Issues with RStudio Server Integration in Open OnDemand using Singularity

jeff.ohrstrom · June 12, 2024, 2:01pm

Glad to see progress!

We use the --auth-pam-helper-path that is within the template/ directory so it’s stored in the same directory as output.logs and job_script_content.sh and so on. Without it, I’m not sure how Rstudio would be checking for your actual password.

github.com

OSC/bc_osc_rstudio_server/blob/0cd8bc9f316ca12716ecb8c15f5bdc0ee5cdb072/template/script.sh.erb#L109


      
          <%- if r_version > '4.1' -%>
          --server-data-dir='/tmp/run' \
          --server-user=$(whoami)
          <%- end -%>
          
          <%- else -%>
          cd ${APPTAINER_HOME:=$HOME}
          rserver \
           --www-port 8080 \
           --auth-none 0 \
           --auth-pam-helper-path "${RSTUDIO_AUTH}" \
           --auth-encrypt-password 0 \
           --rsession-path "${RSESSION_WRAPPER_FILE}" \
           <%- if r_version > '4.1' -%>
           --server-data-dir='/tmp/run' \
           --server-user=$(whoami)
           <%- end -%>
          <%- end -%>

Here’s the actual auth script we use.

github.com

OSC/bc_osc_rstudio_server/blob/master/template/bin/auth

#!/usr/bin/env bash

# Confirm username is supplied
if [[ $# -lt 1 ]]; then
  echo "Usage: auth USERNAME"
  exit 1
fi
USERNAME="${1}"

# Confirm password environment variable exists
if [[ -z ${RSTUDIO_PASSWORD} ]]; then
  echo "The environment variable RSTUDIO_PASSWORD is not set"
  exit 1
fi

# Read in the password from user
read -s -p "Password: " PASSWORD
echo ""

if [[ ${USERNAME} == ${USER} && ${PASSWORD} == ${RSTUDIO_PASSWORD} ]]; then

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Issues with RStudio Server Integration in Open OnDemand using Singularity

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