git a/Dockerfile b/Dockerfile index 61eaf60..37aa08c 100644 --- a/Dockerfile +++ b/Dockerfile @@ -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/*