News/2022 Toolforge Stretch deprecation

This page details information about deprecating and removing hosts running Debian Stretch (9.x) as an operating system from the Toolforge infrastructure. The login bastions and Grid execution hosts are still running Stretch and must be replaced with new instances.

What is changing?

New bastion hosts running Debian Buster with connectivity to the new job grid
New versions of PHP, Python3, and other language runtimes
New versions of various support libraries

We are introducing a configuration option to let you select which operating system (Debian Stretch or Debian Buster) you want for your grid-based tool. That way, you can try out the migration from Stretch to Buster at your convenience.

Timeline

2022-02-15: Done (email) Availability of Debian Buster grid announced to community
2022-03-21: Reminders via email to tool maintainers for tools still running on Stretch Done
Week of 2022-04-21:
- Daily reminders via email to tool maintainers for tools still running on Stretch Done
- Switch login.toolforge.org to point to Buster bastion Done
Week of 2022-05-02: Evaluate migration status and formulate plan for final shutdown of Stretch grid
2022-06-02: Make Buster the default if no release was specified Done (email)
2022-06-??: Shutdown Stretch grid

What should I do?

You should migrate your Toolforge tool to a newer environment. You have two options:

migrate from Toolforge Stretch Grid Engine to Toolforge Kubernetes.
migrate from Toolforge Stretch Grid Engine to Toolforge Buster Grid Engine.

SSH to the bastions

During the compatibility period, there are 2 sets of bastions available:

login.toolforge.org: points to the old Debian Stretch bastion
dev.toolforge.org: points to the old Debian Stretch development bastion
login-buster.toolforge.org: points to the new Debian Buster bastion
dev-buster.toolforge.org: points to the new Debian Buster development bastion

When the time arrives, the old Stretch bastion will stop working, and both login.toolforge.org and dev.toolforge.org will point to Buster bastions.

Move from Grid Engine to Kubernetes

Our recommendation is that you move all your tools from the Grid Engine backend into Kubernetes.

If your tool consists of one or more jobs, there may be direct equivalences between the commands. Check the dedicated documents: Help:Toolforge/Jobs_framework#Grid_Engine_migration.

If your tool consists of a webservice, check here instead.

Move a grid engine webservice

We strongly encourage you to migrate web services to Kubernetes instead of using the grid.

If you have strong reasons to keep using the grid for webservices, then try the --release {buster|stretch} parameter:

:# Connect to the Buster bastion
$ ssh <your-shell-name>@login-buster.toolforge.org

:# Become your tool account
$ become YOUR_TOOL

:# stop the webservice
$ webservice stop

:# Start the webservice as a Kubernetes container rather than a grid job
:# <type> is one of: php7.4, php7.2, python, python2, nodejs, golang, jdk8, ruby2, tcl
$ webservice --backend=kubernetes <type> start
:# -- OR --
:# Start the webservice as a Buster grid job
:# <type> is one of: lighttpd, uwsgi-python, tomcat, generic, lighttpd-plain, nodejs, uwsgi-plain
$ webservice --backend=gridengine --release buster <type> start

See Help:Toolforge/Web#Choosing_a_backend for more information on migrating from grid engine to Kubernetes.

Python2 and Python3 webservices will need to rebuild their virtualenv environments on the new target runtime (Buster grid or Kubernetes).

NodeJS webservices will need to rebuild their $HOME/www/js/node_modules on the new target runtime (Buster grid or Kubernetes).

Move a continuous job

Try first migrating from Grid Engine to the new Toolforge jobs framework on Kubernetes. If you cannot move today, we would be interested to learn what prevents you from doing so.

If you decide to keep using the grid, simply run:

:# Connect to the Stretch bastion
$ ssh <your-shell-name>@login-buster.toolforge.org
:# Become your tool account
$ become YOUR_TOOL

:# Start your job on the Buster job grid(note: this is a specific example for a php job that checks for a quota).
$ jstart -release buster -mem 350m php check_my_quota.php

The exact commands needed to start each continuous job vary greatly from tool to tool. This would be a great time to make a page of reference material for yourself and other maintainers here on Wikitech in the Tool namespace and using the Tool template if you haven't already.

Move a cron job

Try first migrating from Grid Engine to the new Toolforge jobs framework on Kubernetes. If you cannot move today, we would be interested to learn what prevents you from doing so.

If you decide to keep using the grid, to migrate your cron job provide a -release buster jsub argument when creating them with the crontab command.

The grid cron job server is Debian Stretch and will remain that way until the end of the migration, meaning that if you don't specify a -release buster option, the default (stretch) will be used.

See Executable paths with jsub for other potential problems with cron jobs.

If your workload permits, please avoid scheduling cronjobs from midnight to 3am so you're not competing with other cronjobs for system resources. That time window is currently very crowded.

What are the primary changes with moving to Buster?

Language runtime and library versions

The vast majority of the language runtimes and libraries installed on the grid nodes are upgraded in BUSTER.

