Kernel not starting, conda environment errors on remote SSH #19965
Comments
loodvn
added
bug
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Possibly related: |
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Using a conda env with Python 3.8 instead of Python 3.10 worked! I wonder why the Python 3.10 one was broken? Still some errors though: Logs```Visual Studio Code (1.71.2, ssh-remote, desktop) Jupyter Extension Version: 2022.8.1002431955. Python Extension Version: 2022.16.0. Workspace folder /n/groups/marks/projects/indels_human error 17:47:26.748: Exception while attempting zmq : [Error: /lib64/libstdc++.so.6: version `GLIBCXX_3.4.20' not found (required by /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/zeromq/prebuilds/linux-x64/electron.napi.glibc.node) at Object.Module._extensions..node (node:internal/modules/cjs/loader:1187:18) at Module.load (node:internal/modules/cjs/loader:981:32) at Function.Module._load (node:internal/modules/cjs/loader:822:12) at Function.s._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:111:14538) at Function.p._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:106:62866) at Function.E._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:106:62234) at Module.require (node:internal/modules/cjs/loader:1005:19) at require (node:internal/modules/cjs/helpers:102:18) at load (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/node-gyp-build/index.js:1:566) at Object. (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/zeromq/lib/native.js:1:136) at Module._compile (node:internal/modules/cjs/loader:1103:14) at Object.Module._extensions..js (node:internal/modules/cjs/loader:1157:10) at Module.load (node:internal/modules/cjs/loader:981:32) at Function.Module._load (node:internal/modules/cjs/loader:822:12) at Function.s._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:111:14538) at Function.p._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:106:62866) at Function.E._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:106:62234) at Module.require (node:internal/modules/cjs/loader:1005:19) at require (node:internal/modules/cjs/helpers:102:18) at Object. (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/zeromq/lib/index.js:1:82) at Module._compile (node:internal/modules/cjs/loader:1103:14) at Object.Module._extensions..js (node:internal/modules/cjs/loader:1157:10) at Module.load (node:internal/modules/cjs/loader:981:32) at Function.Module._load (node:internal/modules/cjs/loader:822:12) at Function.s._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:111:14538) at Function.p._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:106:62866) at Function.E._load (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:106:62234) at Module.require (node:internal/modules/cjs/loader:1005:19) at require (node:internal/modules/cjs/helpers:102:18) at Object.92747 (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:17:503599) at __webpack_require__ (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:17:1383216) at l.zmqSupported (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2360645) at l.isSupportedForLocalLaunch (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2360388) at l.get isSupported [as isSupported] (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2360298) at t.registerTypes (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2376353) at /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1792972 at /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1793727 at /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1793735 at t.activate (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1793857) at Function._callActivateOptional (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:97:17649) at Function._callActivate (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:97:17307) at /home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:97:15118 at async E._activate (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:85:8224) at async E._waitForDepsThenActivate (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:85:8166) at async E._initialize (/home/lov701/.vscode-server/bin/74b1f979648cc44d385a2286793c226e611f59e7/out/vs/workbench/api/node/extensionHostProcess.js:85:7530)] { code: 'ERR_DLOPEN_FAILED' } User belongs to experiment group 'jupyterTest' User belongs to experiment group 'jupyterEnhancedDataViewer' info 17:47:27.230: Attempting to start a server because of preload conditions ... info 17:47:27.241: LSP Notebooks experiment is enabled info 17:47:27.252: Checking for server existence. info 17:47:27.252: Checking for server usability. info 17:47:27.413: Experiment status for python is {"enabled":true,"optInto":[],"optOutFrom":[]} error 17:47:27.956: Failed to get activated environment variables ourselves [Error: Command failed: conda activate jupyter && echo 'e8b39361-0157-4923-80e1-22d70d46dee6' && python /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/pythonFiles/printEnvVariables.pyCommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
[I 17:47:34.879 NotebookApp] The port 8888 is already in use, trying another port. [I 17:47:34.880 NotebookApp] The port 8889 is already in use, trying another port. [I 17:47:34.882 NotebookApp] Serving notebooks from local directory: /n/groups/marks/projects/indels_human [I 17:47:34.882 NotebookApp] Jupyter Notebook 6.4.12 is running at: [I 17:47:34.882 NotebookApp] http://localhost:8890/?token=c5e7ccdff2a18bf940d4f5405014b8f435e1fb2b540e44c1 info 17:47:34.887: Process Execution: > /n/groups/marks/users/lood/mambaforge/envs/jupyter38/bin/python (daemon) ~/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/pythonFiles/vscode_datascience_helpers/getServerInfo.py
