Research the update path for remote desktop base image version of Ubuntu

[vexingly]

The remote desktop container image https://github.com/StatCan/aaw-kubeflow-containers/blob/master/docker-bits/0_Rocker.Dockerfile is using Ubuntu 20.04 while the other container images have been updated to 22.04.

Let's upgrade the remote desktop base image to be consistent and prevent incompatibilities!

https://hub.docker.com/r/rocker/geospatial
https://github.com/rocker-org/rocker-versioned2

To be considered:

rocker/geospatial:ubuntugis (rocker/geospatial:X.Y.Z-ubuntugis) and rocker/geospatial:dev-osgeo are special images that differ slightly from the regular rocker/geospatial.

ubuntugis is built on packages installed from [the ubuntugis-unstable PPA](https://launchpad.net/~ubuntugis/+archive/ubuntu/ubuntugis-unstable).
dev-osgeo is built on the latest release of [PROJ](https://proj.org/), [GDAL](https://gdal.org/), and [GEOS](https://libgeos.org/).

[vexingly]

See StatCan/aaw-kubeflow-containers#423 (comment) for info on last upgrade issues.

[bryanpaget]

With respect to our options:

• ubuntugis is built on packages installed from the ubuntugis-unstable PPA.
  • I'm going to say pass on this one since according to the description on launchpad: "Unstable releases of Ubuntu GIS packages. These releases are more bleeding edge and while generally they should work well, they dont receive the same amount of quality assurance as our stable releases do."
• dev-osgeo is built on the latest release of PROJ, GDAL, and GEOS.
  • I'll try this version since it has the latest version of the aforementioned packages which our users may appreciate.

@vexingly unless you object, I'll proceed with updating to rocker/geospatial:dev-osgeo
DIGEST:sha256:17a7181bdfa3cdb291340d4f47469715e5e2c30ba31f35419e8b0676cacd72cd.

[bryanpaget]

Errors I noticed during the upgrade

• zlibc was removed from Debian, it hasn't been updated in a decade and no longer available in the Ubuntu 22.04 repo.
  • For more information, see: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=958293
• gvfs-bin has been deprecated and is no longer available in the Ubuntu 22.04 repo.
  • For more information, see: https://packages.ubuntu.com/focal/gvfs-bin
• RStudio Desktop version 1.3.1093 was not installable on Ubuntu 22.04.
• I encountered an error when installing pspp

dpkg: dependency problems prevent configuration of pspp:
 pspp depends on libgdk-pixbuf2.0-0 (>= 2.22.0); however:
  Package libgdk-pixbuf2.0-0 is not installed.
 pspp depends on libgsl23 (>= 2.5); however:
  Package libgsl23 is not installed.

dpkg: error processing package pspp (--install):
 dependency problems - leaving unconfigured

• "rm: cannot remove '/usr/share/applications/exo-mail-reader.desktop': No such file or directory"
• "Package 'light-locker' is not installed, so not removed"
• "cp: cannot stat '/usr/lib/websockify/rebind.cpython-38-x86_64-linux-gnu.so': No such file or directory"
  • Probably no longer necessary. This was included as a work-around from 2019.
  • rebind.so not found novnc/websockify#413 (comment)

[bryanpaget]

When running the docker image locally in the VM I get the following errors:

• cp: cannot stat '/opt/install/desktop-files/.config/xfce4/xfce4-panel.xml': No such file or directory
• xauth: file /home/jovyan/.Xauthority does not exist
• _XSERVTransmkdir: ERROR: euid != 0,directory /tmp/.X11-unix will not be created.

[bryanpaget]

Future Work

• Anaconda is on Python 3.8 but the OS is on Python 3.10. We might want to upgrade Anaconda.

[bryanpaget]

Testing and Resolving Issues

• The error above about light-locker not being installed was false. I had to remove light-locker and xfce4-screensaver to prevent screen locking.
• PSPP from the Ubuntu repository seems to work (I can launch it).
  • French UI is displayed in French session.
  • Update Dockerfile and remove special PSPP install script.
• As a replacement for zlibc, I've installed zlib1g and zlib1g-dev.
• I've replaced gvfs-bin with gvfs.
• I updated RStudio Desktop from 1.3.1093 to 2023.06.1-524.
• I removed the line to remove /usr/share/applications/exo-mail-reader.desktop since this .desktop file is no longer included in Ubuntu 22.04.
• "xauth: file /home/jovyan/.Xauthority does not exist" (it does actually)
• I was concerned about compatibility between ml-metadata and Python 3.10 but I was able to install and import the module on my VM which uses Python 3.10.
• NoVNC works fine, the websockify work-around listed above is no longer necessary.

Unresolved

• "cp: cannot stat '/opt/install/desktop-files/.config/xfce4/xfce4-panel.xml': No such file or directory"
• "_XSERVTransmkdir: ERROR: euid != 0,directory /tmp/.X11-unix will not be created."

[bryanpaget]

I tested PSPP in a French session.

[bryanpaget]

Due to scope-creep this ticket is being broken into two parts. One part for the base image upgrade and another ticket to fix the way we install Anaconda so we can have up to date, consistent Anaconda across images.

New Tickets:

• Overhall Anaconda installation: Research R, Python, Anaconda Update/Optimization aaw-kubeflow-containers#496
• Update base image: update base image and fix errors aaw-kubeflow-containers#492