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cmd-ntrf / jupyter-lmod

Jupyter plugin that provides a tab for TACC Lmod (https://github.com/TACC/Lmod)

Repository from Github https://github.comcmd-ntrf/jupyter-lmodRepository from Github https://github.comcmd-ntrf/jupyter-lmod

Error loading server extension jupyterlmod

zainul1114 opened this issue · comments

commented

Hi,
Please help us to resolve the issue, eventhough jupyter-serverextension is OK, i am getting this issue.

[root@master jupyterhub]# jupyter-labextension list
JupyterLab v2.2.0
Known labextensions:
   app dir: /share/apps/platform/ai/python_versions/python3/3_6_8/share/jupyter/lab
        @jupyter-widgets/jupyterlab-manager v2.0.0  enabled  OK
        @jupyterlab/github v2.0.0  enabled  OK
        jupyterlab-control v1.1.1  enabled  OK
        jupyterlab-drawio v0.7.0  enabled  OK
        jupyterlab-lmod v0.8.1  enabled  OK
        jupyterlab-logout v0.5.0  enabled  OK
        jupyterlab-python-file v0.4.0  enabled  OK
        jupyterlab-topbar-extension v0.5.0  enabled  OK

[root@master jupyterhub]# jupyter-serverextension list
config dir: /share/apps/platform/ai/python_versions/python3/3_6_8/etc/jupyter
jupyterlab enabled
- Validating...
jupyterlab 2.2.0 OK
jupyterlmod enabled
- Validating...
jupyterlmod OK
nbresuse enabled
- Validating...
nbresuse OK
[root@master jupyterhub]#

and i have added below code with respect to the jupyterhub_lmod on  jupyterhub_config.py

c.Spawner.env_keep = [
'LMOD_CMD',
'MODULEPATH'
'PATH'
'PYTHONPATH',
'CONDA_ROOT',
'CONDA_DEFAULT_ENV',
'VIRTUAL_ENV',
'LANG',
'LC_ALL',
'JUPYTERHUB_SINGLEUSER_APP',
]


Logs:

Sep 1 11:41:15 master jupyterhub: [I 2021-09-01 11:41:15.662 SingleUserNotebookApp extension:162] JupyterLab extension loaded from /share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/site-packages/jupyterlab
Sep 1 11:41:15 master jupyterhub: [I 2021-09-01 11:41:15.663 SingleUserNotebookApp extension:163] JupyterLab application directory is /share/apps/platform/ai/python_versions/python3/3_6_8/share/jupyter/lab
Sep 1 11:41:15 master jupyterhub: [W 2021-09-01 11:41:15.674 SingleUserNotebookApp notebookapp:1950] Error loading server extension jupyterlmod
Sep 1 11:41:15 master jupyterhub: Traceback (most recent call last):
Sep 1 11:41:15 master jupyterhub: File "/share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/site-packages/notebook/notebookapp.py", line 1942, in init_server_extensions
Sep 1 11:41:15 master jupyterhub: mod = importlib.import_module(modulename)
Sep 1 11:41:15 master jupyterhub: File "/share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/importlib/init.py", line 126, in import_module
Sep 1 11:41:15 master jupyterhub: return _bootstrap._gcd_import(name[level:], package, level)
Sep 1 11:41:15 master jupyterhub: File "", line 994, in _gcd_import
Sep 1 11:41:15 master jupyterhub: File "", line 971, in _find_and_load
Sep 1 11:41:15 master jupyterhub: File "", line 955, in _find_and_load_unlocked
Sep 1 11:41:15 master jupyterhub: File "", line 665, in _load_unlocked
Sep 1 11:41:15 master jupyterhub: File "", line 678, in exec_module
Sep 1 11:41:15 master jupyterhub: File "", line 219, in _call_with_frames_removed
Sep 1 11:41:15 master jupyterhub: File "/share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/site-packages/jupyterlmod/init.py", line 3, in
Sep 1 11:41:15 master jupyterhub: from . import handler
Sep 1 11:41:15 master jupyterhub: File "/share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/site-packages/jupyterlmod/handler.py", line 4, in
Sep 1 11:41:15 master jupyterhub: import lmod
Sep 1 11:41:15 master jupyterhub: File "/share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/site-packages/lmod/init.py", line 11, in
Sep 1 11:41:15 master jupyterhub: LMOD_CMD = os.environ["LMOD_CMD"]
Sep 1 11:41:15 master jupyterhub: File "/share/apps/platform/ai/python_versions/python3/3_6_8/lib/python3.6/os.py", line 669, in getitem
Sep 1 11:41:15 master jupyterhub: raise KeyError(key) from None
Sep 1 11:41:15 master jupyterhub: KeyError: 'LMOD_CMD'
Sep 1 11:41:15 master jupyterhub: [I 2021-09-01 11:41:15.729 SingleUserNotebookApp singleuser:561] Starting jupyterhub-singleuser server version 1.1.0
Sep 1 11:41:15 master jupyterhub: [I 2021-09-01 11:41:15.734 SingleUserNotebookApp log:174] 302 GET /user/zain/ -> /user/zain/lab? (@127.0.0.1) 2.42ms

Regards,
zain
commented

The value of LMOD_CMD is not defined when the notebook is launched.

Sep  1 11:41:15 master jupyterhub: KeyError: 'LMOD_CMD'

Is it correctly defined when you launch the JupyterHub service?

commented

In my configuration I used c.Spawner.environment setting

c.Spawner.environment = {'LMOD_CMD' : '/path/to/lmod', 'MODULEPATH' : '/path/to/modulepath'}