info 17:47:34.892: Process Execution: > /n/groups/marks/users/lood/mambaforge/envs/jupyter38/bin/python (daemon) ~/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/pythonFiles/vscode_datascience_helpers/getServerInfo.py
[C 17:47:34.894 NotebookApp] info 17:47:34.953: /n/groups/marks/users/lood/mambaforge/envs/jupyter38/lib/python3.8/site-packages/traitlets/traitlets.py:2412: FutureWarning: Supporting extra quotes around strings is deprecated in traitlets 5.0. You can use '/n/groups/marks/projects/indels_human' instead of '"/n/groups/marks/projects/indels_human"' if you require traitlets >=5. error 17:47:35.407: Failed to get activated conda env variables for /n/groups/marks/users/lood/mambaforge/envs/jupyter38/bin/python
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And the Python logs with 3.10 kernel and 3.8 server, which worked above, but still complaining about conda strangely: Python logs``` LSP Notebooks experiment is enabled LSP Notebooks interactive window support is enabled > conda info --json Python interpreter path: /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python [ERROR 2022-9-6 17:47:27.478]: Failed to initialize source map support in extension > /n/groups/marks/users/lood/mambaforge/bin/python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/get_output_via_markers.py ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/interpreterInfo.py > /n/groups/marks/users/lood/mambaforge/envs/general/bin/python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/get_output_via_markers.py ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/interpreterInfo.py > /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/get_output_via_markers.py ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/interpreterInfo.py > /n/groups/marks/users/lood/mambaforge/envs/jupyter38/bin/python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/get_output_via_markers.py ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/interpreterInfo.py > conda activate jupyter && echo 'e8b39361-0157-4923-80e1-22d70d46dee6' && python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/printEnvVariables.py > conda activate jupyter38 && echo 'e8b39361-0157-4923-80e1-22d70d46dee6' && python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/printEnvVariables.py > conda activate jupyter38 && echo 'e8b39361-0157-4923-80e1-22d70d46dee6' && python ~/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/printEnvVariables.py [ERROR 2022-9-6 17:47:29.254]: getActivatedEnvironmentVariables Error: Command failed: conda activate jupyter38 && echo 'e8b39361-0157-4923-80e1-22d70d46dee6' && python /home/lov701/.vscode-server/extensions/ms-python.python-2022.16.0/pythonFiles/printEnvVariables.pyCommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false,
CommandNotFoundError: Your shell has not been properly configured to use 'conda activate'. Currently supported shells are:
See 'conda init --help' for more information and options. IMPORTANT: You may need to close and restart your shell after running 'conda init'. killed: false, |
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Update: Working with a fresh server env of jupyter with python 3.10. |
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Still working with fresh py3.10 jupyterlab + ipykernel. I'll let you know once I get to reproducing my previous environment completely to see if it still breaks then. Jupyter logs: Conda list of 3.10 jupyterlab + ipykernel: |
karthiknadig
added
bug
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@DonJayamanne I discovered we already use the approach to activate base environments first that you mentioned here: #18044, but only if the shell is NOT setup using |
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Closing in favor of #20087 |
Applies To
What happened?
I have a similar problem, although missing the "Error command 'python.viewOutput' already exists" log.
Mine just fails at kernel loading stage, specifically the "printEnvironmentVariables.py" stage because it similarly doesn't conda init (even though my terminal does, and my .bashrc, sourced by bash_profile, contains conda init).
My Python installation works fine, and python in terminal and when running a .py script works fine (and running the command
conda activate general && echo "<>" && python printEnvironmentVariables.pyalso works in a terminal).VS Code Version
Version: 1.71.2 Commit: 74b1f979648cc44d385a2286793c226e611f59e7 Date: 2022-09-14T21:05:37.721Z Electron: 19.0.12 Chromium: 102.0.5005.167 Node.js: 16.14.2 V8: 10.2.154.15-electron.0 OS: Darwin x64 21.6.0 Sandboxed: No
Jupyter Extension Version
v2022.8.1002431955
Jupyter logs
info 17:29:53.465: Execute Cell 0 /n/groups/marks/projects/indels_human/play.ipynb
info 17:29:53.468: Starting Jupyter Session id = 'startUsingPythonInterpreter:.jvsc74a57bd05b58b45636592c97e898b015ed1389c6645910b6be06603107af881d920a85c4./n/groups/marks/users/lood/mambaforge/envs/jupyter/python./n/groups/marks/users/lood/mambaforge/envs/jupyter/python.-m#ipykernel_launcher' (Python Path: /n/groups/marks/users/lood/mambaforge/envs/jupyter, EnvType: Conda, EnvName: 'jupyter', Version: 3.10.6) for '/n/groups/marks/projects/indels_human/play.ipynb' (disableUI=false)
[I 17:29:53.481 NotebookApp] Creating new notebook in
