5 Server Management

This section describes common administrative tasks for RStudio Package Manager.

5.1 Stopping and Starting

Occasionally it is necessary to start and stop the RStudio Package Manager service. Stopping and starting is handled by systemd or Upstart.

The specific stop/start commands depend on the service daemon. Commands for systemd and Upstart are listed below.

After a restart, any scheduled syncs that were missed during downtime will automatically begin. See 14.4 for details.

5.1.1 systemd

Distributions using systemd include Red Hat/CentOS 7, SUSE 12, Ubuntu 16.04, and Ubuntu 18.04.

systemd is a management and configuration platform for Linux. The newest versions of most major Linux distributions have adopted systemd as their default init system.

The RStudio Package Manager installer installs a systemd service called rstudio-pm, which causes the RStudio Package Manager to be started and stopped automatically when the machine boots up and shuts down. The rstudio-pm service is also automatically launched during installation.

Use the following commands to manually start and stop the server:

sudo systemctl start rstudio-pm
sudo systemctl stop rstudio-pm

You can restart the server with:

sudo systemctl restart rstudio-pm

If you wish to keep the server running without interruption, but reload the configuration, you can use the systemctl command to send a HUP signal:

sudo systemctl kill -s HUP --kill-who=main rstudio-pm

The HUP signal causes the server to re-initialize but does not interrupt the current processes or any of the open connections to the server.

Use a HUP signal when your configuration changes are limited to properties marked as reloadable. See Appendix A to learn which settings may be reloaded via HUP. Perform a full restart of RStudio Package Manager when changing other properties.

You can check the status of the rstudio-pm service using:

sudo systemctl status rstudio-pm

And finally, you can use the enable/disable commands to control whether RStudio Package Manager should be run automatically at boot time:

sudo systemctl enable rstudio-pm
sudo systemctl disable rstudio-pm

5.1.2 Upstart (Ubuntu 14.04, Red Hat 6)

Distributions using Upstart include Red Hat/CentOS 6 and Ubuntu 14.04.

Upstart is a system used to automatically start, stop and manage services. The installer writes an Upstart configuration file to /etc/init/rstudio-pm.conf. This instructs the Upstart to initialize RStudio Package Manager as soon as the network is activated on the machine and stop when the machine is being shut down.

The Upstart configuration also ensures that the rstudio-pm process is respawned if the process unexpectedly terminates. However, in the event that there is an issue which consistently prevents RStudio Package Manager from being able to start (such as a bad configuration file), Upstart will give up on restarting the service after approximately 5 failed attempts within a few seconds. For this reason, you may see multiple repetitions of a bad RStudio Package Manager startup attempt before it transitions to the “stopped” state.

To start or stop the server, run the following commands, respectively.

sudo start rstudio-pm
sudo stop rstudio-pm

To restart the server you can run:

sudo stop rstudio-pm
sudo start rstudio-pm

The restart command re-initializes the server.

We recommend stop and start over restart because some configuration changes are not incorporated into a restart. In particular, restart does not re-read the Upstart definition at/etc/init/rstudio-pm.conf. Changes to this file need astopandstart` to take effect.

If you wish to reload the configuration and keep the server and all R processes running without interruption, you can use the reload command:

sudo reload rstudio-pm

This command causes the server to re-initialize but does not interrupt the current processes or any of the open connections to the server.

Use a HUP signal when your configuration changes are limited to properties marked as reloadable. See Appendix A to learn which settings may be reloaded via HUP. Perform a full restart of RStudio Package Manager when changing other properties.

To check the status or retrieve the process ID associated with rstudio-pm, run the following:

sudo status rstudio-pm

5.2 Upgrading

Upgrading RStudio Package Manager requires limited downtime. During an upgrade users will not be able to install packages. We recommend upgrading during a period of downtime.

The latest version is available on the download page along with release notes. The current version is available by running:

cat /opt/rstudio-pm/VERSION

To upgrade:

  1. Download the latest .rpm or .deb file
  2. Run the install command:

    Ubuntu:

    sudo gdebi <rstudio-pm-version.deb>

    Red Hat/CentOS:

    sudo yum install --nogpgcheck <rstudio-pm-version.rpm>

    SUSE:

    sudo zypper --no-gpg-checks install <rstudio-pm-version.rpm>

The new version of RStudio Package Manager will install on top of an earlier installation. Existing configuration settings are respected. During installation the RStudio Package Manager service is restarted.

5.3 Purging RStudio Package Manager

You can fully remove RStudio Package Manager and all its data from your server using the following steps:

  1. Stop the RStudio Package Manager service. (See 5.1 for details)
  2. Uninstall the RStudio Package Manager package from your system.

    Ubuntu:

    sudo apt-get purge rstudio-pm

    Red Hat/CentOS:

    sudo yum remove rstudio-pm

    SUSE:

    sudo zypper remove rstudio-pm
  3. Remove /opt/rstudio-pm if it still exists.
  4. Remove logs from /var/log/rstudio-pm*
  5. Purge the databases
    • When using SQLite, remove the SQLite.Dir directory. This has a default location of /var/lib/rstudio-pm/db.
    • When using PostgreSQL, drop the databases used by RStudio Package Manager. You may also wish to remove the PostgreSQL user associated with RStudio Package Manager.
  6. Remove the Server.DataDir directory. By default, this is /var/lib/rstudio-pm.
  7. Remove configuration files from /etc/rstudio-pm if they still exist.

5.4 Backups

We recommend including the RStudio Package Manager configuration file in /etc/rstudio-pm as well as the variable data directory which defaults to /var/lib/rstudio-pm in your system backups. If you have configured the databases to be stored outside the data directory, ensure that it is also included in the backup.

A running RStudio Package Manager server may be writing into the data directory. You should stop the RStudio Package Manager server before taking a backup.

sudo stop rstudio-pm
# Run appropriate backup steps here.
sudo start rstudio-pm

Your platform may need alternate commands to restart RStudio Package Manager. Please see Section 5.1 for instructions specific to your operating system version.

5.5 Privileged Ports

RStudio Package Manager listens on HTTP port 4242 by default. When you modify the HTTP.Listen or HTTPS.Listen configuration properties to use a privileged port under 1024, the service will fail to start, and you will see an error like the following in `/var/log/rstudio-pm.log:

2017/11/28 13:41:59 Error: Could not initialize the HTTP listener: listen tcp :80: bind: permission denied

If you wish to listen with HTTP or HTTPS on a privileged port (< 1024), you can grant the RStudio Package Manager binary permission to do so by issuing the following command as root:

sudo setcap 'cap_net_bind_service=+ep' /opt/rstudio-pm/bin/rstudio-pm

After issuing the above command, restart the service (see 5.1).