now located in r-minimal/Rprofile.site

scripts/onyxia-set-repositories.sh

@@ -27,33 +27,3 @@ if [  "`which conda`" != "" ]; then
     fi
 fi
 
-if command -v R; then
-  if [[ -n "$R_REPOSITORY" ]] || [[ -n "$PACKAGE_MANAGER_URL" ]]; then
-      echo "configuration r (add local repository)"
-
-      echo '# https://docs.rstudio.com/rspm/admin/serving-binaries/#binaries-r-configuration-linux' > ${R_HOME}/etc/Rprofile.site
-      echo 'options(HTTPUserAgent = sprintf("R/%s R (%s)", getRversion(), paste(getRversion(), R.version["platform"], R.version["arch"], R.version["os"])))' >> ${R_HOME}/etc/Rprofile.site
-      echo '# Proxy repository for R' >> ${R_HOME}/etc/Rprofile.site
-      echo 'local({' >> ${R_HOME}/etc/Rprofile.site
-      echo '  r <- getOption("repos")' >> ${R_HOME}/etc/Rprofile.site
-
-      if [[ -n "$PACKAGE_MANAGER_URL" ]]; then
-          UBUNTU_CODENAME=$(cat /etc/lsb-release | grep DISTRIB_CODENAME | cut -d= -f2)
-          echo "  r[\"PackageManager\"] <- \"${PACKAGE_MANAGER_URL}/${UBUNTU_CODENAME}/latest\"" >> ${R_HOME}/etc/Rprofile.site
-      fi 
-
-      if [[ -n "$R_REPOSITORY" ]]; then
-          echo "  r[\"LocalRepository\"] <- \"${R_REPOSITORY}\"" >> ${R_HOME}/etc/Rprofile.site
-      fi 
-
-      echo '  options(repos = r)' >> ${R_HOME}/etc/Rprofile.site
-      echo '})' >> ${R_HOME}/etc/Rprofile.site
-
-      # Unsure if this last line below should be inside this is ; 
-      # leaving it here for now, but should be reviewed before.
-
-      # Configure renv to use the specified package repository
-      echo 'options(renv.config.repos.override = getOption("repos"))' >> ${R_HOME}/etc/Rprofile.site
-  fi
-
-fi