info 17:29:53.648: installMissingDependencies /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python, ui.disabled=false for resource '/n/groups/marks/projects/indels_human/play.ipynb'
error 17:29:54.170: Failed to get activated conda env variables for /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python
info 17:29:54.197: Process Execution: > /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python -c "import ipykernel"
Error: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
category: 'unknown',
originalException: a [Error]: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
response: F [Response] {
size: 0,
timeout: 0,
[Symbol(Body internals)]: [Object],
[Symbol(Response internals)]: [Object]
},
traceback: ''
}
}
warn 17:29:55.216: Error occurred while trying to start the kernel, options.disableUI=false I [Error]:
at new r (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:17:33542)
at new I (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1936802)
at /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2227046
at processTicksAndRejections (node:internal/process/task_queues:96:5)
Error: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
category: 'unknown',
originalException: a [Error]: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
response: F [Response] {
size: 0,
timeout: 0,
[Symbol(Body internals)]: [Object],
[Symbol(Response internals)]: [Object]
},
traceback: ''
}
}
warn 17:29:55.218: Kernel Error, context = start I [Error]:
at new r (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:17:33542)
at new I (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1936802)
at /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2227046
at processTicksAndRejections (node:internal/process/task_queues:96:5)
Error: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
category: 'unknown',
originalException: a [Error]: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
response: F [Response] {
size: 0,
timeout: 0,
[Symbol(Body internals)]: [Object],
[Symbol(Response internals)]: [Object]
},
traceback: ''
}
}
[E 17:29:55.204 NotebookApp] {
"Host": "localhost:8889",
"Accept": "/",
"User-Agent": "node-fetch/1.0 (+https://github.com/bitinn/node-fetch)"
}
[E 17:29:55.204 NotebookApp] 500 POST /api/sessions?1665091795187 (127.0.0.1) 7.520000ms referer=None
[W 17:29:55.236 NotebookApp] delete /play-jvsc-3dbf879d-65f5-4c4a-b933-52a0dc395c2f8e38d42e-c2d5-4530-ad2c-725f395218eb.ipynb
[W 17:29:55.241 NotebookApp] Skipping trash for /n/groups/marks/projects/indels_human/play-jvsc-3dbf879d-65f5-4c4a-b933-52a0dc395c2f8e38d42e-c2d5-4530-ad2c-725f395218eb.ipynb, [Errno 13] Permission denied: b'/n/groups/.Trash-190256'
error 17:29:55.817: Failed to get activated conda env variables for /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python
info 17:29:55.851: Process Execution: > /n/groups/marks/users/lood/mambaforge/envs/jupyter/bin/python -c "import ipykernel"
Error: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
category: 'unknown',
originalException: a [Error]: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
response: F [Response] {
size: 0,
timeout: 0,
[Symbol(Body internals)]: [Object],
[Symbol(Response internals)]: [Object]
},
traceback: ''
}
}
error 17:29:56.190: Error in execution (get message for cell) I [Error]:
at new r (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:17:33542)
at new I (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:1936802)
at /home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/extension.node.js:2:2227046
at processTicksAndRejections (node:internal/process/task_queues:96:5)
Error: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
category: 'unknown',
originalException: a [Error]: Unhandled error
at Function.create (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:53387)
at processTicksAndRejections (node:internal/process/task_queues:96:5)
at Object.a.startSession (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:65471)
at l.startNew (/home/lov701/.vscode-server/extensions/ms-toolsai.jupyter-2022.8.1002431955/out/node_modules/@jupyterlab/services.js:2:61655) {
response: F [Response] {
size: 0,
timeout: 0,
[Symbol(Body internals)]: [Object],
[Symbol(Response internals)]: [Object]
},
traceback: ''
}
}
[I 17:30:40.285 NotebookApp] Removing existing kernelspec in /home/lov701/.local/share/jupyter/kernels/conda-env-general-py
[I 17:30:40.320 NotebookApp] Installed kernelspec conda-env-general-py in /home/lov701/.local/share/jupyter/kernels/conda-env-general-py
[I 17:30:40.324 NotebookApp] Removing existing kernelspec in /home/lov701/.local/share/jupyter/kernels/conda-env-jupyter-py
[I 17:30:40.360 NotebookApp] Installed kernelspec conda-env-jupyter-py in /home/lov701/.local/share/jupyter/kernels/conda-env-jupyter-py
[I 17:30:40.364 NotebookApp] Removing existing kernelspec in /home/lov701/.local/share/jupyter/kernels/conda-env-play-py
[I 17:30:40.399 NotebookApp] Installed kernelspec conda-env-play-py in /home/lov701/.local/share/jupyter/kernels/conda-env-play-py
[I 17:30:40.403 NotebookApp] Removing existing kernelspec in /home/lov701/.local/share/jupyter/kernels/conda-env-torch-py
[I 17:30:40.438 NotebookApp] Installed kernelspec conda-env-torch-py in /home/lov701/.local/share/jupyter/kernels/conda-env-torch-py
[I 17:30:40.442 NotebookApp] Removing existing kernelspec in /home/lov701/.local/share/jupyter/kernels/conda-env-vep-py
[I 17:30:40.476 NotebookApp] Installed kernelspec conda-env-vep-py in /home/lov701/.local/share/jupyter/kernels/conda-env-vep-py
The text was updated successfully, but these errors were encountered: