Behavior:
Jupyter kernal stuck at: "kernel starting, please wait..." whenever I open a R kernel jupyter notebook.
Error message from the terminal:
jupyter notebook ~/OneDrive\ -\ OnTheHub\ -\ The\ University\ of\ Oxford/hbv_covar\ \(original\)/Produce_association_test.ipynb
[I 21:50:40.465 NotebookApp] The port 8888 is already in use, trying another port.
[I 21:50:40.512 NotebookApp] JupyterLab extension loaded from /Users/stevenlin/anaconda3/lib/python3.7/site-packages/jupyterlab
[I 21:50:40.512 NotebookApp] JupyterLab application directory is /Users/stevenlin/anaconda3/share/jupyter/lab
[I 21:50:40.514 NotebookApp] Serving notebooks from local directory: /Users/stevenlin/OneDrive - OnTheHub - The University of Oxford/hbv_covar (original)
[I 21:50:40.514 NotebookApp] The Jupyter Notebook is running at:
[I 21:50:40.514 NotebookApp] http://localhost:8889/?token=315d5c5b0dcfde7b1c063f4fa90d584257df00e48a6c8b10
[I 21:50:40.514 NotebookApp] Use Control-C to stop this server and shut down all kernels (twice to skip confirmation).
[C 21:50:40.526 NotebookApp]
To access the notebook, open this file in a browser:
file:///Users/stevenlin/Library/Jupyter/runtime/nbserver-14280-open.html
Or copy and paste one of these URLs:
http://localhost:8889/?token=315d5c5b0dcfde7b1c063f4fa90d584257df00e48a6c8b10
[W 21:50:42.811 NotebookApp] Notebook Produce_association_test.ipynb is not trusted
[I 21:50:43.840 NotebookApp] Kernel started: 0889f887-70be-4433-9fc9-b0d974c151ec
caught segfault
address 0x18, cause 'memory not mapped'
Traceback:
1: UUIDgenerate()
2: new_reply(msg_type, parent_msg)
3: send_response("status", msg, "iopub", list(execution_state = "busy"))
4: handle_shell()
5: kernel$run()
6: IRkernel::main()
An irrecoverable exception occurred. R is aborting now ...
operating system: macos 10.14.3
conda version: conda 4.6.7
conda info
active environment : base
active env location : /Users/stevenlin/anaconda3
shell level : 1
user config file : /Users/stevenlin/.condarc
populated config files : /Users/stevenlin/.condarc
conda version : 4.6.7
conda-build version : 3.17.8
python version : 3.7.2.final.0
base environment : /Users/stevenlin/anaconda3 (writable)
channel URLs : https://repo.anaconda.com/pkgs/main/osx-64
https://repo.anaconda.com/pkgs/main/noarch
https://repo.anaconda.com/pkgs/free/osx-64
https://repo.anaconda.com/pkgs/free/noarch
https://repo.anaconda.com/pkgs/r/osx-64
https://repo.anaconda.com/pkgs/r/noarch
package cache : /Users/stevenlin/anaconda3/pkgs
/Users/stevenlin/.conda/pkgs
envs directories : /Users/stevenlin/anaconda3/envs
/Users/stevenlin/.conda/envs
platform : osx-64
user-agent : conda/4.6.7 requests/2.21.0 CPython/3.7.2 Darwin/18.2.0 OSX/10.14.3
UID:GID : 501:20
netrc file : None
offline mode : False
Tried:
reinstalling anaconda3, updating all packages. The same error occurs. What is weird is that jupyter notebook for R was working flawlessly for me for many months, but it suddenly stop working recently, and I can not figure out why.
Behavior: Jupyter kernal stuck at: "kernel starting, please wait..." whenever I open a R kernel jupyter notebook.
Error message from the terminal:
operating system: macos 10.14.3
conda version: conda 4.6.7
conda info
conda list --show-channel-urls
Tried: reinstalling anaconda3, updating all packages. The same error occurs. What is weird is that jupyter notebook for R was working flawlessly for me for many months, but it suddenly stop working recently, and I can not figure out why.
Many thanks.