JupyterLab Server of user crashes

[Agrigor]

Bug description

At some point and several times per day the server of some users crashes, with the following error in journalctl of jupyter-username:

Mai 04 08:39:25 jupyterhubvm systemd[1]: Started /bin/bash -c cd /home/jupyter-cyril && exec jupyterhub-singleuser --port=38773 --SingleUserNotebookApp.default_url=/lab.
Mai 04 08:39:26 jupyterhubvm bash[14907]: [I 2022-05-04 08:39:26.512 SingleUserNotebookApp notebookapp:1593] Authentication of /metrics is OFF, since other authentication is disabled.
Mai 04 08:39:27 jupyterhubvm bash[14907]: [I 2022-05-04 08:39:27.378 LabApp] JupyterLab extension loaded from /opt/tljh/user/lib/python3.9/site-packages/jupyterlab
Mai 04 08:39:27 jupyterhubvm bash[14907]: [I 2022-05-04 08:39:27.378 LabApp] JupyterLab application directory is /opt/tljh/user/share/jupyter/lab
Mai 04 08:39:27 jupyterhubvm bash[14907]: /opt/tljh/user/lib/python3.9/site-packages/jupyter_server_mathjax/app.py:40: FutureWarning: The alias `_()` will be deprecated. Use `_i18n()` instead.
Mai 04 08:39:27 jupyterhubvm bash[14907]:   help=_("""The MathJax.js configuration file that is to be used."""),
Mai 04 08:39:27 jupyterhubvm bash[14907]: [W 2022-05-04 08:39:27.510 SingleUserNotebookApp notebookapp:2034] Error loading server extension nbresuse
Mai 04 08:39:27 jupyterhubvm bash[14907]:     Traceback (most recent call last):
Mai 04 08:39:27 jupyterhubvm bash[14907]:       File "/opt/tljh/user/lib/python3.9/site-packages/notebook/notebookapp.py", line 2030, in init_server_extensions
Mai 04 08:39:27 jupyterhubvm bash[14907]:         func(self)
Mai 04 08:39:27 jupyterhubvm bash[14907]:       File "/opt/tljh/user/lib/python3.9/site-packages/nbresuse/__init__.py", line 49, in load_jupyter_server_extension
Mai 04 08:39:27 jupyterhubvm bash[14907]:         PrometheusHandler(PSUtilMetricsLoader(nbapp)), 1000
Mai 04 08:39:27 jupyterhubvm bash[14907]:       File "/opt/tljh/user/lib/python3.9/site-packages/nbresuse/prometheus.py", line 25, in __init__
Mai 04 08:39:27 jupyterhubvm bash[14907]:         gauge = Gauge(phrase, "counter for " + phrase.replace("_", " "), [])
Mai 04 08:39:27 jupyterhubvm bash[14907]:       File "/opt/tljh/user/lib/python3.9/site-packages/prometheus_client/metrics.py", line 355, in __init__
Mai 04 08:39:27 jupyterhubvm bash[14907]:         super(Gauge, self).__init__(
Mai 04 08:39:27 jupyterhubvm bash[14907]:       File "/opt/tljh/user/lib/python3.9/site-packages/prometheus_client/metrics.py", line 136, in __init__
Mai 04 08:39:27 jupyterhubvm bash[14907]:         registry.register(self)
Mai 04 08:39:27 jupyterhubvm bash[14907]:       File "/opt/tljh/user/lib/python3.9/site-packages/prometheus_client/registry.py", line 29, in register
Mai 04 08:39:27 jupyterhubvm bash[14907]:         raise ValueError(
Mai 04 08:39:27 jupyterhubvm bash[14907]:     ValueError: Duplicated timeseries in CollectorRegistry: {'total_memory_usage'}

Expected behaviour

No crash

Actual behaviour

Crash and restart of server & kernel required Important: It is independent of ram usage, even after fresh reboot.

How to reproduce

Hard to reproduce, just waiting

Your personal set up

• OS: ubuntu 18.04
• Version(s): latest TLJH version, Proxmox VM on Intel Xeon E5-2620 v4, 256GB RAM

Full environment

``` asn1crypto==0.24.0 attrs==17.4.0 Automat==0.6.0 bcrypt==3.2.0 blinker==1.4 cached-property==1.5.2 certifi==2018.1.18 cffi==1.15.0 chardet==3.0.4 charset-normalizer==2.0.9 click==6.7 cloud-init==22.1 colorama==0.3.7 command-not-found==0.3 configobj==5.0.6 constantly==15.1.0 cryptography==36.0.0 distro==1.6.0 distro-info===0.18ubuntu0.18.04.1 docker==5.0.3 docker-compose==1.29.2 dockerpty==0.4.1 docopt==0.6.2 httplib2==0.9.2 hyperlink==17.3.1 idna==2.6 incremental==16.10.1 iotop==0.6 Jinja2==2.10 jsonpatch==1.16 jsonpointer==1.10 jsonschema==2.6.0 keyring==10.6.0 keyrings.alt==3.0 language-selector==0.1 MarkupSafe==1.0 netifaces==0.10.4 numpy==1.19.5 oauthlib==2.0.6 PAM==0.4.2 paramiko==2.8.1 pexpect==4.2.1 pyasn1==0.4.2 pyasn1-modules==0.2.1 pycparser==2.21 pycrypto==2.6.1 PyGObject==3.26.1 PyJWT==1.5.3 PyNaCl==1.4.0 pyOpenSSL==17.5.0 pyserial==3.4 python-apt==1.6.5+ubuntu0.7 python-debian==0.1.32 python-dotenv==0.19.2 pyxdg==0.25 PyYAML==3.12 requests==2.26.0 requests-unixsocket==0.1.5 SecretStorage==2.3.1 semantic-version==2.8.5 service-identity==16.0.0 six==1.11.0 sos==4.3 ssh-import-id==5.7 systemd-python==234 texttable==1.6.4 Twisted==17.9.0 typing_extensions==4.0.1 ubuntu-advantage-tools==27.7 ufw==0.36 unattended-upgrades==0.1 urllib3==1.22 websocket-client==0.59.0 zope.interface==4.3.2 ```

Configuration

```python users: admin: - agrigor user_environment: default_app: jupyterlab services: configurator: enabled: false auth: type: nativeauthenticator.NativeAuthenticator NativeAuthenticator: open_signup: true ```

Logs

``` No information in jupyterhub.service, only in jupyterhub-username like written above ```

Update/Correction: Ubuntu Version is 18.04 NOT 20.04, as written before, sry for that.

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[Agrigor]

ping :)

[minrk]

@Agrigor sorry, it's been a busy couple of months! It looks like you have two packages publishing the same metrics: the older nbresuse, and the newer jupyter-resource-usage. I think if you remove nbresuse, you should get what you want.

[Agrigor]

He @minrk, thanks for your answer! I just uninstalled nbresuse, but unfortunately the crashes are still existing all the time ... Do you have any other idea how I can debug or even fix this crash issue? KR

[sunway910]

@Agrigor sorry, it's been a busy couple of months! It looks like you have two packages publishing the same metrics: the older nbresuse, and the newer jupyter-resource-usage. I think if you remove nbresuse, you should get what you want.

thanks, when i start jupyterlab after uninstall nbresuse,it solved my problem like:ValueError: Duplicated timeseries in CollectorRegistry: {'total_memory_usage'}