Runtime	Stretch Version	Buster Version
Python3	3.5.3	3.7.3
PHP	7.2	7.3
Python2	2.7.13	2.7.16
NodeJS	8.11.1	10.24.0
Perl	5.24	5.28
Java	11.0.6	11.0.9
Ruby	2.3.3	2.5.5
Mono	5.12.0	5.18.0
TCL	8.6.0	8.6.9
R	3.3.3	3.5.2

Solutions to common problems

Having trouble with the new grid? If the answer to your problem isn't here, ask for help in #wikimedia-cloud ^connect or file a task in Phabricator using this template.

Executable paths with jsub

Some system executables have changed their path between Debian releases. When scheduling jobs, the jsub command resolves the full path for executable files, which means that a given command may fail if the destination grid is not the same Debian release as the server in which jsub is run.

This happens in particular when running jsub from a Debian Buster bastion host to schedule jobs in the Debian Stretch grid.

The solutions to these problem are simple in most cases:

use a wrapper script as entry point for your jobs.
schedule a job for a given grid release from a matching Debian release bastion.
if possible, use explicit full path when scheduling your jsub jobs.

Example of a problematic jsub operation, in a Debian Buster bastion:

tool.mytool@tools-sgebastion-10:~ $ jsub -N myjob-stretch -release stretch echo hi
Your job 3595 ("myjob-stretch") has been submitted
tool.mytool@tools-sgebastion-10:~ $ jsub -N myjob-buster -release buster echo hi
Your job 3596 ("myjob-buster") has been submitted
tool.mytool@tools-sgebastion-10:~ $ cat myjob-stretch.*
-bash: /usr/bin/echo: No such file or directory
tool.mytool@tools-sgebastion-10:~ $ cat myjob-buster.*
hi

Example of a good jsub operation, in a Debian Buster bastion:

tool.mytool@tools-sgebastion-10:~ $ jsub -N mywrappedjob-stretch -release stretch ./my-wrapper.sh
Your job 3596 ("mywrappedjob-stretch") has been submitted
tool.mytool@tools-sgebastion-10:~ $ jsub -N myjob-stretch -release stretch /bin/echo hi
Your job 3597 ("myjob-stretch") has been submitted
tool.mytool@tools-sgebastion-10:~ $ jsub -N myjob-buster -release buster /bin/echo hi
Your job 3598 ("myjob-buster") has been submitted
tool.mytool@tools-sgebastion-10:~ $ cat mywrappedjob-stretch.*
hi
tool.mytool@tools-sgebastion-10:~ $ cat myjob-stretch.*
hi
tool.mytool@tools-sgebastion-10:~ $ cat myjob-buster.*
hi

In case of cron jobs, the problem is the same, with the particularity that our cron server is Debian Stretch, and will stay that way until the end of the migration, when we will introduce a Debian Buster cron server replacement.

Example of a reasonable crontab file (uses either a wrapper or full path):

tool.mytool@tools-sgebastion-10:~ $ crontab -l
10 * * * * /usr/bin/jsub -N cron-10 -once -quiet ./mywrappedjob.sh
12 * * * * /usr/bin/jsub -N cron-11 -once -quiet /bin/echo hello

Example of a bad crontab file (no wrapper, missing full path):

tool.mytool@tools-sgebastion-10:~ $ crontab -l
10 * * * * /usr/bin/jsub -N cron-10 -once -quiet echo hello

Rebuild virtualenv for python users

Since the python executables and libraries are updated in Debian Buster, local virtualenvs will need to be deleted and re-created on the new bastion for anything that runs from those virtualenvs to work. Several errors are likely to be caused by old virtualenvs with one obvious one being an unexpected ImportError.

Using a requirements file may make this simpler in many cases, if your project doesn't already use one. You can create one in your local directory by running pip freeze > requirements.txt in your tool folder with your virtualenv activated. Then later on, you can simply use pip install -r requirements.txt to install the new environment after you deleted the old virtualenv and created a new one. For more information on this option, see pip's documentation on requirements files.

Example 1: Upgrading a Stretch grid engine based tool to the Buster grid

Follow these steps if you manually submit jobs using jsub, or if you submit jobs using a crontab.

$ ssh <your-shell-name>@login-buster.toolforge.org
$ become YOUR_TOOL
$ rm -rf venv     # This will destroy the virtualenv and all libraries, so make sure you know what you will need to install later!
$ python3 -m venv venv
$ source venv/bin/activate
$ pip3 install --upgrade pip # upgrade pip itself to avoid problems with older versions
$ pip3 install ... # Here you'd use the requirements file syntax if you have one, or you'd manually install each needed library.

Example 2: Upgrading a uWSGI webservice into a Kubernetes container

If you are currently running your uWSGI webservice under the Grid Engine backend (i.e., webservice uwsgi-python command), and you want to upgrade to a uWSGI webservice running under Kubernetes (i.e., webservice --backend=kubernetes python command), you should rebuild your virtualenv as follows:

$ ssh <your-shell-name>@login-buster.toolforge.org
$ become YOUR-TOOL
$ webservice --backend=kubernetes python stop
$ webservice --backend=kubernetes python shell # do not skip this step – setting up the venv directly from the bastion may result in serious performance issues, compare T214086
$ rm -rf www/python/venv/ # this will destroy the virtualenv and all libraries, so make sure you know what you will need to install later!
$ python3 -m venv www/python/venv/
$ source www/python/venv/bin/activate
$ pip3 install --upgrade pip # upgrade pip itself to avoid problems with older versions
$ pip3 install -r www/python/src/requirements.txt # assuming your tool has a requirements.txt file
$ webservice --backend=kubernetes python start

Example 3: Upgrading a Kubernetes uWSGI webservice

If you are already using the Kubernetes backend, there is nothing you need to do -- the container will use the same image as before.

