Merge pull request #20 from Sage-Bionetworks-Workflows/data-guide-16-…

…update

[GEN-1239] Update data guide for 16.0-public

scripts/data_guide/Dockerfile

@@ -1,9 +1,9 @@
-FROM r-base:4.2.2
+FROM r-base:4.3.1
 
 # These will allow for the renv install
-ENV RENV_VERSION 0.16.0
+ENV RENV_VERSION 1.0.7
 ENV RENV_PATHS_LIBRARY renv/library
-ENV QUARTO_VERSION 1.3.433
+ENV QUARTO_VERSION 1.4.555
 
 RUN apt-get update && apt-get -y install \
       libpng-dev \
@@ -27,7 +27,7 @@ RUN apt-get update && apt-get -y install \
     rm -rf /var/lib/apt/lists/*
 
 RUN R -e "install.packages('remotes', repos = c(CRAN = 'https://cloud.r-project.org'))"
-RUN R -e "remotes::install_github('rstudio/renv@${RENV_VERSION}')"
+RUN R -e "remotes::install_github('rstudio/renv@v${RENV_VERSION}')"
 
 WORKDIR /data_guide
 # only copy renv file
@@ -37,7 +37,7 @@ RUN R -e "renv::restore()"
 
 # Must install quarto cli
 WORKDIR /opt
-RUN wget https://github.com/quarto-dev/quarto-cli/releases/download/v${QUARTO_VERSION}/quarto-${QUARTO_VERSION}-linux-amd64.tar.gz
+RUN wget "https://github.com/quarto-dev/quarto-cli/releases/download/v${QUARTO_VERSION}/quarto-${QUARTO_VERSION}-linux-amd64.tar.gz"
 RUN tar -C /opt -xvzf quarto-${QUARTO_VERSION}-linux-amd64.tar.gz
 
 # Set quarto path

scripts/data_guide/README.md

@@ -1,3 +1,10 @@
 # Updating the data guide
 
 Add or update your information for your site into the dedicated field and then submit a pull request.
+
+
+## Run the command
+
+```
+Rscript generate_data_guide_cli.R 16.6-consortium syn3380222
+```