Shiny Server don't respect the container environment variables

[eitsupi]

I was creating a docker-compose project to link multiple containers as shown below, and had trouble with the timezone setting not being reflected in the shiny app.

version: "3.8"

x-common_environment: &common_environment
  TZ: Asia/Tokyo

services:
  db:
    image: postgres:13
    environment:
      <<: *common_environment

  shiny:
    image: rocker/shiny:4
    environment:
      <<: *common_environment
    ports:
      - 3838:3838

I think it is worthwhile to make the same changes to Shiny Server that were once made to containers with RStudio Server installed (#186).
I think it can be achieved by simply copying the following lines from userconf.sh and pasting it into install_shiny_server.sh.

rocker-versioned2/scripts/userconf.sh

Lines 106 to 112 in 071c6a3

	exclude_vars="HOME PASSWORD RSTUDIO_VERSION"
	for file in /var/run/s6/container_environment/*
	do
	sed -i "/^${file##*/}=/d" ${R_HOME}/etc/Renviron.site
	regex="(^| )${file##*/}($| )"
	[[ ! $exclude_vars =~ $regex ]] && echo "${file##*/}=$(cat $file)" >> ${R_HOME}/etc/Renviron.site || echo "skipping $file"
	done

Like these lines.

rocker-versioned2/scripts/install_shiny_server.sh

Lines 49 to 57 in 071c6a3

	cat > /etc/services.d/shiny-server/run << 'EOF'
	#!/usr/bin/with-contenv bash
	## load /etc/environment vars first:
	for line in $( cat /etc/environment ) ; do export $line > /dev/null; done
	if [ "$APPLICATION_LOGS_TO_STDOUT" != "false" ]; then
	exec xtail /var/log/shiny-server/ &
	fi
	exec shiny-server 2>&1
	EOF

[cboettig]

yup, that makes sense to me. Do you have a chance to send a PR along these lines?

[eitsupi]

Yes, I would like to try this and create a PR.
It may be more appropriate to cut out only this part of the process into a stand-alone script and copy it into the S6 installation.