Delete a tool

Tracked in Phabricator
Task T170355 Resolved

Some tools were experiments that are done, others were made obsolete by other tools, some are just things that the original maintainer is tired of caring for. Maintainers can mark their tools for deletion using the "Disable tool" button on the tool's detail page on https://toolsadmin.wikimedia.org/. Disabling a tool will immediately stop any running jobs including webservices and prevent maintainers from logging in as the tool. Disabled tools are archived and deleted after 40 days. Disabled tools can be re-enabled at any time prior to being archived and deleted.

SSH to login-buster.toolforge.org fails with 'Permission denied (publickey)'

Tracked in Phabricator
Task T168433

This is typically an issue with the newer Debian Buster provided version of sshd on the server side refusing to authenticate an insecure or deprecated public key type. Specifically, support for DSA (ssh-dss) keys was deprecated in Openssh 7.0. If your ssh public key starts with the string "ssh-dss" you will be impacted by this. RSA keys smaller than 1024 bits are also deprecated.

First make sure that you are passing a valid key by attempting to ssh to login.toolforge.org using the same public key and username. If this also fails, the problem is likely something other than the ssh key type. Join us in #wikimedia-cloud ^connect for interactive debugging help.

If you can ssh to login.toolforge.org with no errors, your key is probably of an unsupported type. Generate a new ssh key pair and upload the public key using the form at https://toolsadmin.wikimedia.org/profile/settings/ssh-keys. We currently recommend using either ed25519 or 4096-bit RSA keys. See Production shell access#Generating your SSH key for more information.

SSH to login-buster.toolforge.org fails with 'Permission denied (publickey,hostbased)'

In case you face this problem, make sure to use the right shell name located on your User Preferences called **Instance shell account name**. It's supposed to be used in logging into the Toolforge server when need be, whether Stretch or Buster.

How to determine where your job is running

If you want to know whether your job is running on the old Stretch grid or the new Buster grid, use the qstat command with the -xml flag.

tool.mytool@tools-sgebastion-10:~ $ qstat -xml
<?xml version='1.0'?>
<job_info  xmlns:xsd="http://arc.liv.ac.uk/repos/darcs/sge/source/dist/util/resources/schemas/qstat/qstat.xsd">
  <queue_info>
    <job_list state="running">
      <JB_job_number>1784</JB_job_number>
      <JAT_prio>0.59108</JAT_prio>
      <JB_name>lighttpd-mytool</JB_name>
      <JB_owner>tools.mytool</JB_owner>
      <state>r</state>
      <JAT_start_time>2021-03-25T18:20:31</JAT_start_time>
      <queue_name>webgrid-lighttpd@tools-sgewebgrid-lighttpd-0917.tools.eqiad.wmflabs</queue_name>
      <slots>1</slots>
    </job_list>
  </queue_info>
  <job_info>
  </job_info>
</job_info>

The hostname component of the <queue_name> that the job is running under tells you if the queue is running on Stretch (contains -09nn where nn is any two digits) or Buster (contains -10- )

Monitoring tools

Tools running jobs on Stretch grid engine in last 7 days
- This report updates once per hour and will not report jobs that have been seen running on the Buster grid in the same 7 day period.
- Report has drill down pages for each maintainer and tool. Examples: bd808's tools, sge-status tool

Why are we doing this?

This is an implementation of our Operating System Upgrade Policy.

In a nutshell, we use Debian and deprecate versions three years after release and remove them completely from our infrastructure by four years after their release.

Debian Stretch was released in June 2017, and long term support for it (including security updates) will cease in June 2022. We need to shut down all Stretch hosts before the end of support date to ensure that Toolforge remains a secure platform. This migration will take several months because many people still use the Stretch hosts and our users are working on tools in their spare time.

See Operating System Upgrade Policy for more information.

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Support and administration of the WMCS resources is provided by the Wikimedia Foundation Cloud Services team and Wikimedia movement volunteers. Please reach out with questions and join the conversation:

Discuss and receive general support

Chat in real time in the IRC channel #wikimedia-cloud ^connect or the bridged Telegram group
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Subscribe to the cloud-announce@ mailing list (all messages are also mirrored to the cloud@ list)
Read the News wiki page

Track work tasks and report bugs

Use a subproject of the #Cloud-Services Phabricator project to track confirmed bug reports and feature requests about the Cloud Services infrastructure itself

Read stories and WMCS blog posts

Read the Cloud Services Blog (for the broader Wikimedia movement, see the Wikimedia Technical Blog)